Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 159 of 185
Found at i:48962727 original size:12 final size:12
Alignment explanation
Indices: 48962712--48962741 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
48962702 ATTAATTAAA
48962712 TAAATTGGAAAT
1 TAAATTGGAAAT
48962724 TAAATTGGAAAT
1 TAAATTGGAAAT
48962736 TAAATT
1 TAAATT
48962742 TAGATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (12 bp):
TAAATTGGAAAT
Found at i:48964848 original size:25 final size:25
Alignment explanation
Indices: 48964820--48964868 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
48964810 TAGCTATTAT
* *
48964820 GAGCATCCCGTTATATGGCTCTCAC
1 GAGCATCCCGATATATGACTCTCAC
* *
48964845 GAGCTTCCCGATATTTGACTCTCA
1 GAGCATCCCGATATATGACTCTCA
48964869 TGAGTTTCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.20, C:0.31, G:0.18, T:0.31
Consensus pattern (25 bp):
GAGCATCCCGATATATGACTCTCAC
Found at i:48964940 original size:25 final size:25
Alignment explanation
Indices: 48964912--48964974 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
48964902 CCGTTTATGA
48964912 CTTGTATGAGCTTTCCGATAAT-CAG
1 CTTGTATGAGCTTTCC-ATAATACAG
* *
48964937 CTTGTAAGAGCTTTCCATTATACAG
1 CTTGTATGAGCTTTCCATAATACAG
**
48964962 CTCATATGAGCTT
1 CTTGTATGAGCTT
48964975 CCTGTTACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 4 0.12
25 28 0.88
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (25 bp):
CTTGTATGAGCTTTCCATAATACAG
Found at i:48964989 original size:25 final size:25
Alignment explanation
Indices: 48964957--48965019 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
48964947 CTTTCCATTA
*
48964957 TACA-GCTCATATGAGCTTCCTG-T
1 TACATGCTCGTATGAGCTTCCTGAT
* *
48964980 TACATGGCTCGGAAGAGCTTCCTGAT
1 TACAT-GCTCGTATGAGCTTCCTGAT
48965006 TACATGCTCGTATG
1 TACATGCTCGTATG
48965020 GGCATACCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
23 4 0.12
25 22 0.69
26 6 0.19
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (25 bp):
TACATGCTCGTATGAGCTTCCTGAT
Found at i:48968192 original size:19 final size:20
Alignment explanation
Indices: 48968156--48968198 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
48968146 TTTCTTTGTA
*
48968156 ATAATTTCTTTTAGATA-TT
1 ATAACTTCTTTTAGATATTT
48968175 ATAACTTCTTTTCA-ATATTT
1 ATAACTTCTTTT-AGATATTT
48968195 ATAA
1 ATAA
48968199 ATAAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAACTTCTTTTAGATATTT
Found at i:48970817 original size:12 final size:12
Alignment explanation
Indices: 48970800--48970829 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48970790 CGTCCACTTT
48970800 ATCATCATCAAC
1 ATCATCATCAAC
*
48970812 ATCATCATCACC
1 ATCATCATCAAC
48970824 ATCATC
1 ATCATC
48970830 CTCGATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.27
Consensus pattern (12 bp):
ATCATCATCAAC
Found at i:48972146 original size:3 final size:3
Alignment explanation
Indices: 48972138--48972162 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48972128 CTCCAGTTTT
48972138 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
48972163 CTTTTAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:48983278 original size:17 final size:18
Alignment explanation
Indices: 48983239--48983288 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 18
48983229 CATTATTGAA
48983239 ATTGAAATGGCAAATGAT
1 ATTGAAATGGCAAATGAT
* * *
48983257 GTTGAAGTGG-AAATGCT
1 ATTGAAATGGCAAATGAT
*
48983274 ATTGAAATAGCAAAT
1 ATTGAAATGGCAAAT
48983289 AGCATGAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.28
Consensus pattern (18 bp):
ATTGAAATGGCAAATGAT
Found at i:48984875 original size:20 final size:20
Alignment explanation
Indices: 48984850--48984892 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
48984840 AAAACTTACA
48984850 CTTGTTGATAAAACTCGTTT
1 CTTGTTGATAAAACTCGTTT
48984870 CTTGTTGATAAAACTCGTTT
1 CTTGTTGATAAAACTCGTTT
48984890 CTT
1 CTT
48984893 AATTTTGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (20 bp):
CTTGTTGATAAAACTCGTTT
Found at i:48985592 original size:25 final size:26
Alignment explanation
Indices: 48985564--48985613 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
48985554 GTAATATTGA
*
48985564 CGCAGCGAA-GCTG-CAGTAACAGTAG
1 CGCAGC-AAGGCTGCCAATAACAGTAG
48985589 CGCAGCAAGGCTGCCAATAACAGTA
1 CGCAGCAAGGCTGCCAATAACAGTA
48985614 TATATGGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 2 0.09
25 10 0.45
26 10 0.45
ACGTcount: A:0.34, C:0.26, G:0.28, T:0.12
Consensus pattern (26 bp):
CGCAGCAAGGCTGCCAATAACAGTAG
Found at i:48985807 original size:27 final size:27
Alignment explanation
Indices: 48985777--48986221 Score: 216
Period size: 27 Copynumber: 16.4 Consensus size: 27
48985767 TCAACTCCTA
** *
48985777 GGGGTATAACAGTTATTTTACCATTCG
1 GGGGTATTTCAGTAATTTTACCATTCG
*
48985804 GGGGTATTTCGGTAATTTTATCC-TTCG
1 GGGGTATTTCAGTAATTTTA-CCATTCG
*
48985831 GGGGTATTTTAGTAATTTTACCATTCG
1 GGGGTATTTCAGTAATTTTACCATTCG
** * * *
48985858 AAGGTATTTCGGTAATTTTACCCTTTG
1 GGGGTATTTCAGTAATTTTACCATTCG
* *
48985885 GGGGTATTTC-GATAATTTTACCTTTCA
1 GGGGTATTTCAG-TAATTTTACCATTCG
*
48985912 GGGGTATTTC-GATAATTTTACCCTTCG
1 GGGGTATTTCAG-TAATTTTACCATTCG
** ** *
48985939 AAGGTATTTTGGTAAATTTACC---CG
1 GGGGTATTTCAGTAATTTTACCATTCG
* * * *
48985963 AGAGTATTTCGGTAATTTTACCCTTCGAG
1 GGGGTATTTCAGTAATTTTACCATTC--G
*
48985992 GGTATTGGTATTTC-GATTATTTTACTC-TTCG
1 GG----GGTATTTCAG-TAATTTTAC-CATTCG
* * *
48986023 AGGGTATTTC-GATCATTTTACCCTTCG
1 GGGGTATTTCAG-TAATTTTACCATTCG
* * *
48986050 AGTGTATTTC-GATCATTTTATCC-TTCG
1 GGGGTATTTCAG-TAATTTTA-CCATTCG
* ** * * *
48986077 AGGGTATTTTGGTTATTTTACCCTTTG
1 GGGGTATTTCAGTAATTTTACCATTCG
* * *
48986104 AGGGTATTTC-GATCATTTTACCTTTCG
1 GGGGTATTTCAG-TAATTTTACCATTCG
* * *
48986131 GGGGTATTTCAGTTATTTTACCTTTTG
1 GGGGTATTTCAGTAATTTTACCATTCG
* * *
48986158 AGGGTATTTC-GATCATTTTACCCTATCG
1 GGGGTATTTCAG-TAATTTTACCAT-TCG
* * *
48986186 GGGGTATTTCAGTTATTTTACCCTAC-
1 GGGGTATTTCAGTAATTTTACCATTCG
48986212 GGGGTATTTC
1 GGGGTATTTC
48986222 GATCATTTGC
Statistics
Matches: 343, Mismatches: 51, Indels: 49
0.77 0.12 0.11
Matches are distributed among these distances:
24 20 0.06
26 18 0.05
27 251 0.73
28 29 0.08
29 3 0.01
31 2 0.01
32 1 0.00
33 18 0.05
34 1 0.00
ACGTcount: A:0.20, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
GGGGTATTTCAGTAATTTTACCATTCG
Found at i:48985916 original size:81 final size:81
Alignment explanation
Indices: 48985791--48986229 Score: 385
Period size: 81 Copynumber: 5.4 Consensus size: 81
48985781 TATAACAGTT
* * * * *
48985791 ATTTTACCATTCGGGGGTATTTCGGTAATTTTATCCTTCGGGGGTATTTTAG-TAATTTTACCAT
1 ATTTTACCCTTCGGGGGTATTTCGATAATTTTA-CCTTCGAGGGTATTTTCGATAATTTTACCCT
*
48985855 TCGAAGGTATTTCGGTA
65 TCGAGGGTATTTCGGTA
*
48985872 ATTTTACCCTTTGGGGGTATTTCGATAATTTTACCTTTC-AGGGGTA-TTTCGATAATTTTACCC
1 ATTTTACCCTTCGGGGGTATTTCGATAATTTTACC-TTCGA-GGGTATTTTCGATAATTTTACCC
* *
48985935 TTCGAAGGTATTTTGGTA
64 TTCGAGGGTATTTCGGTA
* * * * *
48985953 AATTTA-CC--CGAGAGTATTTCGGTAATTTTACCCTTCGAGGGTATTGGTATTTCGATTATTTT
1 ATTTTACCCTTCGGGGGTATTTCGATAATTTTA-CCTTCGAGGGTA----T-TTTCGATAATTTT
* * *
48986015 ACTCTTCGAGGGTATTTCGATC
60 ACCCTTCGAGGGTATTTCGGTA
* * * * *
48986037 ATTTTACCCTTCGAGTGTATTTCGATCATTTTATCCTTCGAGGGTATTTT-GGTTATTTTACCCT
1 ATTTTACCCTTCGGGGGTATTTCGATAATTTTA-CCTTCGAGGGTATTTTCGATAATTTTACCCT
* * *
48986101 TTGAGGGTATTTCGATC
65 TCGAGGGTATTTCGGTA
* * * *
48986118 ATTTTACCTTTCGGGGGTATTTC-AGTTATTTTACCTTTTGAGGGTA-TTTCGATCATTTTACCC
1 ATTTTACCCTTCGGGGGTATTTCGA-TAATTTTACC-TTCGAGGGTATTTTCGATAATTTTACCC
* * *
48986181 TATCGGGGGTATTTCAGTT
64 T-TCGAGGGTATTTCGGTA
* *
48986200 ATTTTACCCTAC-GGGGTATTTCGATCATTT
1 ATTTTACCCTTCGGGGGTATTTCGATAATTT
48986230 GCCCATAACT
Statistics
Matches: 298, Mismatches: 41, Indels: 38
0.79 0.11 0.10
Matches are distributed among these distances:
78 26 0.09
79 3 0.01
80 14 0.05
81 161 0.54
82 26 0.09
83 1 0.00
84 34 0.11
85 2 0.01
87 31 0.10
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (81 bp):
ATTTTACCCTTCGGGGGTATTTCGATAATTTTACCTTCGAGGGTATTTTCGATAATTTTACCCTT
CGAGGGTATTTCGGTA
Found at i:48986003 original size:33 final size:33
Alignment explanation
Indices: 48985966--48986030 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
48985956 TTACCCGAGA
*
48985966 GTATTTCGGTAATTTTACCCTTCGAGGGTATTG
1 GTATTTCGATAATTTTACCCTTCGAGGGTATTG
* *
48985999 GTATTTCGATTATTTTACTCTTCGAGGGTATT
1 GTATTTCGATAATTTTACCCTTCGAGGGTATT
48986031 TCGATCATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.18, C:0.14, G:0.22, T:0.46
Consensus pattern (33 bp):
GTATTTCGATAATTTTACCCTTCGAGGGTATTG
Found at i:48986029 original size:84 final size:86
Alignment explanation
Indices: 48985843--48986084 Score: 248
Period size: 84 Copynumber: 2.9 Consensus size: 86
48985833 GGTATTTTAG
* * * * * * *
48985843 TAATTTTACCATTCGAAGGTATTTCGGTAATTTTACCCTTTGGGGGTATTTCGATAATTTTACCT
1 TAATTTTACCCTTCGAAGGTATTTCGATAAATTTACCC-TCGAGAGTATTTCGATAATTTTACCC
48985908 TTC-A-GG----GGTATTTCGA
65 TTCGAGGGTATTGGTATTTCGA
* * *
48985924 TAATTTTACCCTTCGAAGGTATTTTGGTAAATTTA-CC-CGAGAGTATTTCGGTAATTTTACCCT
1 TAATTTTACCCTTCGAAGGTATTTCGATAAATTTACCCTCGAGAGTATTTCGATAATTTTACCCT
