Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold175
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: 1254584
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 6 of 8
Found at i:855857 original size:35 final size:34
Alignment explanation
Indices: 855709--856088 Score: 365
Period size: 34 Copynumber: 11.1 Consensus size: 34
855699 TCAAATACCT
* *
855709 TTTTAAAGTCCACAACTCCGTGGCACT-TTTTTCA
1 TTTT-AAGCCCACAACTCCGTGGCACTCTTTTTCC
* *
855743 TCTTTAAGTCCACAACTTCGTGGCACTCTTTCTT-C
1 T-TTTAAGCCCACAACTCCGTGGCACTCTTT-TTCC
855778 TTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-C
1 TTTT--AAGCCCACAACTCCGTGGCACTCTTTTTCC
855812 TGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 T-TTT-AAGCCCACAACTCCGTGGCACTCTTTTT-CC
855849 TTTTAAGCCCACAACTCCGTGGCAC-CTTTTT-C
1 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
855881 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTT-AAGCCCACAACTCCGTGGCACTCTTTTT-CC
* *
855917 TTTTAAGTCCACAACTCCGTGGCA-TCTTTCTCTC
1 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTC-C
* * * * *
855951 TTCCTAAAGCCCACACAAGTCGGTGGCAATC---GT-C
1 TT--TTAAG-CC-CACAACTCCGTGGCACTCTTTTTCC
* **
855985 GTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-C
1 TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
856017 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTT-AAGCCCACAACTCCGTGGCACTCTTTTT-CC
*
856053 TTTTAAGTCCACAACTCCGTGGCA-TCTTTTTTCC
1 TTTTAAGCCCACAACTCCGTGGCACTC-TTTTTCC
856087 TT
1 TT
856089 CCCAAAGCCC
Statistics
Matches: 298, Mismatches: 21, Indels: 54
0.80 0.06 0.14
Matches are distributed among these distances:
29 1 0.00
30 13 0.04
31 2 0.01
32 12 0.04
33 43 0.14
34 86 0.29
35 84 0.28
36 39 0.13
37 3 0.01
38 13 0.04
39 2 0.01
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (34 bp):
TTTTAAGCCCACAACTCCGTGGCACTCTTTTTCC
Found at i:855910 original size:68 final size:68
Alignment explanation
Indices: 855709--856083 Score: 442
Period size: 68 Copynumber: 5.5 Consensus size: 68
855699 TCAAATACCT
* * * *
855709 TTTTAAAGTCCACAACTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTTCGTGGCACTCTT
1 TTTT-AAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGCCCACAACTCCGTGGCACTCTT
855773 TCTT--C
63 T-TTCCC
855778 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTT
1 TTTT--AAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTT
855843 TTTCCC
63 TTTCCC
855849 TTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
855914 CCC
66 CCC
* * * * * *
855917 TTTTAAGTCCACAACTCCGTGGCATCTTTCTCTCTTCCTAAAGCCCACACAAGTCGGTGGCAATC
1 TTTTAAGCCCACAACTCCGTGGCACCTTT-T-TCTT-TTAAAG-CC-CACAACTCCGTGGCACTC
*
855982 ---GT--C
61 TTTTTCCC
* **
855985 GTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
856050 CCC
66 CCC
* *
856053 TTTTAAGTCCACAACTCCGTGGCATCTTTTT
1 TTTTAAGCCCACAACTCCGTGGCACCTTTTT
856084 TCCTTCCCAA
Statistics
Matches: 265, Mismatches: 27, Indels: 29
0.83 0.08 0.09
Matches are distributed among these distances:
63 15 0.06
64 2 0.01
65 5 0.02
66 5 0.02
67 1 0.00
68 114 0.43
69 40 0.15
70 56 0.21
71 10 0.04
72 2 0.01
73 15 0.06
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.34
Consensus pattern (68 bp):
TTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
CCC
Found at i:856012 original size:136 final size:134
Alignment explanation
Indices: 855712--856133 Score: 516
Period size: 136 Copynumber: 3.1 Consensus size: 134
855702 AATACCTTTT
* * * *
855712 TAAAGTCCACAACTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTTCGTGGCACTCTTTCT
1 TAAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTAAAGCCCACAACTCCGTGGCACTCTTT-T
* * * * *
855776 T--CTTTTCAAAGCCCACAACTCCGTGGCACCTTTT-TCTGT-TTAAAG-CC-CACAACTCCGTG
63 TCCCTTTT--AAGTCCACAACTCCGTGGCATCTTTTCTCT-TCCTAAAGCCCACACAAGTCGGTG
*
855835 GCACTCTTTTTCCC
125 GCAATC---TT-CC
*
855849 TTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 --TAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
855914 CCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCTCTTCCTAAAGCCCACACAAGTCGGTGGCA
64 CCCTTTTAAGTCCACAACTCCGTGGCATCTTT-TCTCTTCCTAAAGCCCACACAAGTCGGTGGCA
* *
855979 ATCGTCG
128 ATCTTCC
855986 TCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 T-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
* *
856051 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTTTCCTTCCCAAAGCCCACACAAGTCGGTGGCAA
65 CCTTTTAAGTCCACAACTCCGTGGCATCTTTTCT-CTTCCTAAAGCCCACACAAGTCGGTGGCAA
856116 CTCTTCC
129 -TCTTCC
856123 TAAAGCCCACA
1 TAAAGCCCACA
856134 CAAGTCGGTG
Statistics
Matches: 254, Mismatches: 18, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
135 3 0.01
136 132 0.52
137 34 0.13
138 28 0.11