48985987 TCGAGGGTATTGGTATTTCGA
66 TCGAGGGTATTGGTATTTCGA
* * * * * * * *
48986008 TTATTTTACTCTTCGAGGGTATTTCGATCATTTTACCCTTCGAGTGTATTTCGATCATTTTATCC
1 TAATTTTACCCTTCGAAGGTATTTCGATAAATTTACCC-TCGAGAGTATTTCGATAATTTTACCC
48986073 TTCGAGGGTATT
65 TTCGAGGGTATT
48986085 TTGGTTATTT
Statistics
Matches: 133, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
78 23 0.17
79 1 0.01
80 4 0.03
81 32 0.24
84 38 0.29
85 2 0.02
87 33 0.25
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.43
Consensus pattern (86 bp):
TAATTTTACCCTTCGAAGGTATTTCGATAAATTTACCCTCGAGAGTATTTCGATAATTTTACCCT
TCGAGGGTATTGGTATTTCGA
Found at i:48986221 original size:54 final size:54
Alignment explanation
Indices: 48985791--48986229 Score: 372
Period size: 54 Copynumber: 8.1 Consensus size: 54
48985781 TATAACAGTT
* * * * * * * *
48985791 ATTTTACCATTCGGGGGTATTTCGGTAATTTTATCCTTCGGGGGTATTT-TAGTA
1 ATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGA-TC
* * * * * * *
48985845 ATTTTACCATTCGAAGGTATTTCGGTAATTTTACCCTTTGGGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGATC
* * * * * *
48985899 ATTTTACCTTTC-AGGGGTATTTC-GATAATTTTACCCTTCGAAGGTATTTTGGTA
1 ATTTTACCCTTCGA-GGGTATTTCAG-TTATTTTACCCTTCGAGGGTATTTCGATC
* * * * *
48985953 AATTTA-CC--CGAGAGTATTTCGGTAATTTTACCCTTCGAGGGTATTGGTATTTCGATT
1 ATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGA--G----GGTATTTCGATC
* * *
48986010 ATTTTACTCTTCGAGGGTATTTC-GATCATTTTACCCTTCGAGTGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCAG-TTATTTTACCCTTCGAGGGTATTTCGATC
* ** *
48986064 ATTTTATCCTTCGAGGGTATTTTGGTTATTTTACCCTTTGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGATC
* * * *
48986118 ATTTTACCTTTCGGGGGTATTTCAGTTATTTTACCTTTTGAGGGTATTTCGATC
1 ATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGATC
* *
48986172 ATTTTACCCTATCGGGGGTATTTCAGTTATTTTACCCTACG-GGGTATTTCGATC
1 ATTTTACCCT-TCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGATC
48986226 ATTT
1 ATTT
48986230 GCCCATAACT
Statistics
Matches: 327, Mismatches: 41, Indels: 34
0.81 0.10 0.08
Matches are distributed among these distances:
51 25 0.08
52 2 0.01
53 3 0.01
54 225 0.69
55 29 0.09
57 14 0.04
58 2 0.01
59 1 0.00
60 26 0.08
ACGTcount: A:0.20, C:0.16, G:0.20, T:0.44
Consensus pattern (54 bp):
ATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGATC
Found at i:48990618 original size:15 final size:15
Alignment explanation
Indices: 48990588--48990617 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
48990578 AGAAAATAAC
48990588 AGAAAAGTAATAAAA
1 AGAAAAGTAATAAAA
48990603 AGAAAA-TAATAAAA
1 AGAAAAGTAATAAAA
48990617 A
1 A
48990618 ACTTGATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (15 bp):
AGAAAAGTAATAAAA
Found at i:48995018 original size:16 final size:16
Alignment explanation
Indices: 48994997--48995027 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
48994987 ATCGAGTTAA
48994997 GAAAATTAATTAATTG
1 GAAAATTAATTAATTG
48995013 GAAAATTAATTAATT
1 GAAAATTAATTAATT
48995028 AATTAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:48995025 original size:20 final size:18
Alignment explanation
Indices: 48995000--48995041 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
48994990 GAGTTAAGAA
48995000 AATTAATTAATTGGAAAATT
1 AATTAATTAATT--AAAATT
48995020 AATTAATTAATTAAAATT
1 AATTAATTAATTAAAATT
48995038 AATT
1 AATT
48995042 TATAATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 10 0.45
20 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
AATTAATTAATTAAAATT
Found at i:49003851 original size:18 final size:19
Alignment explanation
Indices: 49003818--49003854 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
49003808 GGATTTTTAT
49003818 AAATATTGAGTTTTAAAAA
1 AAATATTGAGTTTTAAAAA
*
49003837 AAATATT-ATTTTTAAAAA
1 AAATATTGAGTTTTAAAAA
49003855 TTTGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
AAATATTGAGTTTTAAAAA
Found at i:49007834 original size:11 final size:10
Alignment explanation
Indices: 49007816--49007862 Score: 51
Period size: 11 Copynumber: 4.5 Consensus size: 10
49007806 GAGATTGAAC
49007816 TGAG-AGAAT
1 TGAGAAGAAT
49007825 TGAGTAAGAAT
1 TGAG-AAGAAT
*
49007836 TGAGAGAGGAT
1 TGAGA-AGAAT
49007847 TGAGAATGAAT
1 TGAGAA-GAAT
49007858 TGAGA
1 TGAGA
49007863 GAGAGTTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 4 0.12
10 2 0.06
11 26 0.81
ACGTcount: A:0.43, C:0.00, G:0.34, T:0.23
Consensus pattern (10 bp):
TGAGAAGAAT
Found at i:49007839 original size:20 final size:21
Alignment explanation
Indices: 49007805--49007882 Score: 79
Period size: 22 Copynumber: 3.7 Consensus size: 21
49007795 TAATAAAAAA
* *
49007805 TGAGATTGAACTGAGAGA-AT
1 TGAGAATGAATTGAGAGAGAT
49007825 TGAGTAA-GAATTGAGAGAGGAT
1 TGAG-AATGAATTGAGAGA-GAT
49007847 TGAGAATGAATTGAGAGAGAGT
1 TGAGAATGAATTGAGAGAGA-T
* *
49007869 TGTGAGTGAATTGA
1 TGAGAATGAATTGA
49007883 AAAAGTGGGA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
20 14 0.29
21 5 0.10
22 30 0.61
ACGTcount: A:0.38, C:0.01, G:0.35, T:0.26
Consensus pattern (21 bp):
TGAGAATGAATTGAGAGAGAT
Found at i:49007848 original size:22 final size:22
Alignment explanation
Indices: 49007817--49007882 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
49007807 AGATTGAACT
49007817 GAGAGAATTGAGTAA-GAATTGA
1 GAGAGAATTGAG-AATGAATTGA
*
49007839 GAGAGGATTGAGAATGAATTGA
1 GAGAGAATTGAGAATGAATTGA
* * *
49007861 GAGAGAGTTGTGAGTGAATTGA
1 GAGAGAATTGAGAATGAATTGA
49007883 AAAAGTGGGA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 2 0.05
22 36 0.95
ACGTcount: A:0.39, C:0.00, G:0.36, T:0.24
Consensus pattern (22 bp):
GAGAGAATTGAGAATGAATTGA
Found at i:49014876 original size:15 final size:15
Alignment explanation
Indices: 49014856--49014888 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
49014846 TCGAAATAGT
49014856 TGATAATTGCTTAAA
1 TGATAATTGCTTAAA
49014871 TGATAATTGCTTAAA
1 TGATAATTGCTTAAA
49014886 TGA
1 TGA
49014889 AACTATGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.15, T:0.39
Consensus pattern (15 bp):
TGATAATTGCTTAAA
Found at i:49015437 original size:18 final size:18
Alignment explanation
Indices: 49015410--49015450 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
49015400 GATTGGGAAA
*
49015410 AGGA-ACATATAAGGGTT
1 AGGATACATATAAGGGCT
49015427 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
49015445 AGGATA
1 AGGATA
49015451 TGCACCTGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.41, C:0.07, G:0.29, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:49017230 original size:32 final size:32
Alignment explanation
Indices: 49017194--49017254 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
49017184 ATTTAATTAA
*
49017194 AGAGA-ATTTTGAGAAATTTAGGGAGAAATTTG
1 AGAGATATTTTGAGAAATTT-GGAAGAAATTTG
*
49017226 AGAGATTTTTTGAGAAATTTGGAAGAAAT
1 AGAGATATTTTGAGAAATTTGGAAGAAAT
49017255 GTTGTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (32 bp):
AGAGATATTTTGAGAAATTTGGAAGAAATTTG
Found at i:49022581 original size:17 final size:17
Alignment explanation
Indices: 49022531--49022588 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
49022521 GGGAGAGAAG
*
49022531 TAAAAGTTTAGGAGGAAAA
1 TAAAAGTTT--GAGGGAAA
*
49022550 TAAAAAGTTT-TGGGAAA
1 T-AAAAGTTTGAGGGAAA
49022567 TAAAAGTTTGAGGGAAA
1 TAAAAGTTTGAGGGAAA
49022584 GTAAA
1 -TAAA
49022589 TAGGGGGAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 8 0.24
17 12 0.36
18 4 0.12
19 1 0.03
20 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (17 bp):
TAAAAGTTTGAGGGAAA
Found at i:49029081 original size:9 final size:9
Alignment explanation
Indices: 49029051--49029098 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
49029041 CTTTTTCCAA
49029051 AAATAAAAAT
1 AAAT-AAAAT
49029061 ACAATAAAAT
1 A-AATAAAAT
*
49029071 AAATAACAT
1 AAATAAAAT
49029080 AAATAAATAT
1 AAATAAA-AT
*
49029090 ATATAAAAT
1 AAATAAAAT
49029099 TAAAAACAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
9 15 0.45
10 15 0.45
11 3 0.09
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (9 bp):
AAATAAAAT
Found at i:49036429 original size:25 final size:25
Alignment explanation
Indices: 49036395--49036478 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
49036385 TTCAACTCTT
*
49036395 ATGAGCTTCCTGA-TACTCAGCTCGC
1 ATGAGCTTCC-CATTACTCAGCTCGC
**
49036420 ATGAGCTTCCCATTGTTCAGCTCGC
1 ATGAGCTTCCCATTACTCAGCTCGC
* ** *
49036445 ATGAGCTTTCCATTGTTCAGCTCAC
1 ATGAGCTTCCCATTACTCAGCTCGC
49036470 ATGAGCTTC
1 ATGAGCTTC
49036479 TTGTTATTCA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
24 1 0.02
25 51 0.98
ACGTcount: A:0.19, C:0.30, G:0.19, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCATTACTCAGCTCGC
Found at i:49036488 original size:25 final size:25
Alignment explanation
Indices: 49036411--49036502 Score: 103
Period size: 25 Copynumber: 3.7 Consensus size: 25
49036401 TTCCTGATAC
*
49036411 TCAGCTCGCATGAGCTTCCCATTGT
1 TCAGCTCGCATGAGCTTCCCATTAT
* *
49036436 TCAGCTCGCATGAGCTTTCCATTGT
1 TCAGCTCGCATGAGCTTCCCATTAT
* ***
49036461 TCAGCTCACATGAGCTTCTTGTTAT
1 TCAGCTCGCATGAGCTTCCCATTAT
* *
49036486 TCAGCTCGGAGGAGCTT
1 TCAGCTCGCATGAGCTT
49036503 ACTGTGTATA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.34
Consensus pattern (25 bp):
TCAGCTCGCATGAGCTTCCCATTAT
Found at i:49037827 original size:25 final size:25
Alignment explanation
Indices: 49037799--49037848 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
49037789 ATATGGTTTT
49037799 TATATTAT-TTATAAATGTTATAATA
1 TATATTATATTAT-AATGTTATAATA
49037824 TATATTATATTATAATGTTATAATA
1 TATATTATATTATAATGTTATAATA
49037849 AAACAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
TATATTATATTATAATGTTATAATA
Found at i:49038864 original size:43 final size:43
Alignment explanation
Indices: 49038735--49038868 Score: 146
Period size: 43 Copynumber: 3.1 Consensus size: 43
49038725 ATAGGATTCC
* *
49038735 GATATGTGTTTTCATGTAAGACCACATCTGGGACGTTGGCATC
1 GATATGTGTTTACATGTAAGACCACATCTGGGACGTTGGCATT
*** ** *
49038778 GACT-TGTGTTTACATGTAAGACCTTTTCTGGGACAATGACATT
1 GA-TATGTGTTTACATGTAAGACCACATCTGGGACGTTGGCATT
* * *
49038821 GATATGTGATTACATGTAAGACCACGTCCGGGACGTTGGCATT
1 GATATGTGTTTACATGTAAGACCACATCTGGGACGTTGGCATT
49038864 G-TATG
1 GATATG
49038869 AGCCTTCCGA
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
42 5 0.07
43 67 0.92
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
GATATGTGTTTACATGTAAGACCACATCTGGGACGTTGGCATT
Found at i:49053732 original size:16 final size:16
Alignment explanation
Indices: 49053706--49053748 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
49053696 TGTACTTGGC
*
49053706 ATTTATATATATTTA-
1 ATTTTTATATATTTAT
49053721 ATTTTTTATATATTTAT
1 A-TTTTTATATATTTAT
49053738 ATTTTTATATA
1 ATTTTTATATA
49053749 AACAAATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTTTATATATTTAT
Found at i:49054511 original size:53 final size:53
Alignment explanation
Indices: 49054446--49054554 Score: 166
Period size: 53 Copynumber: 2.1 Consensus size: 53
49054436 TCATAAATGT
* *
49054446 AAATATGAATATTTTATAGTACAACCTGCTATAGTAGATGTTTGACTGTATCA
1 AAATATGAATATTTTATAGTACAACCTGCTACAGTAGATGTTTGACTGTACCA
* *
49054499 AAATAT-AGATATTTTATAGTACAACTTGTTACAGTAGATGTTTGACTGTACCA
1 AAATATGA-ATATTTTATAGTACAACCTGCTACAGTAGATGTTTGACTGTACCA
49054552 AAA
1 AAA
49054555 AATTAATTCA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.02
53 50 0.98
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (53 bp):
AAATATGAATATTTTATAGTACAACCTGCTACAGTAGATGTTTGACTGTACCA
Found at i:49055298 original size:33 final size:33
Alignment explanation
Indices: 49055240--49055302 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
49055230 AGACTTTATC
* *
49055240 TTCTGTGTTTACTATCCTAACGGACTATCTTTG
1 TTCTGTGTTTACTACCCCAACGGACTATCTTTG
* *
49055273 TTCTGTGTTTACTGCCCCAATGGACTATCT
1 TTCTGTGTTTACTACCCCAACGGACTATCT
49055303 CTGTGGATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.17, C:0.24, G:0.16, T:0.43
Consensus pattern (33 bp):
TTCTGTGTTTACTACCCCAACGGACTATCTTTG
Found at i:49062264 original size:20 final size:20
Alignment explanation
Indices: 49062210--49062265 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
49062200 AATCTCATTT
* **
49062210 TAAAATTATTGATACTTTTA
1 TAAAAATATTGATACTCATA
**
49062230 TAAAAATATCAATACTCATA
1 TAAAAATATTGATACTCATA
49062250 TAAAAATATTGATACT
1 TAAAAATATTGATACT
49062266 TACTGGGTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (20 bp):
TAAAAATATTGATACTCATA
Found at i:49067016 original size:27 final size:27
Alignment explanation
Indices: 49066985--49067040 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
49066975 ATTATTGTTT
49066985 ATTAGTGCTTAATTGACAAACAATTCA
1 ATTAGTGCTTAATTGACAAACAATTCA
49067012 ATTAGTGCTTAATTGACAAACAATTCA
1 ATTAGTGCTTAATTGACAAACAATTCA
49067039 AT
1 AT
49067041 CTTGTAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (27 bp):
ATTAGTGCTTAATTGACAAACAATTCA
Found at i:49078291 original size:7 final size:7
Alignment explanation
Indices: 49078279--49078307 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
49078269 ATTAATGAAT
49078279 ATTGCTA
1 ATTGCTA
49078286 ATTGCTA
1 ATTGCTA
49078293 ATTGCTA
1 ATTGCTA
49078300 ATTGCTA
1 ATTGCTA
49078307 A
1 A
49078308 ACATGGAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (7 bp):
ATTGCTA
Found at i:49086728 original size:59 final size:58
Alignment explanation
Indices: 49086548--49086831 Score: 150
Period size: 59 Copynumber: 4.7 Consensus size: 58
49086538 ATGATAAATT
* ** * *
49086548 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
49086607 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAGTATC
49086668 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGTATC
* * ** * * * *
49086727 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATT-T-TATTATA-AAT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATATTTTATAGTAT
*
49086789 T
58 C
*
49086790 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAA
49086832 ATATGATTAA
Statistics
Matches: 167, Mismatches: 37, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
56 12 0.07
57 6 0.04
58 13 0.08
59 39 0.23
60 11 0.07
61 30 0.18
62 15 0.09
63 12 0.07
64 7 0.04
65 6 0.04
66 16 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGTATC
Found at i:49086755 original size:120 final size:122
Alignment explanation
Indices: 49086541--49086831 Score: 462
Period size: 120 Copynumber: 2.4 Consensus size: 122
49086531 TAGTATGATG
* **
49086541 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
49086606 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
49086662 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
* *
49086725 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
49086783 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
49086832 ATATGATTAA
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
119 2 0.01
120 106 0.69
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:49086810 original size:18 final size:19
Alignment explanation
Indices: 49086775--49086811 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
49086765 ATTATTAAGA
49086775 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
49086794 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
49086812 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:49087041 original size:44 final size:45
Alignment explanation
Indices: 49086976--49087066 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
49086966 ACCTCTATTC
* * *
49086976 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
49087020 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
49087065 CA
1 CA
49087067 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:49087068 original size:16 final size:16
Alignment explanation
Indices: 49087047--49087115 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
49087037 GATTAGCTAT
49087047 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49087063 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
49087080 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49087096 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49087112 TACA
1 TACA
49087116 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:49087089 original size:33 final size:32
Alignment explanation
Indices: 49087047--49087115 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
49087037 GATTAGCTAT
49087047 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
49087080 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
49087112 TACA
1 TACA
49087116 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:49087991 original size:17 final size:17
Alignment explanation
Indices: 49087938--49087998 Score: 52
Period size: 17 Copynumber: 3.4 Consensus size: 17
49087928 TCATGCTAAT
*
49087938 ATTTATTATTTTTATGAA
1 ATTT-TTATTTTTATTAA
*
49087956 TTTTTTATATTATCT-TTAA
1 ATTTTTAT-TT-T-TATTAA
49087975 ATTTTTATTTTTATTAA
1 ATTTTTATTTTTATTAA
49087992 ATATTTT
1 AT-TTTT
49087999 TATAATCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
16 1 0.03
17 11 0.31
18 11 0.31
19 11 0.31
20 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTTTTATTTTTATTAA
Found at i:49087997 original size:19 final size:19
Alignment explanation
Indices: 49087935--49088001 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 19
49087925 AATTCATGCT
*
49087935 AATATTTATTATTTTTA-TG
1 AATATTT-TTATTTTTATTA
* * *
49087954 AAT-TTTTTATATTATCTTT
1 AATATTTTTAT-TTTTATTA
49087973 AA-ATTTTTATTTTTATTA
1 AATATTTTTATTTTTATTA
49087991 AATATTTTTAT
1 AATATTTTTAT
49088002 AATCTTTTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
17 4 0.11
18 13 0.34
19 21 0.55
ACGTcount: A:0.31, C:0.01, G:0.01, T:0.66
Consensus pattern (19 bp):
AATATTTTTATTTTTATTA
Found at i:49088007 original size:36 final size:37
Alignment explanation
Indices: 49087938--49088021 Score: 97
Period size: 36 Copynumber: 2.3 Consensus size: 37
49087928 TCATGCTAAT
*
49087938 ATTTATTATTTTTATGAATTTTTTATATTATC-TTTAA
1 ATTTATTATTTTTATAAATTTTTTATA-TATCTTTTAA
49087975 ATTT-TTATTTTTATTAAATATTTTTATA-ATCTTTTAA
1 ATTTATTATTTTTA-TAAAT-TTTTTATATATCTTTTAA
49088012 A-TTATT-TTTT
1 ATTTATTATTTT
49088022 GACATGACAT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
36 18 0.43
37 16 0.38
38 8 0.19
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (37 bp):