139 40 0.16
140 2 0.01
141 15 0.06
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.31
Consensus pattern (134 bp):
TAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
CTTTTAAGTCCACAACTCCGTGGCATCTTTTCTCTTCCTAAAGCCCACACAAGTCGGTGGCAATC
TTCC
Found at i:856122 original size:32 final size:31
Alignment explanation
Indices: 856085--856182 Score: 160
Period size: 32 Copynumber: 3.1 Consensus size: 31
856075 CATCTTTTTT
856085 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
*
856116 CTCTTCCTAAAGCCCACACAAGTCGGTGGCAA
1 C-CTTCCCAAAGCCCACACAAGTCGGTGGCAA
856148 CCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTC--CCAAAGCCCACACAAGTCGGTGGCAA
856181 CC
1 CC
856183 CCTCTAAGCC
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
31 5 0.08
32 30 0.48
33 27 0.44
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.16
Consensus pattern (31 bp):
CCTTCCCAAAGCCCACACAAGTCGGTGGCAA
Found at i:856133 original size:68 final size:65
Alignment explanation
Indices: 855783--856181 Score: 228
Period size: 68 Copynumber: 5.9 Consensus size: 65
855773 TCTTCTTTTC
* ** * *
855783 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAG-CC-CACAACTCCGTGGC-ACTCTTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCT-TCCAAAGCCCACACAAGTCGGTGGCAACTC---T
855845 TCCCTTT
62 T-CC--T
* * ** * *
855852 TAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG-CC-CACAACTCCGTGGC-ACTCTTTTT
1 AAAGCCCACAACTCCGTGGCATCTTTTTCTTCCAAAGCCCACACAAGTCGGTGGCAACTC---TT
855914 CCCTTT
63 -CC--T
* * *
855920 TAAGTCCACAACTCCGTGGCATCTTTCTCTCTTCCTAAAGCCCACACAAGTCGGTGGCAA-TCGT
1 AAAGCCCACAACTCCGTGGCATCTTT-T-TCTTCC-AAAGCCCACACAAGTCGGTGGCAACTCTT
*
855984 CGT
63 CCT
* ** * *
855987 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG-CC-CACAACTCCGTGGC-ACTCTTTT
1 -AAAGCCCACAACTCCGTGGCATCTTTTTCTTCCAAAGCCCACACAAGTCGGTGGCAACTC---T
856049 TCCCTTT
62 T-CC--T
* *
856056 TAAGTCCACAACTCCGTGGCATCTTTTTTCCTTCCCAAAGCCCACACAAGTCGGTGGCAACTCTT
1 AAAGCCCACAACTCCGTGGCATC-TTTTT-CTT-CCAAAGCCCACACAAGTCGGTGGCAACTCTT
856121 CCT
63 CCT
* * * *
856124 AAAGCCCACACAAGTCGGTGGCAAC--CTTCTTCCAAAGCCCACACAAGTCGGTGGCAAC
1 AAAG-CC-CACAACTCCGTGGCATCTTTTTCTTCCAAAGCCCACACAAGTCGGTGGCAAC
856182 CCCTCTAAGC
Statistics
Matches: 277, Mismatches: 31, Indels: 48
0.78 0.09 0.13
Matches are distributed among these distances:
62 1 0.00
63 14 0.05
64 2 0.01
65 31 0.11
66 8 0.03
67 5 0.02
68 109 0.39
69 38 0.14
70 24 0.09
71 10 0.04
72 4 0.01
73 26 0.09
74 5 0.02
ACGTcount: A:0.22, C:0.35, G:0.15, T:0.28
Consensus pattern (65 bp):
AAAGCCCACAACTCCGTGGCATCTTTTTCTTCCAAAGCCCACACAAGTCGGTGGCAACTCTTCCT
Found at i:856161 original size:136 final size:134
Alignment explanation
Indices: 855853--856166 Score: 436
Period size: 136 Copynumber: 2.3 Consensus size: 134
855843 TTTCCCTTTT
**
855853 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 AAGCCCACAACTCCGTGGCACC--TTTCTTCCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
*
855918 TTTAAGTCCACAACTCCGTGGCATCTTTCTCTCTTCCTAAAGCCCACACAAGTCGGTGGCAATCG
64 TTTAAGTCCACAACTCCGTGGCATCTTTCTCTCTTCCCAAAGCCCACACAAGTCGGTGGCAATCG
*
855983 TCGTCA
129 TCCTCA
**
855989 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 AAGCCCACAACTCCGTGGCACC--TTTCTTCCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
*
856054 TTTAAGTCCACAACTCCGTGGCATCTTT-TTTCCTTCCCAAAGCCCACACAAGTCGGTGGCAACT
64 TTTAAGTCCACAACTCCGTGGCATCTTTCTCT-CTTCCCAAAGCCCACACAAGTCGGTGGCAA-T
*
856118 CTTCCT-A
127 CGTCCTCA
* *
856125 AAGCCCACACAAGTCGGTGGCAACC-TTCTTCCAAAGCCCACA
1 AAG-CC-CACAACTCCGTGGC-ACCTTTCTTCCAAAGCCCACA
856167 CAAGTCGGTG
Statistics
Matches: 165, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
135 2 0.01
136 141 0.85
137 7 0.04
138 12 0.07
139 3 0.02
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (134 bp):
AAGCCCACAACTCCGTGGCACCTTTCTTCCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
TAAGTCCACAACTCCGTGGCATCTTTCTCTCTTCCCAAAGCCCACACAAGTCGGTGGCAATCGTC
CTCA
Found at i:856166 original size:33 final size:32
Alignment explanation
Indices: 856090--856182 Score: 161
Period size: 33 Copynumber: 2.9 Consensus size: 32
856080 TTTTTCCTTC
856090 CCAAAGCCCACACAAGTCGGTGGCAA-CTCTT
1 CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
856121 CCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CC-AAAGCCCACACAAGTCGGTGGCAACC-TCTT
856155 CCAAAGCCCACACAAGTCGGTGGCAACC
1 CCAAAGCCCACACAAGTCGGTGGCAACC
856183 CCTCTAAGCC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
31 2 0.03
32 24 0.41
33 27 0.46
34 6 0.10
ACGTcount: A:0.29, C:0.37, G:0.19, T:0.15
Consensus pattern (32 bp):
CCAAAGCCCACACAAGTCGGTGGCAACCTCTT
Found at i:856269 original size:49 final size:49