ATTTATTATTTTTATAAATTTTTTATATATCTTTTAA
Found at i:49104236 original size:30 final size:31
Alignment explanation
Indices: 49104180--49104237 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
49104170 AAATATTGTT
* **
49104180 TTTTAATTTTTAAAGGGTCGAAAAAATTTTC
1 TTTTAATTTTTAAAGAGTAAAAAAAATTTTC
49104211 TTTTAATTTTTAAA-AGTAAAAAAAATT
1 TTTTAATTTTTAAAGAGTAAAAAAAATT
49104238 ATCAACTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 10 0.42
31 14 0.58
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (31 bp):
TTTTAATTTTTAAAGAGTAAAAAAAATTTTC
Found at i:49104725 original size:3 final size:3
Alignment explanation
Indices: 49104717--49104742 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49104707 TTGATAGGAT
49104717 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
49104743 CTACACGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:49107941 original size:44 final size:45
Alignment explanation
Indices: 49107788--49107957 Score: 333
Period size: 45 Copynumber: 3.8 Consensus size: 45
49107778 TTTGAAAACC
49107788 TTAAAATGAGCTCATATTGTGGGTGACCTCGTCTTATTCTAAGCT
1 TTAAAATGAGCTCATATTGTGGGTGACCTCGTCTTATTCTAAGCT
49107833 TTAAAATGAGCTCATATTGTGGGTGACCTCGTCTTATTCTAAGCT
1 TTAAAATGAGCTCATATTGTGGGTGACCTCGTCTTATTCTAAGCT
49107878 TTAAAATGAGCTCATATTGTGGGTGACCTCGTCTTATTCTAAGC-
1 TTAAAATGAGCTCATATTGTGGGTGACCTCGTCTTATTCTAAGCT
49107922 TTAAAATGAGCTCATATTGTGGGTGACCTCGTCTTA
1 TTAAAATGAGCTCATATTGTGGGTGACCTCGTCTTA
49107958 GATTTGCAAT
Statistics
Matches: 125, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
44 36 0.29
45 89 0.71
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.37
Consensus pattern (45 bp):
TTAAAATGAGCTCATATTGTGGGTGACCTCGTCTTATTCTAAGCT
Found at i:49116864 original size:32 final size:31
Alignment explanation
Indices: 49116801--49116869 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
49116791 TTGATTAATC
*
49116801 TTAGTCCTTGTATTTTTCGAGTTGGTCAATT
1 TTAGTCCTTGTATTTTTCGAGTTGGTAAATT
* *
49116832 TTAGTCCTTTTTATTTTTCGAGTT-TTGAAATT
1 TTAGTCC-TTGTATTTTTCGAGTTGGT-AAATT
49116864 TTAGTC
1 TTAGTC
49116870 TTGATCCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 8 0.24
32 25 0.76
ACGTcount: A:0.17, C:0.12, G:0.16, T:0.55
Consensus pattern (31 bp):
TTAGTCCTTGTATTTTTCGAGTTGGTAAATT
Found at i:49119372 original size:46 final size:46
Alignment explanation
Indices: 49119305--49119443 Score: 224
Period size: 46 Copynumber: 3.0 Consensus size: 46
49119295 ACATTGCTAT
49119305 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * *
49119351 AACTCAGTATGGTTTTCTTCACTGAAACATCATACATGCTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
* * *
49119397 AACTTAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
49119443 A
1 A
49119444 CTTCTCCATC
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:49120647 original size:16 final size:17
Alignment explanation
Indices: 49120601--49120648 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
49120591 AAATTCTTTT
49120601 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
49120618 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
49120635 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
49120649 TTCTAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:49123188 original size:31 final size:32
Alignment explanation
Indices: 49123143--49123202 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
49123133 TCATTTAGAC
*
49123143 TCTTTTTCAAAAGGTTGATGATCAAATTTAAT
1 TCTTTTTCAAAAGGTTGAAGATCAAATTTAAT
*
49123175 TCTTTTT-AAAAGGTTGAAGGTCAAATTT
1 TCTTTTTCAAAAGGTTGAAGATCAAATTT
49123203 GACTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (32 bp):
TCTTTTTCAAAAGGTTGAAGATCAAATTTAAT
Found at i:49124354 original size:22 final size:22
Alignment explanation
Indices: 49124329--49124371 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
49124319 TATCCAAATA
49124329 ATAATAACAAAATAGTAGCAAC
1 ATAATAACAAAATAGTAGCAAC
***
49124351 ATAATAGTGAAATAGTAGCAA
1 ATAATAACAAAATAGTAGCAA
49124372 AATAGTGAAA
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:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (22 bp):
ATAATAACAAAATAGTAGCAAC
Found at i:49124989 original size:5 final size:5
Alignment explanation
Indices: 49124969--49125016 Score: 71
Period size: 5 Copynumber: 9.6 Consensus size: 5
49124959 GAAAAATTAA
*
49124969 TATAT GTATTT TATAT TATAT TATAT TATAT TATAT TATAT TA-AT TAT
1 TATAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
49125017 TATAAGAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
4 4 0.10
5 31 0.79
6 4 0.10
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:49135179 original size:31 final size:32
Alignment explanation
Indices: 49135143--49135211 Score: 90
Period size: 30 Copynumber: 2.2 Consensus size: 32
49135133 TAACGATGTT
* *
49135143 TATAAATGA-ACTTAAATTTTTAAATTTAAAAA
1 TATAAATGAGAC-TAAATTCTTAAAATTAAAAA
49135175 -ATAAA-GAGACTAAATTCTTAAAATTAAAAA
1 TATAAATGAGACTAAATTCTTAAAATTAAAAA
49135205 TATAAAT
1 TATAAAT
49135212 ATTAAATTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 20 0.62
31 12 0.38
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (32 bp):
TATAAATGAGACTAAATTCTTAAAATTAAAAA
Found at i:49143265 original size:17 final size:18
Alignment explanation
Indices: 49143243--49143281 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
49143233 TATTTATTTT
49143243 AAATAAAAATA-AAAATC
1 AAATAAAAATACAAAATC
49143260 AAATAAAAATACAAAATC
1 AAATAAAAATACAAAATC
49143278 AAAT
1 AAAT
49143282 TCGCATATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (18 bp):
AAATAAAAATACAAAATC
Found at i:49144698 original size:22 final size:21
Alignment explanation
Indices: 49144673--49144716 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
49144663 TATTTTTATG
49144673 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TAT-AAAATATA
49144695 TAAATATTAATATAAAATATA
1 TAAATATTAATATAAAATATA
49144716 T
1 T
49144717 TTTTATCATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.43
22 8 0.38
23 4 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:49163972 original size:16 final size:14
Alignment explanation
Indices: 49163937--49163975 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
49163927 AAAAATACAC
49163937 ATTTTATTTATTTA
1 ATTTTATTTATTTA
*
49163951 ATTTTATCTTATTTTT
1 ATTTTAT-TTA-TTTA
49163967 ATTTTATTT
1 ATTTTATTT
49163976 CGCAGGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 7 0.32
15 5 0.23
16 10 0.45
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTATTTATTTA
Found at i:49167645 original size:20 final size:20
Alignment explanation
Indices: 49167622--49167675 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
49167612 TAATTTGTCT
*
49167622 TGTCTTAATTAAATTAAATG
1 TGTCTTAATTAAATTAAATA
* ** *
49167642 TGTCTTGATTTTATTAAGTA
1 TGTCTTAATTAAATTAAATA
49167662 TGTCTTAAATTAAA
1 TGTCTT-AATTAAA
49167676 ACATGAATTA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.35, C:0.06, G:0.11, T:0.48
Consensus pattern (20 bp):
TGTCTTAATTAAATTAAATA
Found at i:49177044 original size:9 final size:10
Alignment explanation
Indices: 49177022--49177056 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
49177012 AGAAATCATC
49177022 AAATTTTAAA
1 AAATTTTAAA
49177032 AAATTTTAAA
1 AAATTTTAAA
* *
49177042 AATTTTTTAA
1 AAATTTTAAA
49177052 AAATT
1 AAATT
49177057 ATTCATGTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
AAATTTTAAA
Found at i:49179271 original size:6 final size:6
Alignment explanation
Indices: 49179260--49179285 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
49179250 CAATATCTCC
49179260 AAAGCA AAAGCA AAAGCA AAAGCA AA
1 AAAGCA AAAGCA AAAGCA AAAGCA AA
49179286 CACACACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.15, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGCA
Found at i:49183251 original size:3 final size:3
Alignment explanation
Indices: 49183237--49183300 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
49183227 TCGTTGCTAC
* * *
49183237 TAT TACT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT AAT TGT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
49183283 AAT TAT AAT T-T TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
49183301 TATCATTACT
Statistics
Matches: 49, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
2 2 0.04
3 44 0.90
4 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:49187499 original size:39 final size:40
Alignment explanation
Indices: 49187456--49187560 Score: 104
Period size: 44 Copynumber: 2.5 Consensus size: 40
49187446 TTCCTTTATG
49187456 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
** *** *
49187495 CTATTACGTCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
49187540 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
49187561 ACACCTCTAA
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
39 14 0.27
40 5 0.10
44 17 0.33
45 16 0.31
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:49187555 original size:45 final size:44
Alignment explanation
Indices: 49187454--49187563 Score: 122