Alignment explanation
Indices: 856212--856828 Score: 844
Period size: 49 Copynumber: 12.8 Consensus size: 49
856202 TGGCCTTTTC
*
856212 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * * *
856261 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
856310 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
856359 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
856408 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * * *
856457 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTC
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
856506 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
856555 CATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
*
856604 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * * *
856649 C--CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
856696 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
* * *
856741 C--CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTT
1 CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC--CTT
*
856790 CCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 -CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
856829 GTTGACATCC
Statistics
Matches: 498, Mismatches: 55, Indels: 27
0.86 0.09 0.05
Matches are distributed among these distances:
43 78 0.16
45 2 0.00
47 1 0.00
49 384 0.77
50 1 0.00
52 32 0.06
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
Found at i:856379 original size:98 final size:98
Alignment explanation
Indices: 856210--856893 Score: 1068
Period size: 98 Copynumber: 7.0 Consensus size: 98
856200 GCTGGCCTTT
856210 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
856275 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
856308 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
856373 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
*
856406 TTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
856471 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
856504 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
856569 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
*
856602 TTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
856661 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
66 ATATCGCTGGCCTTGAATCAGCATATTGGCATC
* *
856694 TTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
* *
856753 ATATAGCTGGCCTTGAATCAGCATATTGGCACATTT
66 ATATCGCTGGCCTTGAATCAGCATATTGG--CA-TC
* * * *
856789 TCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTA
1 TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CC----T-TCATCTTTA
* * * * *
856854 GGCCCAATATCGTTGGCCATGAATCAACATATTGGCATC
60 AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC
856893 T
1 T
856894 TTATCACTTT
Statistics
Matches: 554, Mismatches: 17, Indels: 24
0.93 0.03 0.04
Matches are distributed among these distances:
92 130 0.23
94 3 0.01
95 44 0.08
98 338 0.61
104 2 0.00
105 3 0.01
107 34 0.06
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.32
Consensus pattern (98 bp):
TCCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
ATATCGCTGGCCTTGAATCAGCATATTGGCATC
Found at i:856678 original size:92 final size:92
Alignment explanation
Indices: 856558--856828 Score: 479
Period size: 92 Copynumber: 2.9 Consensus size: 92
856548 GCACCTTCAT
856558 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
856623 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
856650 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
856715 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
856742 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
856807 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
856829 GTTGACATCC
Statistics
Matches: 172, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
92 130 0.76
94 5 0.03
95 37 0.22
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:857801 original size:33 final size:33
Alignment explanation
Indices: 857764--857830 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
857754 TTCAATGATT
857764 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
857797 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
857830 T
1 T
857831 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:857802 original size:13 final size:13
Alignment explanation
Indices: 857784--857808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
857774 CATAAAATGT
857784 TGTATCGATACAA
1 TGTATCGATACAA
857797 TGTATCGATACA
1 TGTATCGATACA
857809 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:857891 original size:13 final size:13
Alignment explanation
Indices: 857873--857897 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
857863 ATTACTCACA