Period size: 45 Copynumber: 2.6 Consensus size: 44
49187444 TTTTCCTTTA
49187454 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* ** ***
49187493 TACTATTACGTCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
49187538 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
49187564 CCTCTAATCC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
39 15 0.27
40 1 0.02
44 16 0.29
45 24 0.43
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:49187563 original size:16 final size:16
Alignment explanation
Indices: 49187544--49187595 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
49187534 GATTTGCTAT
* *
49187544 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
49187560 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
49187576 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
49187592 TACA
1 TACA
49187596 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:49192172 original size:19 final size:18
Alignment explanation
Indices: 49192150--49192203 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
49192140 AATACGAAAT
*
49192150 AATTCAAAATAATTTTTAA
1 AATTCAAAAT-ATTTATAA
*
49192169 AATTCAATATATTTATAAA
1 AATTCAAAATATTTAT-AA
*
49192188 AATTCTAAAT-TTTATA
1 AATTCAAAATATTTATA
49192204 TATTTTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 10 0.33
19 19 0.63
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTCAAAATATTTATAA
Found at i:49192187 original size:18 final size:19
Alignment explanation
Indices: 49192150--49192188 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
49192140 AATACGAAAT
*
49192150 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
*
49192169 AATTCAATAT-ATTTATAA
1 AATTCAAAATAATTTATAA
49192187 AA
1 AA
49192189 ATTCTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:49192393 original size:16 final size:16
Alignment explanation
Indices: 49192372--49192402 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49192362 TGAAAAAAGT
49192372 TTTCAAATATATATGA
1 TTTCAAATATATATGA
*
49192388 TTTCAAATTTATATG
1 TTTCAAATATATATG
49192403 TTGTAATATG
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:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
TTTCAAATATATATGA
Found at i:49194973 original size:2 final size:2
Alignment explanation
Indices: 49194966--49195016 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
49194956 ATTGACCGCT
49194966 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
49195008 TC TC TC TC T
1 TC TC TC TC T
49195017 TCGTCCTGGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:49203208 original size:16 final size:16
Alignment explanation
Indices: 49203187--49203224 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
49203177 AGATTATCGA
49203187 AAGCTCGATTGGTTGG
1 AAGCTCGATTGGTTGG
49203203 AAGCTCGATTGGTTGG
1 AAGCTCGATTGGTTGG
49203219 AAGCTC
1 AAGCTC
49203225 ATCGGAGACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.21, C:0.16, G:0.34, T:0.29
Consensus pattern (16 bp):
AAGCTCGATTGGTTGG
Found at i:49223780 original size:27 final size:27
Alignment explanation
Indices: 49223720--49223780 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
49223710 GAATAAAAAG
* **
49223720 GCGGCACCAATGGTGCTTTTCTCATTG
1 GCGGCACCAATGGTGCTTTTCCCATAA
*
49223747 GCAGCACCAATGGTG-TCTTTCCCATAA
1 GCGGCACCAATGGTGCT-TTTCCCATAA
49223774 GCGGCAC
1 GCGGCAC
49223781 AGGACTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.26
Consensus pattern (27 bp):
GCGGCACCAATGGTGCTTTTCCCATAA
Found at i:49224029 original size:40 final size:40
Alignment explanation
Indices: 49223985--49224064 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
49223975 AAGCCCTCAA
49223985 CCTATTTTTGTAGTTAAATAAGCTCTTAATCTATGATTTT
1 CCTATTTTTGTAGTTAAATAAGCTCTTAATCTATGATTTT
49224025 CCTATTTTTGTAGTTAAATAAGCTCTTAATCTATGATTTT
1 CCTATTTTTGTAGTTAAATAAGCTCTTAATCTATGATTTT
49224065 TACTCATAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (40 bp):
CCTATTTTTGTAGTTAAATAAGCTCTTAATCTATGATTTT
Found at i:49226026 original size:39 final size:39
Alignment explanation
Indices: 49225957--49226031 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
49225947 ATACTTTAAA
* *
49225957 TTTATATATATCATTTATCACAATACTAATGAATTTGAG
1 TTTAAATATATCATATATCACAATACTAATGAATTTGAG
* * *
49225996 TTTAAATATTTCATATATCATAATATTAATGAATTT
1 TTTAAATATATCATATATCACAATACTAATGAATTT
49226032 AAATACATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (39 bp):
TTTAAATATATCATATATCACAATACTAATGAATTTGAG
Found at i:49228865 original size:19 final size:19
Alignment explanation
Indices: 49228835--49228880 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
49228825 CACGCTAGTA
* *
49228835 TTTAATTAATTTTTATATTT
1 TTTAA-TAATTTTAATAATT
49228855 TTTAATAATTTTAATAATT
1 TTTAATAATTTTAATAATT
49228874 TTTAATA
1 TTTAATA
49228881 TTAAAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTAATAATTTTAATAATT
Found at i:49228866 original size:10 final size:10
Alignment explanation
Indices: 49228835--49228880 Score: 60
Period size: 9 Copynumber: 4.7 Consensus size: 10
49228825 CACGCTAGTA
49228835 TTTAATTAATT
1 TTTAA-TAATT
*
49228846 TTT-ATATTT
1 TTTAATAATT
49228855 TTTAATAA-T
1 TTTAATAATT
49228864 TTTAATAATT
1 TTTAATAATT
49228874 TTTAATA
1 TTTAATA
49228881 TTAAAAATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 16 0.52
10 12 0.39
11 3 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTAATAATT
Found at i:49228905 original size:10 final size:9
Alignment explanation
Indices: 49228843--49228904 Score: 54
Period size: 9 Copynumber: 6.7 Consensus size: 9
49228833 TATTTAATTA
49228843 ATTTTT-AT
1 ATTTTTAAT
49228851 ATTTTTTAAT
1 A-TTTTTAAT
*
49228861 AATTTTAAT
1 ATTTTTAAT
49228870 AATTTTTAAT
1 -ATTTTTAAT
***
49228880 ATTAAAAAT
1 ATTTTTAAT
49228889 AGTTTTTAAT
1 A-TTTTTAAT
49228899 ATTTTT
1 ATTTTT
49228905 TTGAATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
8 1 0.02
9 24 0.57
10 17 0.40
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (9 bp):
ATTTTTAAT
Found at i:49228912 original size:38 final size:39
Alignment explanation
Indices: 49228853--49228928 Score: 102
Period size: 38 Copynumber: 2.0 Consensus size: 39
49228843 ATTTTTATAT
49228853 TTTTTAATAATTTTAATAATTTTTAA-TATTAAAAATAG
1 TTTTTAATAATTTTAATAATTTTTAAGTATTAAAAATAG
** *
49228891 TTTTTAAT-ATTTTTTTGAATTTTTAAGTTTTAAAAATA
1 TTTTTAATAATTTTAAT-AATTTTTAAGTATTAAAAATA
49228929 TGATTAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
37 6 0.18
38 17 0.52
39 10 0.30
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (39 bp):
TTTTTAATAATTTTAATAATTTTTAAGTATTAAAAATAG
Found at i:49230196 original size:15 final size:17
Alignment explanation
Indices: 49230154--49230200 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
49230144 TGTTGAAAAG
49230154 TTTGAATTTATAATACTT
1 TTTGAATTT-TAATACTT
*
49230172 TTTTATATTTTAA-AC-T
1 TTTGA-ATTTTAATACTT
49230188 TTTGAATTTTAAT
1 TTTGAATTTTAAT
49230201 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 7 0.28
16 5 0.20
17 2 0.08
18 7 0.28
19 4 0.16
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (17 bp):
TTTGAATTTTAATACTT
Found at i:49235179 original size:19 final size:19
Alignment explanation
Indices: 49235155--49235191 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
49235145 CAATGTTTTA
49235155 TTTTAATATTT-TTATACAT
1 TTTTAAT-TTTATTATACAT
49235174 TTTTAATTTTATTATACA
1 TTTTAATTTTATTATACA
49235192 CACTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAATTTTATTATACAT
Found at i:49235358 original size:25 final size:24
Alignment explanation
Indices: 49235311--49235368 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 24
49235301 TAAAATTATT
49235311 TTATTT-TTATTTTATTTTATTCA
1 TTATTTCTTATTTTATTTTATTCA
49235334 TTGATTTCTTATTCTTATTTT-TTCA
1 TT-ATTTCTTATT-TTATTTTATTCA
49235359 TTATTTCTTA
1 TTATTTCTTA
49235369 GATAATTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 2 0.06
24 12 0.38
25 11 0.34
26 7 0.22
ACGTcount: A:0.19, C:0.09, G:0.02, T:0.71
Consensus pattern (24 bp):
TTATTTCTTATTTTATTTTATTCA
Found at i:49235547 original size:30 final size:29
Alignment explanation
Indices: 49235513--49235576 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
49235503 TTATGGTTAG
*
49235513 GTGACCAAAAAGAAATTTGCTAATAGTTGA
1 GTGACCAAAAA-AAATTTACTAATAGTTGA
* * *
49235543 GTGACCAAAAAAATTTTATTAATAGTTGG
1 GTGACCAAAAAAAATTTACTAATAGTTGA
49235572 GTGAC
1 GTGAC
49235577 TATTAGTGTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.30
Consensus pattern (29 bp):
GTGACCAAAAAAAATTTACTAATAGTTGA
Found at i:49240588 original size:112 final size:105
Alignment explanation
Indices: 49240449--49240768 Score: 493
Period size: 112 Copynumber: 3.0 Consensus size: 105
49240439 GAAAAAAAAA
49240449 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAACAGTAAAAAAAA-TTTCTTTTTTTTCG
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAACAGTAAAAAAAATTTTCTTTTTTTTCG
49240513 TGTCA-AAGTCAGATATAAAAATACGAAAAAAAATTTTAAAAAAAATTT
66 TGTCAGAA-TCAGATATAAAAATACGAAAAAAAA---T-----AAATTT
* *
49240561 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTGAACAGTAAAAAAAATTTTATTTTTTTTCG
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAACAGTAAAAAAAATTTTCTTTTTTTTCG
49240626 TGTCAGAATCAGATATAAAAATACGAAAAAAAATAAATTT
66 TGTCAGAATCAGATATAAAAATACGAAAAAAAATAAATTT
*
49240666 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAAAAAAAAATTTTCTTTTTTTTT
1 TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAACAGT-AAAAAAAATTTTC-TTTTTTTT
49240731 CGTGTCAGAATCAGATATAAAAATACG-AAAAAAATAAA
64 CGTGTCAGAATCAGATATAAAAATACGAAAAAAAATAAA
49240769 AAAAAATTAT
Statistics
Matches: 199, Mismatches: 5, Indels: 14
0.91 0.02 0.06
Matches are distributed among these distances:
105 46 0.23
106 23 0.12
107 35 0.18
110 1 0.01
112 49 0.25
113 43 0.22
114 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (105 bp):
TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAAACAGTAAAAAAAATTTTCTTTTTTTTCG
TGTCAGAATCAGATATAAAAATACGAAAAAAAATAAATTT
Found at i:49241205 original size:103 final size:101
Alignment explanation
Indices: 49240935--49241215 Score: 402
Period size: 103 Copynumber: 2.7 Consensus size: 101
49240925 GAAAAAAAAA
*
49240935 GAAAAAAAAATTTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAACACCCAAAAAATTTTTT
1 GAAAAAAAAATTTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAAAATTTTTT
*
49241000 TTTATTTTTTTCATATTTTTATATCTGATTCTAACAC
65 TTTATTTTTTTCATATTTTTATATCTGACTCTAACAC
* * *
49241037 GAAAAAAAAATTTTACTGTTCACTGGGTGCTGGCCATTGACAGACCAGCACCCACAAAAAATTTT
1 GAAAAAAAAATTTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCA-CC-CAAAAATTTTT
** * * *
49241102 TTAAATTTTTTTTCGTATTTTTATATCTGACTCTGATAC
64 TTTTA-TTTTTTTCATATTTTTATATCTGACTCTAACAC
*
49241141 GAAAAAAAAA-TTTACTGTTTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTT
1 GAAAAAAAAATTTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTT
*
49241205 TCTTTTTTTTT
66 T-TATTTTTTT
49241216 TCTTTTTCGT
Statistics
Matches: 158, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
101 19 0.12
102 49 0.31
103 50 0.32
104 40 0.25
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (101 bp):
GAAAAAAAAATTTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTT
TTATTTTTTTCATATTTTTATATCTGACTCTAACAC
Found at i:49241214 original size:11 final size:11
Alignment explanation
Indices: 49241198--49241222 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49241188 CACCCAAAAA
49241198 TTTTTTTTCTT
1 TTTTTTTTCTT
49241209 TTTTTTTTCTT
1 TTTTTTTTCTT
49241220 TTT
1 TTT
49241223 CGTATATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:49241216 original size:103 final size:102
Alignment explanation
Indices: 49240935--49241217 Score: 415
Period size: 102 Copynumber: 2.8 Consensus size: 102
49240925 GAAAAAAAAA
*
49240935 GAAAAAAAAATTTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAACACCCAAAAAATTTTTT
1 GAAAAAAAAATTTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTT
* *
49241000 TTTATTTTTTTCATATTTTTATATCTGATTCTAACAC
66 TTTTTTTTTTTCATATTTTTATATCTGACTCTAACAC
* *
49241037 GAAAAAAAAATTTTACTGTTCACTGGGTGCTGGCCATTGACAGACCAGCACCCACAAAAAATTTT
1 GAAAAAAAAATTTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCA-CC-CAAAAAATTTT
*** * * *
49241102 TTAAATTTTTTTTCGTATTTTTATATCTGACTCTGATAC
64 TTTTTTTTTTTTTCATATTTTTATATCTGACTCTAACAC
* *
49241141 GAAAAAAAAA-TTTACTGTTTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTT
1 GAAAAAAAAATTTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTT
49241205 TCTTTTTTTTTTC
66 T-TTTTTTTTTTC
49241218 TTTTTCGTAT
Statistics
Matches: 160, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
101 12 0.08
102 58 0.36
103 38 0.24
104 52 0.32
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (102 bp):
GAAAAAAAAATTTTACTGTTCACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTTTTT
TTTTTTTTTTTCATATTTTTATATCTGACTCTAACAC
Found at i:49243564 original size:26 final size:26
Alignment explanation
Indices: 49243535--49243584 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
49243525 TAAATTGAAG
49243535 TATAAAAAAAAGGATTT-TTTAAATTT
1 TATAAAAAAAA-GATTTATTTAAATTT
* *
49243561 TATAAAGAAAATATTTATTTAAAT
1 TATAAAAAAAAGATTTATTTAAAT
49243585 CCAATACAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (26 bp):
TATAAAAAAAAGATTTATTTAAATTT
Found at i:49245246 original size:4 final size:4
Alignment explanation
Indices: 49245237--49245265 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
49245227 TTTATCACTG
49245237 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
49245266 AATTTTGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:49245536 original size:24 final size:25
Alignment explanation
Indices: 49245489--49245537 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
49245479 AGGCAATTTA
*
49245489 GTAAAATGTGTTTCATAAAAAATGTG
1 GTAAAATGTGCTT-ATAAAAAATGTG
*
49245515 GTAAAATGTGCTT-TAAATAATGT
1 GTAAAATGTGCTTATAAAAAATGT
49245538 TACATTCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
26 12 0.57
ACGTcount: A:0.41, C:0.04, G:0.18, T:0.37
Consensus pattern (25 bp):
GTAAAATGTGCTTATAAAAAATGTG
Found at i:49249173 original size:46 final size:45
Alignment explanation
Indices: 49249091--49249188 Score: 121
Period size: 46 Copynumber: 2.2 Consensus size: 45
49249081 ATAAAAAGAA
* *
49249091 ATAAATTT-T-AAAATATAAAGAATATGTATAAATATGTGTGTAT
1 ATAAATTTATGAAAATATAAAGAATATATATAAATATGTATGTAT
* *
49249134 ATATATTTATGAAAATA-AAAGAGGATATATATAAGTATGTATGTAT
1 ATAAATTTATGAAAATATAAAGA--ATATATATAAATATGTATGTAT
49249180 ATAAATTTA
1 ATAAATTTA
49249189 AAGTATGCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
43 7 0.15
44 6 0.13
45 6 0.13
46 27 0.59
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (45 bp):
ATAAATTTATGAAAATATAAAGAATATATATAAATATGTATGTAT
Found at i:49250788 original size:40 final size:40
Alignment explanation
Indices: 49250714--49250822 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 40
49250704 GTGGATTTAG
* * *
49250714 TCTGCTCCACTGCAACTTCAGGGAGATAATACTTGATACGA
1 TCTGCTCCACTACTACTT-AGGGAGATAAAACTTGATACGA
*
49250755 TCTGCTCCACTACTACTTAGGGAGATAAAACTTGATGCGA
1 TCTGCTCCACTACTACTTAGGGAGATAAAACTTGATACGA
*
49250795 TCTGCTCCACTACTGCTTAGGGAGATAA
1 TCTGCTCCACTACTACTTAGGGAGATAA
49250823 GATCTGTGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
40 47 0.75
41 16 0.25
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (40 bp):
TCTGCTCCACTACTACTTAGGGAGATAAAACTTGATACGA
Found at i:49250850 original size:40 final size:41
Alignment explanation
Indices: 49250806--49250978 Score: 88
Period size: 40 Copynumber: 4.1 Consensus size: 41
49250796 CTGCTCCACT
49250806 ACTGCTTAGGGAGATAAGATCTG-TGGTTTTAATCCACTCC
1 ACTGCTTAGGGAGATAAGATCTGTTGGTTTTAATCCACTCC
* ** * **
49250846 ACTGCAACTTCAGGGAGATAGGAT-TGTTTTTTTTTTCAGTCTGCTCCAC
1 ACTG---CTT-AGGGAGATAAGATCTG--TTGGTTTT-AATCCACT-C-C
* * * **
49250895 TACTGCTTAGGGAGATAAGA-CTTGATGCGATCTGCTCCACT--
1 -ACTGCTTAGGGAGATAAGATC-TGTTG-GTTTTAATCCACTCC
*
49250936 ACTGCTTAGGGAGATAAGATCTG-TGGTTTTAATCCGCTCC
1 ACTGCTTAGGGAGATAAGATCTGTTGGTTTTAATCCACTCC
49250976 ACT
1 ACT
49250979 ACAACTTCAG
Statistics
Matches: 95, Mismatches: 21, Indels: 34
0.63 0.14 0.23
Matches are distributed among these distances:
38 8 0.08
39 2 0.02
40 28 0.29
41 1 0.01
43 5 0.05
44 12 0.13
45 5 0.05
46 18 0.19
47 10 0.11
48 1 0.01
49 1 0.01
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (41 bp):
ACTGCTTAGGGAGATAAGATCTGTTGGTTTTAATCCACTCC
Found at i:49250921 original size:130 final size:127
Alignment explanation
Indices: 49250755--49251054 Score: 492
Period size: 130 Copynumber: 2.3 Consensus size: 127
49250745 CTTGATACGA
* *
49250755 TCTGCTCCACTACTACTTAGGGAGATAAAACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
* * *
49250820 TAAGATCTGTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGTTTTTTTTTTCAG
66 TAAGATCTGTGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTG-ATTTCTTTT--G
49250885 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
*
49250950 TAAGATCTGTGGTTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTTTG
66 TAAGATCTGTGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTTTG
* * *
49251012 TCTGCTCCACTATTGCTTAGGGAGATAAGACTGGATGTGATCT
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCT
49251055 TGTAACAGCC
Statistics
Matches: 161, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
127 41 0.25
129 7 0.04
130 113 0.70
ACGTcount: A:0.24, C:0.21, G:0.22, T:0.33
Consensus pattern (127 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGA
TAAGATCTGTGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTGATTTCTTTTG
Found at i:49252444 original size:104 final size:104
Alignment explanation
Indices: 49252261--49252484 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
49252251 TGTATATAAA
** * *
49252261 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
49252326 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
49252365 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
*
49252429 TTGAAATGTGGAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
49252469 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
49252485 GATATCCATT
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
104 111 0.99