857873 TGTATCGATACAT
1 TGTATCGATACAT
857886 TGTATCGATACA
1 TGTATCGATACA
857898 CTGATTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:857962 original size:52 final size:52
Alignment explanation
Indices: 857906--858026 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
857896 CACTGATTTT
*
857906 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACAGTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
857958 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
858010 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
858027 TAACTTTTCA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:861355 original size:52 final size:52
Alignment explanation
Indices: 861244--861597 Score: 210
Period size: 52 Copynumber: 7.0 Consensus size: 52
861234 TATGCTGATT
* * * * * * *
861244 AGTGATATTGGGCTTACAGATG-TAAAGAATGTCAATGTGCTAATTCACA-GTC
1 AGTGACATTGGACTTAAAGATGAGAAAG-ATGCCAATGTGCTGATTCA-AGGCC
* * * *
861296 AGCGACATTAGACTTGAAGATGAGAAAAATGCCAATGTGCTGATTCAAGGCC
1 AGTGACATTGGACTTAAAGATGAGAAAGATGCCAATGTGCTGATTCAAGGCC
* * * ** * * *
861348 AGTGACATTGG-GTTTAGGAATGTTACAGATGCCAATATGCTGATTTAAGGCC
1 AGTGACATTGGACTTAAAG-ATGAGAAAGATGCCAATGTGCTGATTCAAGGCC
** * * * * *
861400 AGTGATTTTGGACTT--AGAGGTG-AAGGTGCTAATGTGCTGATTCAAGGGC
1 AGTGACATTGGACTTAAAGATGAGAAAGATGCCAATGTGCTGATTCAAGGCC
* * * *
861449 AGTGACATTGGACTTAAAGATGACAAAGACGCCAATATGTTGATTCAAGGCC
1 AGTGACATTGGACTTAAAGATGAGAAAGATGCCAATGTGCTGATTCAAGGCC
* * * * *
861501 AGCGATATTGGACTTAAAGAT--G-AAGGTGCCAATATGCTAATTCAAGGCC
1 AGTGACATTGGACTTAAAGATGAGAAAGATGCCAATGTGCTGATTCAAGGCC
** * * * * * *
861550 AACGACATCGGTCTTAAGGAT--G-AAGGTGGCAATATGCTGATTCAAGGC
1 AGTGACATTGGACTTAAAGATGAGAAAGATGCCAATGTGCTGATTCAAGGC
861598 TAGCGATATT
Statistics
Matches: 236, Mismatches: 59, Indels: 17
0.76 0.19 0.05
Matches are distributed among these distances:
49 98 0.42
50 3 0.01
51 10 0.04
52 120 0.51
53 5 0.02
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (52 bp):
AGTGACATTGGACTTAAAGATGAGAAAGATGCCAATGTGCTGATTCAAGGCC
Found at i:861452 original size:49 final size:49
Alignment explanation
Indices: 861325--861886 Score: 383
Period size: 49 Copynumber: 11.9 Consensus size: 49
861315 ATGAGAAAAA
* * ** * *
861325 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGGTTTAGGAATG-TTACAGA
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTA--AA-GATGA-AGG
* * * *
861377 TGCCAATATGCTGATTTAAGGCCAGTGATTTTGGACTTAGAGGTGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGG
* * * * *
861426 TGCTAATGTGCTGATTCAAGGGCAGTGACATTGGACTTAAAGATGACAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG---AAGG
* * *
861478 CGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGG
* ** * * * *
861527 TGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAGGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGG
* * * * *
861576 TGGCAATATGCTGATTCAAGGCTAGCGATATTGG-------GCT---CG
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGG
* * * * *
861615 TGCCAATATGCTAATTAAAGGCCAGAGACATTGGTCTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGG
* * *
861664 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGGC-T-----T----G
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGG
* * *
861703 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG--GCAAGG
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATG-AAGG
* *
861751 TGCCAATATGCTGATTCAAGGCTAGTGATATTGGAC-TCAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGAT-G--AAGG
* * *
861802 TGCCAATATGCTAATTCAAGGCCAGCGATATTGAACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGG
* *
861845 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAG
1 TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAG
861887 GTGCCACGGA
Statistics
Matches: 409, Mismatches: 68, Indels: 71
0.75 0.12 0.13
Matches are distributed among these distances:
39 63 0.15
40 1 0.00
42 2 0.00
43 42 0.10
46 2 0.00
47 4 0.01
48 35 0.09
49 145 0.35
50 4 0.01
51 36 0.09
52 75 0.18
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAGATGAAGG
Found at i:861453 original size:101 final size:101
Alignment explanation
Indices: 861325--861886 Score: 333
Period size: 101 Copynumber: 5.9 Consensus size: 101
861315 ATGAGAAAAA
* * * ** * *
861325 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGG-GTTTAGGAATGTTACAGATGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAG-ATGACAAAGACGCCAATATGCT
* * * * *
861389 GATTTAAGGCCAGTGATTTTGGACTTAGAGGTGAAGG
65 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
861426 TGCTAATGTGCTGATTCAAGGGCAGTGACATTGGACTTAAAGATGACAAAGACGCCAATATGTTG
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGACGCCAATATGCTG
861491 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * ** * * * ** *
861527 TGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAGGATG---AAGGTGGCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGACGCCAATATGCTG
* * *
861589 ATTCAAGGCTAGCGATATTGG-------GCT---CG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * * * ** *
861615 TGCCAATATGCTAATTAAAGGCCAGAGACATTGGTCTTAAAGATG---AAGGTGCCAATATGCTA
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGACGCCAATATGCTG
*
861677 ATTCAAGGCCAGCGATATTGGGC-T-----T----G
66 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * **
861703 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG--G-C-AAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGACGCCAATATGCTG
* * *
861764 ATTCAAGGCTAGTGATATTGGAC-TCAAGATGGTAAAGG
66 ATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGG
* * * * * * *
861802 TGCCAATATGCTAATTCAAGGCCAGCGATATTGAACTT-AA-A-G-----G-TGCCAATATGCTA
1 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGACGCCAATATGCTG
861858 ATTCAAGGCCAGCGATATTGGACTTAAAG
66 ATTCAAGGCCAGCGATATTGGACTTAAAG
861887 GTGCCACGGA
Statistics
Matches: 388, Mismatches: 54, Indels: 44
0.80 0.11 0.09
Matches are distributed among these distances:
86 1 0.00
87 37 0.10
88 116 0.30
89 1 0.00
91 2 0.01
92 1 0.00
94 33 0.09
95 5 0.01
98 36 0.09
99 35 0.09
101 117 0.30
102 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (101 bp):
TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGACGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:861636 original size:39 final size:39
Alignment explanation
Indices: 861579--861736 Score: 136
Period size: 39 Copynumber: 3.8 Consensus size: 39
861569 ATGAAGGTGG
* * *
861579 CAATATGCTGATTCAAGGCTAGCGATATTGGGCTCGTGC
1 CAATATGCTAATTCAAGGCCAGCGACATTGGGCTCGTGC
* * * *
861618 CAATATGCTAATTAAAGGCCAGAGACATTGGTCTTAAAGATGAAGGTGC
1 CAATATGCTAATTCAAGGCCAGCGACATTGG-------GCT---CGTGC
* *
861667 CAATATGCTAATTCAAGGCCAGCGATATTGGGCTTGTGC
1 CAATATGCTAATTCAAGGCCAGCGACATTGGGCTCGTGC
*
861706 CAATATGCTGATTCAAGGCCAGCGACATTGG
1 CAATATGCTAATTCAAGGCCAGCGACATTGG
861737 TCTTAAAGGC
Statistics
Matches: 95, Mismatches: 14, Indels: 20
0.74 0.11 0.16
Matches are distributed among these distances:
39 59 0.62
42 2 0.02
46 2 0.02
49 32 0.34
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (39 bp):
CAATATGCTAATTCAAGGCCAGCGACATTGGGCTCGTGC
Found at i:861675 original size:88 final size:88
Alignment explanation
Indices: 861526--861784 Score: 389
Period size: 88 Copynumber: 3.0 Consensus size: 88
861516 AAAGATGAAG
* * *
861526 GTGCCAATATGCTAATTCAAGGCCA-ACGACATCGGTCTTAAGGATGAAGGTGGCAATATGCTGA
1 GTGCCAATATGCTAATTCAAGGCCAGA-GACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGA
861590 TTCAAGGCTAGCGATATTGGGCTC
65 TTCAAGGCTAGCGATATTGGGCTC
* *
861614 GTGCCAATATGCTAATTAAAGGCCAGAGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTAAT
1 GTGCCAATATGCTAATTCAAGGCCAGAGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
* *
861679 TCAAGGCCAGCGATATTGGGCTT
66 TCAAGGCTAGCGATATTGGGCTC
* *
861702 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG--GCAAGGTGCCAATATGCTGA
1 GTGCCAATATGCTAATTCAAGGCCAGAGACATTGGTCTTAAAGATG-AAGGTGCCAATATGCTGA
*
861765 TTCAAGGCTAGTGATATTGG
65 TTCAAGGCTAGCGATATTGG
861785 ACTCAAGATG
Statistics
Matches: 156, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
86 1 0.01
87 35 0.22
88 119 0.76
89 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (88 bp):
GTGCCAATATGCTAATTCAAGGCCAGAGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAT
TCAAGGCTAGCGATATTGGGCTC
Found at i:861832 original size:22 final size:22
Alignment explanation
Indices: 861807--861875 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
861797 AAAGGTGCCA
861807 ATATGCTAATTCAAGGCCAGCG
1 ATATGCTAATTCAAGGCCAGCG
*
861829 ATAT--TGAACTTAAAGGTGCCA---
1 ATATGCT-AA-TTCAA-G-GCCAGCG
861850 ATATGCTAATTCAAGGCCAGCG
1 ATATGCTAATTCAAGGCCAGCG
861872 ATAT
1 ATAT
861876 TGGACTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 18
0.64 0.04 0.32
Matches are distributed among these distances:
19 4 0.11
20 2 0.06
21 10 0.28
22 14 0.39
23 2 0.06
24 4 0.11
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (22 bp):
ATATGCTAATTCAAGGCCAGCG
Found at i:861857 original size:43 final size:43
Alignment explanation
Indices: 861796--861892 Score: 185
Period size: 43 Copynumber: 2.3 Consensus size: 43
861786 CTCAAGATGG
861796 TAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGAACT
1 TAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGAACT
*
861839 TAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGACT
1 TAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGAACT
861882 TAAAGGTGCCA
1 TAAAGGTGCCA
861893 CGGAGTTGTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (43 bp):
TAAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGAACT
Found at i:861865 original size:21 final size:21
Alignment explanation
Indices: 861798--861865 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
861788 CAAGATGGTA
861798 AAGGTGCCAATATGCTAATTC
1 AAGGTGCCAATATGCTAATTC
*
861819 AA-G-GCCAGCGATAT--TGAACTTA
1 AAGGTGCCA---ATATGCT-AA-TTC
861841 AAGGTGCCAATATGCTAATTC
1 AAGGTGCCAATATGCTAATTC
861862 AAGG
1 AAGG
861866 CCAGCGATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 18
0.64 0.04 0.32
Matches are distributed among these distances:
19 4 0.11
20 2 0.06
21 14 0.39
22 10 0.28
23 2 0.06
24 4 0.11
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (21 bp):
AAGGTGCCAATATGCTAATTC
Found at i:861881 original size:94 final size:96
Alignment explanation
Indices: 861702--861881 Score: 256
Period size: 94 Copynumber: 1.9 Consensus size: 96
861692 TATTGGGCTT
* ** *
861702 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGCAAGGTGCCAATATGCTGATT
1 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGAACTT-AA-G-AAGGTGCCAATATGCTAATT
* *
861767 CAAGGCTAGTGATATTGGACTCAAGATGGTAAAG
63 CAAGGCCAGCGATATTGGACTCAAGATGGTAAAG
*
861801 GTGCCAATATGCTAATTCAAGGCCAGCGATATTGAACTT-A-AAGGTGCCAATATGCTAATTCAA
1 GTGCCAATATGCTAATTCAAGGCCAGCGACATTGAACTTAAGAAGGTGCCAATATGCTAATTCAA
861864 GGCCAGCGATATTGGACT
66 GGCCAGCGATATTGGACT
861882 TAAAGGTGCC
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
94 38 0.51
97 1 0.01
99 35 0.47
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (96 bp):
GTGCCAATATGCTAATTCAAGGCCAGCGACATTGAACTTAAGAAGGTGCCAATATGCTAATTCAA
GGCCAGCGATATTGGACTCAAGATGGTAAAG
Found at i:861926 original size:34 final size:32
Alignment explanation
Indices: 861883--862071 Score: 166
Period size: 34 Copynumber: 5.7 Consensus size: 32
861873 TATTGGACTT
861883 AAAGGTGCCACGGAGTTGTGGACTTACAGAA-AA
1 AAAGGTGCCACGGAGTTGTGGACTTA-A-AAGAA
* * *
861916 AAAGGATGCCACGGAGGTGTGGGCATAAAAGGGAA
1 AAAGG-TGCCACGGAGTTGTGGACTTAAAA--GAA
* * **
861951 AAGGGTGCCACAGAGTCATGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GAA
* *
861984 AAATGTGCCATGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAA-GAA
*
862017 AAAGATGCCATC-GAGTTGTGGACTTTGAAAAGAA
1 AAAGGTGCCA-CGGAGTTGTGGAC-TT-AAAAGAA
* *
862051 AAAGGTGCCACTGACTTGTGG
1 AAAGGTGCCACGGAGTTGTGG
862072 GTTTTTAAAG
Statistics
Matches: 127, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
32 2 0.02
33 57 0.45
34 58 0.46
35 10 0.08
ACGTcount: A:0.36, C:0.13, G:0.32, T:0.19
Consensus pattern (32 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGAA
Found at i:861992 original size:33 final size:32
Alignment explanation
Indices: 861883--862071 Score: 159
Period size: 33 Copynumber: 5.6 Consensus size: 32
861873 TATTGGACTT
861883 AAAGGTGCCACGGAGTTGTGGACTTACAGAA--AA
1 AAAGGTGCCAC-GAGTTGTGGACTTA-A-AAGGAA
* * *
861916 AAAGGATGCCACGGAGGTGTGGGCATAAAAGGGAA
1 AAAGG-TGCCAC-GAGTTGTGGACTTAAAA-GGAA
* **
861951 AAGGGTGCCACAGAGTCATGGACTTAAAAGGAA
1 AAAGGTGCCAC-GAGTTGTGGACTTAAAAGGAA
* *
861984 AAATGTGCCATGGAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCA-CGAGTTGTGGACTTAAAAGGAA
*
862017 AAAGATGCCATCGAGTTGTGGACTTTGAAAA-GAA
1 AAAGGTGCCA-CGAGTTGTGGAC-TT-AAAAGGAA
*
862051 AAAGGTGCCACTGACTTGTGG
1 AAAGGTGCCAC-GAGTTGTGG
862072 GTTTTTAAAG
Statistics
Matches: 128, Mismatches: 20, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
32 2 0.02
33 58 0.45
34 58 0.45
35 10 0.08
ACGTcount: A:0.36, C:0.13, G:0.32, T:0.19
Consensus pattern (32 bp):
AAAGGTGCCACGAGTTGTGGACTTAAAAGGAA
Found at i:862142 original size:30 final size:30
Alignment explanation
Indices: 862048--862162 Score: 148
Period size: 28 Copynumber: 4.0 Consensus size: 30
862038 ACTTTGAAAA
*
862048 GAAAAAGGTGCCACTGACTTGTGGG-TTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTTT
* * *
862077 -TAAAGGTTGCCACTGACTTGTGGGC-TTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTTT
*
862105 G-AAAAGATGCCAGTGACTTGTGGGCTTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTTT
*
862134 GAAAAAGATGCCGCTGACTTGTGGGCTTT
1 GAAAAAGATGCCACTGACTTGTGGGCTTT
862163 GGAAGGTGAG
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
28 45 0.61
29 4 0.05
30 25 0.34
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (30 bp):
GAAAAAGATGCCACTGACTTGTGGGCTTTT
Found at i:862574 original size:37 final size:37
Alignment explanation
Indices: 862528--862612 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
862518 AAAGATGAAG
862528 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
*
862565 CACAGATGCATCATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