105 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:49252537 original size:71 final size:72
Alignment explanation
Indices: 49252403--49252554 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
49252393 TCATTGGTGG
* **
49252403 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGGAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
49252468 GAGGGGT
66 GAGGGGT
***
49252475 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
49252539 GAGGGGT
66 GAGGGGT
49252546 TGCTAAGTG
1 TGCTAAGTG
49252555 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
71 44 0.59
72 30 0.41
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:49266462 original size:24 final size:23
Alignment explanation
Indices: 49266418--49266462 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
49266408 AACATAAAAA
*
49266418 AATATTTAAAATGGTCTAAATGT
1 AATATTTAAAATGGTCCAAATGT
**
49266441 AATATCTTAAAATTTTCCAAAT
1 AATAT-TTAAAATGGTCCAAAT
49266463 TGTTTCCTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 5 0.28
24 13 0.72
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (23 bp):
AATATTTAAAATGGTCCAAATGT
Found at i:49267328 original size:23 final size:25
Alignment explanation
Indices: 49267297--49267345 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
49267287 TACATAGTAT
*
49267297 AAATAATATA-TATTTTTTAAATTA
1 AAATAATATATTATTTTATAAATTA
*
49267321 AAAT-ATATATTATTTTATAAGTTA
1 AAATAATATATTATTTTATAAATTA
49267345 A
1 A
49267346 CTTATTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
AAATAATATATTATTTTATAAATTA
Found at i:49277469 original size:209 final size:208
Alignment explanation
Indices: 49277133--49277564 Score: 640
Period size: 209 Copynumber: 2.1 Consensus size: 208
49277123 GGCGGTTGTA
*
49277133 GAAAACGCCGCTATATCCTGCAATTAGCGGCGCTTAACTAAAAAACGCTGAAAATTTTTAAACCG
1 GAAAACGCCGCTATATCCTGCAATTAGCGGCGCTTAACTAAAAAACGCAGAAAATTTTTAAACCG
*
49277198 AAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCGAAAATGCCGCTATAT
66 AAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCGAAAACGCCGCTATAT
* *
49277263 ATTAGCTAGAAGC-GCCGTAAAAATTTTGACCAAAACGCATCGTTCCGGCTTGACCTATAGA-GC
131 ATCAGCT-GAAGCTG-C--AAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGC
* *
49277326 GTTAGCGGCGCTTGCCT
192 ATTAGCGGCGCTTACCT
49277343 GAAAACGCCGCTATATCCCT-CAATTAGCGGCGCTTAACT-AAAAACGTCAGAAAA-TTTTAAAC
1 GAAAACGCCGCTATAT-CCTGCAATTAGCGGCGCTTAACTAAAAAACG-CAGAAAATTTTTAAAC
* * * *
49277405 CGAAATGCAACGTTTCGTCTTGAGCTATAGCGCCGTTAGCGGCGCTTACTCGAAAACGCCGCTAT
64 CGAAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCGAAAACGCCGCTAT
***
49277470 ATATCAGCTTTTGCTGCAAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGCAT
129 ATATCAGCTGAAGCTGCAAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGCAT
**
49277535 TAGCGGCGCTTATTT
194 TAGCGGCGCTTACCT
49277550 GAAAACGCCGCTATA
1 GAAAACGCCGCTATA
49277565 GAGCAACTTT
Statistics
Matches: 203, Mismatches: 15, Indels: 11
0.89 0.07 0.05
Matches are distributed among these distances:
206 42 0.21
207 30 0.15
208 3 0.01
209 84 0.41
210 41 0.20
211 3 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (208 bp):
GAAAACGCCGCTATATCCTGCAATTAGCGGCGCTTAACTAAAAAACGCAGAAAATTTTTAAACCG
AAACGCAACGTTTCGTCTTGAGCTATAGCGCCATCAGCGGCGCTTACCCGAAAACGCCGCTATAT
ATCAGCTGAAGCTGCAAAAATTTTGACCAAAACGCATCGTTCCAGCTTGACCTATAGAGGCATTA
GCGGCGCTTACCT
Found at i:49278173 original size:7 final size:7
Alignment explanation
Indices: 49278161--49278223 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
49278151 GTTAATTGAT
49278161 GGGTTTA
1 GGGTTTA
49278168 GGGTTTA
1 GGGTTTA
*
49278175 AGGTTTA
1 GGGTTTA
** *
49278182 CTGTTTG
1 GGGTTTA
*
49278189 GGGTTTG
1 GGGTTTA
49278196 GGGTTTA
1 GGGTTTA
*
49278203 AGGTTTA
1 GGGTTTA
**
49278210 TAGTTTA
1 GGGTTTA
49278217 GGGTTTA
1 GGGTTTA
49278224 AGATTTATGG
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.16, C:0.02, G:0.37, T:0.46
Consensus pattern (7 bp):
GGGTTTA
Found at i:49278215 original size:21 final size:21
Alignment explanation
Indices: 49278191--49278231 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49278181 ACTGTTTGGG
* *
49278191 GTTTGGGGTTTAAGGTTTATA
1 GTTTAGGGTTTAAGATTTATA
49278212 GTTTAGGGTTTAAGATTTAT
1 GTTTAGGGTTTAAGATTTAT
49278232 GGTTAAGGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.29, T:0.49
Consensus pattern (21 bp):
GTTTAGGGTTTAAGATTTATA
Found at i:49278230 original size:28 final size:28
Alignment explanation
Indices: 49278161--49278223 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
49278151 GTTAATTGAT
*
49278161 GGGTTTAGGGTTTAAGGTTTACTGTTTG
1 GGGTTTAGGGTTTAAGGTTTACTGTTTA
*
49278189 GGGTTTGGGGTTTAAGGTTTA-TAGTTTA
1 GGGTTTAGGGTTTAAGGTTTACT-GTTTA
49278217 GGGTTTA
1 GGGTTTA
49278224 AGATTTATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 1 0.03
28 30 0.97
ACGTcount: A:0.16, C:0.02, G:0.37, T:0.46
Consensus pattern (28 bp):
GGGTTTAGGGTTTAAGGTTTACTGTTTA
Found at i:49278379 original size:15 final size:15
Alignment explanation
Indices: 49278359--49278388 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49278349 GCTTTTTTAG
*
49278359 AATATAAATGTAAAT
1 AATATAAATATAAAT
49278374 AATATAAATATAAAT
1 AATATAAATATAAAT
49278389 TATTATTTAA
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:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (15 bp):
AATATAAATATAAAT
Found at i:49279191 original size:19 final size:20
Alignment explanation
Indices: 49279150--49279193 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
49279140 AACTGTCATC
*
49279150 TCCCCTAAATCCCTAAAATT
1 TCCCCTAAATCCCTAAAAGT
*
49279170 TCCCCT-AATCCCTAACAGT
1 TCCCCTAAATCCCTAAAAGT
49279189 TCCCC
1 TCCCC
49279194 AAACCCAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.27, C:0.43, G:0.02, T:0.27
Consensus pattern (20 bp):
TCCCCTAAATCCCTAAAAGT
Found at i:49279560 original size:6 final size:6
Alignment explanation
Indices: 49279549--49279575 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49279539 GAAATTTATA
49279549 TATATG TATATG TATATG TATATG TAT
1 TATATG TATATG TATATG TATATG TAT
49279576 TAAAACTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (6 bp):
TATATG
Found at i:49286257 original size:21 final size:21
Alignment explanation
Indices: 49286233--49286272 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
49286223 ACATAAAGCT
49286233 GAGGCAGAAGCGAGAGAAGTG
1 GAGGCAGAAGCGAGAGAAGTG
* * *
49286254 GAGGCTGCAGCGAGGGAAG
1 GAGGCAGAAGCGAGAGAAG
49286273 CAGAGCAGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.50, T:0.05
Consensus pattern (21 bp):
GAGGCAGAAGCGAGAGAAGTG
Found at i:49286666 original size:43 final size:44
Alignment explanation
Indices: 49286595--49286826 Score: 167
Period size: 43 Copynumber: 5.4 Consensus size: 44
49286585 GGCGTTTTAC
* *
49286595 GAAAAAGCGCCGCTAAAAGTC-GCCATCTATTA-CGGCGTTTTTG
1 GAAAAAGCGCCGCTAAAAGTCAG-GATCTATTAGCGGCGTTTGTG
*
49286638 GAAAAAGCGCCGCTAAAAGTCAGGATCTA-TAGCGGCGATTGTG
1 GAAAAAGCGCCGCTAAAAGTCAGGATCTATTAGCGGCGTTTGTG
* * * *
49286681 GGATAAGCGCCGCTAAAGAG-CATGACCT-TTAGCGGCGTTTGTG
1 GAAAAAGCGCCGCTAAA-AGTCAGGATCTATTAGCGGCGTTTGTG
* * * * * * * *
49286724 GGATAAGCGTCGCT-AAAGAACATGAGCT-TTAACGGCATTTGTG
1 GAAAAAGCGCCGCTAAAAG-TCAGGATCTATTAGCGGCGTTTGTG
* * * *
49286767 GAATAAGTGCCGCTAAAGAG-CATGACCT-TTAGCGGCGTTTGTG
1 GAAAAAGCGCCGCTAAA-AGTCAGGATCTATTAGCGGCGTTTGTG
* **
49286810 GGATCAGCGCCGCTAAA
1 GAAAAAGCGCCGCTAAA
49286827 GAACATAAGC
Statistics
Matches: 160, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
41 2 0.01
42 4 0.03
43 147 0.92
44 5 0.03
45 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (44 bp):
GAAAAAGCGCCGCTAAAAGTCAGGATCTATTAGCGGCGTTTGTG
Found at i:49286819 original size:129 final size:129
Alignment explanation
Indices: 49286626--49286887 Score: 346
Period size: 129 Copynumber: 2.0 Consensus size: 129
49286616 GCCATCTATT
* * *
49286626 ACGGCGTTTTTGGAAAAAGCGCCGCTAAAAGTCAGGATCTATAGCGGCGATTGTGGGATAAGCGC
1 ACGGCATTTGTGGAAAAAGCGCCGCTAAAAGTCAGGACCTATAGCGGCGATTGTGGGATAAGCGC
* * ** *
49286691 CGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGGATAAGCGTCGCTAAAGAACATGAGCTTTA
66 CGCTAAAGAACATAACCTTTAGCGGCGTTTGTGGGATAAGCACCGCTAAAGAACATGACCTTTA
* * * * * *
49286755 ACGGCATTTGTGGAATAAGTGCCGCTAAAGAG-CATGACCTTTAGCGGCGTTTGTGGGATCAGCG
1 ACGGCATTTGTGGAAAAAGCGCCGCTAAA-AGTCAGGACCTATAGCGGCGATTGTGGGATAAGCG
* * **
49286819 CCGCTAAAGAACATAAGCTTTTGCGGCGTTTGTGGGATAAGCACCGCTAAAGGTCATGACCTTTA
65 CCGCTAAAGAACATAACCTTTAGCGGCGTTTGTGGGATAAGCACCGCTAAAGAACATGACCTTTA
49286884 ACGG
1 ACGG
49286888 TGTTTATTTC
Statistics
Matches: 114, Mismatches: 18, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
129 112 0.98
130 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (129 bp):
ACGGCATTTGTGGAAAAAGCGCCGCTAAAAGTCAGGACCTATAGCGGCGATTGTGGGATAAGCGC
CGCTAAAGAACATAACCTTTAGCGGCGTTTGTGGGATAAGCACCGCTAAAGAACATGACCTTTA
Found at i:49286827 original size:43 final size:43
Alignment explanation
Indices: 49286627--49286892 Score: 302
Period size: 43 Copynumber: 6.2 Consensus size: 43
49286617 CCATCTATTA
* * * * * *
49286627 CGGCGTTTTTGGAAAAAGCGCCGCTAAA-AGTCAGGATCTATAG
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAG-CATGACCTTTAG
*
49286670 CGGCGATTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
* * * *
49286713 CGGCGTTTGTGGGATAAGCGTCGCTAAAGAACATGAGCTTTAA
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
* * *
49286756 CGGCATTTGTGGAATAAGTGCCGCTAAAGAGCATGACCTTTAG
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
* * * * *
49286799 CGGCGTTTGTGGGATCAGCGCCGCTAAAGAACATAAGCTTTTG
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
* *
49286842 CGGCGTTTGTGGGATAAGCACCGCTAAAG-GTCATGACCTTTAA
1 CGGCGTTTGTGGGATAAGCGCCGCTAAAGAG-CATGACCTTTAG
*
49286885 CGGTGTTT
1 CGGCGTTT
49286893 ATTTCTATAA
Statistics
Matches: 186, Mismatches: 35, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
43 184 0.99
44 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
CGGCGTTTGTGGGATAAGCGCCGCTAAAGAGCATGACCTTTAG
Found at i:49291613 original size:25 final size:27
Alignment explanation
Indices: 49291568--49291622 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
49291558 TGTAAAAAAG
*
49291568 TAAAGAAATAATAAATAAATA-A-ATA
1 TAAAGAAAAAATAAATAAATATACATA
*
49291593 TAAAGAAAAAATAGAA-CAATATACATA
1 TAAAGAAAAAATA-AATAAATATACATA
49291620 TAA
1 TAA
49291623 GAATCTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
25 16 0.64
26 3 0.12
27 6 0.24
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.22
Consensus pattern (27 bp):
TAAAGAAAAAATAAATAAATATACATA
Found at i:49296306 original size:20 final size:20
Alignment explanation
Indices: 49296273--49296319 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
49296263 ACTAAATATT
* * *
49296273 GATACGTGCCATTTTGTGTC
1 GATACCTGCAATTTTGTATC
49296293 GATACCTGCAATTTTGTATC
1 GATACCTGCAATTTTGTATC
49296313 GATACCT
1 GATACCT
49296320 ACTTTGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (20 bp):
GATACCTGCAATTTTGTATC
Found at i:49310070 original size:104 final size:104
Alignment explanation
Indices: 49309887--49310110 Score: 369
Period size: 104 Copynumber: 2.2 Consensus size: 104
49309877 TGTATATAAA
** * *
49309887 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
49309952 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
49309991 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
*
49310055 TTGAAATGTGGAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
49310095 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
49310111 GATATCCATT
Statistics
Matches: 112, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
104 111 0.99
105 1 0.01
ACGTcount: A:0.17, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:49310162 original size:70 final size:71
Alignment explanation
Indices: 49310029--49310179 Score: 241
Period size: 70 Copynumber: 2.1 Consensus size: 71
49310019 TCATTGGTGG
* *
49310029 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGGAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAA-GTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
49310094 GAGGGGT
65 GAGGGGT
***
49310101 TGCTAAGTGCGATATCCATTGTATATTTGAAA-TGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAAGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
49310165 AGGGGT
66 AGGGGT
49310171 TGCTAAGTG
1 TGCTAAGTG
49310180 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 46 0.62
72 28 0.38
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.30
Consensus pattern (71 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAAGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
AGGGGT
Found at i:49311614 original size:44 final size:44
Alignment explanation
Indices: 49311556--49311815 Score: 236
Period size: 44 Copynumber: 5.9 Consensus size: 44
49311546 GATCTATGGT
* *
49311556 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAC-A
1 TCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTACTA
* * * * *
49311600 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTA
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTACTA
* * * * * * *
49311644 TCTTCAATCTATTTCACGCCAATACATGAAGACAAGATCTACTT
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTACTA
* * * *
49311688 TCTTTGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTAC-A
1 TCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTACTA
* * * * *
49311732 TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTA
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTACTA
*** * *
49311776 TCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCT
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCT
49311816 GCTTTAATGT
Statistics
Matches: 167, Mismatches: 46, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
43 41 0.25
44 106 0.63
45 20 0.12
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (44 bp):
TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTACTA
Found at i:49311797 original size:132 final size:132
Alignment explanation
Indices: 49311555--49311820 Score: 478
Period size: 132 Copynumber: 2.0 Consensus size: 132
49311545 AGATCTATGG
*
49311555 TTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACATCTTCGATCCACTTCCTACC
1 TTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTACATCTTCGATCCACTTCCTACC
*
49311620 AATATAGGAAGACAGGACCTGCTATCTTCAATCTATTTCACGCCAATACATGAAGACAAGATCTA
66 AATATAGGAAGACAGGACCTGCTATCTTCAATCTACTTCACGCCAATACATGAAGACAAGATCTA
49311685 CT
131 CT
*
49311687 TTCTTTGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTACATCTTCGATCCACTTCCTACC
1 TTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTACATCTTCGATCCACTTCCTACC
* * *
49311752 AATATAGGAAGACAGGACCTGCTATCTTCGATCTACTTCATGCCAATACATGAAGACAAGATCTG
66 AATATAGGAAGACAGGACCTGCTATCTTCAATCTACTTCACGCCAATACATGAAGACAAGATCTA
49311817 CT
131 CT
49311819 TT
1 TT
49311821 AATGTCTTCA
Statistics
Matches: 128, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 128 1.00
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (132 bp):
TTCTTCGATCTACTTCGCCACCAGTATGGGAAAACAAGATCTACATCTTCGATCCACTTCCTACC
AATATAGGAAGACAGGACCTGCTATCTTCAATCTACTTCACGCCAATACATGAAGACAAGATCTA
CT
Found at i:49312743 original size:23 final size:23
Alignment explanation
Indices: 49312707--49312756 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
49312697 CATCTCTCCT
*
49312707 TTTTCTTTTTTTGTTCTTCTTTTC
1 TTTTCTTTTTTTGTT-TTCATTTC
49312731 TTTTC-TTTTTTGTTTTCATTTC
1 TTTTCTTTTTTTGTTTTCATTTC
49312753 TTTT
1 TTTT
49312757 TTTCGAGTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 11 0.44
23 9 0.36
24 5 0.20
ACGTcount: A:0.02, C:0.14, G:0.04, T:0.80
Consensus pattern (23 bp):
TTTTCTTTTTTTGTTTTCATTTC
Found at i:49312746 original size:17 final size:17
Alignment explanation
Indices: 49312707--49312758 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
49312697 CATCTCTCCT
*
49312707 TTTTCTTTTTTTGTTCTTC
1 TTTTCTTTTCTT-TT-TTC
*
49312726 TTTTCTTTTCTTTTTTG
1 TTTTCTTTTCTTTTTTC
*
49312743 TTTTCATTTCTTTTTT
1 TTTTCTTTTCTTTTTT
49312759 TCGAGTGAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 17 0.57
18 2 0.07
19 11 0.37
ACGTcount: A:0.02, C:0.13, G:0.04, T:0.81
Consensus pattern (17 bp):
TTTTCTTTTCTTTTTTC
Found at i:49317414 original size:43 final size:43
Alignment explanation
Indices: 49317333--49317414 Score: 96
Period size: 43 Copynumber: 1.9 Consensus size: 43
49317323 CATTATTTTT
* * *
49317333 GGAGAGAGAAATGAAAACACGTCTTATAGGACGAGTTTTTAGG
1 GGAGAGAGAAATGAAAACACATATTAAAGGACGAGTTTTTAGG
*
49317376 GGAGAGAGAAAT-ATAAACACATATTACAAGG-CGCGTTTT
1 GGAGAGAGAAATGA-AAACACATATTA-AAGGACGAGTTTT
49317415 CACTTTGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
42 1 0.03
43 29 0.88
44 3 0.09
ACGTcount: A:0.39, C:0.11, G:0.27, T:0.23
Consensus pattern (43 bp):
GGAGAGAGAAATGAAAACACATATTAAAGGACGAGTTTTTAGG
Found at i:49322416 original size:26 final size:28
Alignment explanation
Indices: 49322359--49322421 Score: 85
Period size: 26 Copynumber: 2.3 Consensus size: 28
49322349 ATCAAGTTAA
*
49322359 ATATTATTATATTTATAATAATTTCTTT
1 ATATTATTATATTTATAATAATATCTTT
* *
49322387 ATATT-TTATTTTTTTAA-AATATCTTT
1 ATATTATTATATTTATAATAATATCTTT
49322413 ATATTATTA
1 ATATTATTA
49322422 AAATGCATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 13 0.42
27 13 0.42
28 5 0.16
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (28 bp):
ATATTATTATATTTATAATAATATCTTT
Found at i:49322422 original size:19 final size:18
Alignment explanation
Indices: 49322387--49322425 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
49322377 TAATTTCTTT
* *
49322387 ATATTTTATTTTTTTAAA
1 ATATTTTATATTATTAAA
49322405 ATATCTTTATATTATTAAA
1 ATAT-TTTATATTATTAAA
49322424 AT
1 AT
49322426 GCATATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTTTATATTATTAAA
Found at i:49330823 original size:16 final size:15
Alignment explanation
Indices: 49330795--49330833 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
49330785 TTTTTTAAAA
49330795 ATTATAAAAAAATAAT
1 ATTA-AAAAAAATAAT
49330811 ATTAAAAATAAATAAT
1 ATTAAAAA-AAATAAT
49330827 A-TAAAAA
1 ATTAAAAA
49330834 CTATGCAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
16 12 0.55
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATTAAAAAAAATAAT
Done.