862602 CACAAATGCAT
1 CACAAATGCAT
862613 GATTGTGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.26
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
Found at i:863649 original size:1 final size:1
Alignment explanation
Indices: 863645--863708 Score: 65
Period size: 1 Copynumber: 64.0 Consensus size: 1
863635 CTTTTTGTTG
* * * * * * *
863645 TTTTTTTTTGTTTGTTTGTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
863709 GCGGATGATG
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (1 bp):
T
Found at i:863662 original size:8 final size:8
Alignment explanation
Indices: 863647--863708 Score: 99
Period size: 8 Copynumber: 7.8 Consensus size: 8
863637 TTTTGTTGTT
863647 TTTTTTTG
1 TTTTTTTG
*
863655 TTTGTTTG
1 TTTTTTTG
863663 TTTTTTTTG
1 -TTTTTTTG
863672 TTTTTTTG
1 TTTTTTTG
863680 TTTTTTTG
1 TTTTTTTG
863688 TTTTTTTG
1 TTTTTTTG
863696 TTTTTTT-
1 TTTTTTTG
863703 TTTTTT
1 TTTTTT
863709 GCGGATGATG
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
7 6 0.12
8 38 0.75
9 7 0.14
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (8 bp):
TTTTTTTG
Found at i:863668 original size:16 final size:16
Alignment explanation
Indices: 863636--863702 Score: 86
Period size: 16 Copynumber: 4.3 Consensus size: 16
863626 ATCCGAACCC
863636 TTTTTG-TTG-TT-TT
1 TTTTTGTTTGTTTGTT
863649 TTTTTGTTTGTTTGTTT
1 TTTTTGTTTGTTTG-TT
*
863666 TTTTTGTTTTTTTGTT
1 TTTTTGTTTGTTTGTT
*
863682 TTTTTGTTTTTTTGTT
1 TTTTTGTTTGTTTGTT
863698 TTTTT
1 TTTTT
863703 TTTTTTGCGG
Statistics
Matches: 49, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
13 6 0.12
14 3 0.06
15 2 0.04
16 23 0.47
17 15 0.31
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (16 bp):
TTTTTGTTTGTTTGTT
Found at i:863708 original size:17 final size:17
Alignment explanation
Indices: 863636--863708 Score: 94
Period size: 17 Copynumber: 4.3 Consensus size: 17
863626 ATCCGAACCC
*
863636 TTTTTGTTGTTTTTTTT
1 TTTTTTTTGTTTTTTTT
*
863653 TGTTTGTTTGTTTTTTTT
1 T-TTTTTTTGTTTTTTTT
*
863671 GTTTTTTTG-TTTTTTT
1 TTTTTTTTGTTTTTTTT
*
863687 GTTTTTTTGTTTTTTTT
1 TTTTTTTTGTTTTTTTT
863704 TTTTT
1 TTTTT
863709 GCGGATGATG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
16 16 0.33
17 19 0.39
18 14 0.29
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTTT
Found at i:870084 original size:13 final size:13
Alignment explanation
Indices: 870066--870122 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
870056 TTCAACAATT
870066 TGTATCGATACAA
1 TGTATCGATACAA
870079 TGTATCGATACATAA
1 TGTATCGATAC--AA
870094 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
870111 TGTATCGATACA
1 TGTATCGATACA
870123 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:870103 original size:19 final size:18
Alignment explanation
Indices: 870079--870139 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
870069 ATCGATACAA
870079 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
870098 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
870111 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
870130 TGTATCGATA
1 TGTATCGATA
870140 TAATGTATCA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
15 2 0.06
17 2 0.06
19 21 0.58
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:870106 original size:32 final size:32
Alignment explanation
Indices: 870065--870148 Score: 150
Period size: 32 Copynumber: 2.6 Consensus size: 32
870055 TTTCAACAAT
870065 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
870097 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
870129 TTGTATCGATATAATGTATC
1 TTGTATCGATACAATGTATC
870149 ACTACAAAGC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:870211 original size:13 final size:13
Alignment explanation
Indices: 870193--870218 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
870183 CATTATTCCA
870193 TGTATCGATACAT
1 TGTATCGATACAT
870206 TGTATCGATACAT
1 TGTATCGATACAT
870219 GGATTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:877707 original size:9 final size:9
Alignment explanation
Indices: 877695--877749 Score: 67
Period size: 10 Copynumber: 5.8 Consensus size: 9
877685 AAAAAGAGAG
877695 AAAAAAAAC
1 AAAAAAAAC
877704 AAAACAAAAC
1 AAAA-AAAAC
877714 AAAAAAAAC
1 AAAAAAAAC
877723 AACAAAAAA-
1 AA-AAAAAAC
877732 AAATAAAAAC
1 AAA-AAAAAC
877742 AACAAAAA
1 AA-AAAAA
877750 GGGTCTGGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
8 1 0.02
9 18 0.44
10 21 0.51
11 1 0.02
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:877717 original size:19 final size:18
Alignment explanation
Indices: 877695--877749 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 18
877685 AAAAAGAGAG
877695 AAAAAAAACAA-AACAAAA
1 AAAAAAAACAACAA-AAAA
877713 CAAAAAAAACAACAAAAAA
1 -AAAAAAAACAACAAAAAA
877732 AAATAAAAACAACAAAAA
1 AAA-AAAAACAACAAAAA
877750 GGGTCTGGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.09
19 29 0.85
20 2 0.06
ACGTcount: A:0.85, C:0.13, G:0.00, T:0.02
Consensus pattern (18 bp):
AAAAAAAACAACAAAAAA
Found at i:877734 original size:22 final size:22
Alignment explanation
Indices: 877681--877746 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
877671 TCCTCCGCAA
*
877681 AAAAAAAAAGAGAGAAAAAA-AAC
1 AAAAAAAAACA-A-AAAAAACAAC
*
877704 AAAACAAAACAAAAAAAACAAC
1 AAAAAAAAACAAAAAAAACAAC
* *
877726 AAAAAAAAATAAAAACAACAA
1 AAAAAAAAACAAAAAAAACAA
877747 AAAGGGTCTG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 6 0.16
22 22 0.59
23 9 0.24
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.02
Consensus pattern (22 bp):
AAAAAAAAACAAAAAAAACAAC
Found at i:879221 original size:28 final size:28
Alignment explanation
Indices: 879183--879362 Score: 213
Period size: 28 Copynumber: 6.3 Consensus size: 28
879173 TCCTCACCCT
879183 TTCAAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
879211 TTCAAAAGCCCACAAGTCAGTGGC-ACC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
*
879238 TTTTCCCAAAGCCCAC-AGTCAGTGGCAACC
1 --TT-CAAAAGCCCACAAGTCAGTGGCAACC
*
879268 TTCAAAAGCCCACAAGTCAGTGGCACCC
1 TTCAAAAGCCCACAAGTCAGTGGCAACC
* * *
879296 TTTCCCAAAGCCCACAAGTCAGTGGCATCTT
1 -TT-CAAAAGCCCACAAGTCAGTGGCAAC-C
* *
879327 TTCCAAAGCCCACAAG-CTAATGGCAACC
1 TTCAAAAGCCCACAAGTC-AGTGGCAACC
879355 TTCAAAAG
1 TTCAAAAG
879363 TCTACAACTC
Statistics
Matches: 133, Mismatches: 10, Indels: 18
0.83 0.06 0.11
Matches are distributed among these distances:
27 13 0.10
28 47 0.35
29 35 0.26
30 38 0.29
ACGTcount: A:0.32, C:0.33, G:0.17, T:0.18
Consensus pattern (28 bp):
TTCAAAAGCCCACAAGTCAGTGGCAACC
Found at i:879251 original size:30 final size:28
Alignment explanation
Indices: 879180--879342 Score: 206
Period size: 30 Copynumber: 5.7 Consensus size: 28
879170 CGTTCCTCAC
*
879180 CCTTTCAAAAGCCCACAAGTCAGTGGCAA
1 CCTTTCCAAAGCCCACAAGTCAGTGGC-A
*
879209 CC-TTCAAAAGCCCACAAGTCAGTGGCA
1 CCTTTCCAAAGCCCACAAGTCAGTGGCA
879236 CCTTTTCCCAAAGCCCAC-AGTCAGTGGCAA
1 CC-TTT-CCAAAGCCCACAAGTCAGTGGC-A
*
879266 CC-TTCAAAAGCCCACAAGTCAGTGGCA
1 CCTTTCCAAAGCCCACAAGTCAGTGGCA
879293 CCCTTTCCCAAAGCCCACAAGTCAGTGGCA
1 -CCTTT-CCAAAGCCCACAAGTCAGTGGCA
*
879323 TCTTTTCCAAAGCCCACAAG
1 -CCTTTCCAAAGCCCACAAG
879343 CTAATGGCAA
Statistics
Matches: 121, Mismatches: 5, Indels: 16
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.12
28 38 0.31
29 30 0.25
30 39 0.32
ACGTcount: A:0.31, C:0.35, G:0.17, T:0.18
Consensus pattern (28 bp):
CCTTTCCAAAGCCCACAAGTCAGTGGCA
Found at i:879267 original size:57 final size:58
Alignment explanation
Indices: 879177--879342 Score: 264
Period size: 57 Copynumber: 2.9 Consensus size: 58
879167 AGACGTTCCT
*
879177 CACCCTTT-CAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
1 CACCCTTTCCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
*
879234 CACCTTTTCCCAAAGCCCAC-AGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
1 CACCCTTTCCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
* * *
879291 CACCCTTTCCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAGCCCACAAG
1 CACCCTTTCCCAAAGCCCACAAGTCAGTGGCAAC-CTTCAAAAGCCCACAAG
879343 CTAATGGCAA
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
57 63 0.63
58 22 0.22
59 15 0.15
ACGTcount: A:0.31, C:0.36, G:0.16, T:0.17
Consensus pattern (58 bp):
CACCCTTTCCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGG
Found at i:879328 original size:87 final size:85
Alignment explanation
Indices: 879183--879381 Score: 276
Period size: 87 Copynumber: 2.3 Consensus size: 85
879173 TCCTCACCCT
*
879183 TTCAAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCCCAAA
1 TTCAAAAGCCCACAAGTCAGTGGCACCCTTCAAAAGCCCACAAGTCAGTGGCACCTTTT-CCAAA
*
879248 GCCCAC-AG-TCAGTGGCAACC
65 GCCCACAAGCT-AATGGCAACC
* *
879268 TTCAAAAGCCCACAAGTCAGTGGCACCCTTTCCCAAAGCCCACAAGTCAGTGGCATCTTTTCCAA
1 TTCAAAAGCCCACAAGTCAGTGGCACCC-TT-CAAAAGCCCACAAGTCAGTGGCACCTTTTCCAA
879333 AGCCCACAAGCTAATGGCAACC
64 AGCCCACAAGCTAATGGCAACC
* * * *
879355 TTCAAAAGTCTACAACTCCGTGGCACC
1 TTCAAAAGCCCACAAGTCAGTGGCACC
879382 TTTTTTCTTT
Statistics
Matches: 102, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
85 27 0.26
86 13 0.13
87 61 0.60
88 1 0.01
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.18
Consensus pattern (85 bp):
TTCAAAAGCCCACAAGTCAGTGGCACCCTTCAAAAGCCCACAAGTCAGTGGCACCTTTTCCAAAG
CCCACAAGCTAATGGCAACC
Found at i:879445 original size:69 final size:69
Alignment explanation
Indices: 879360--879724 Score: 531
Period size: 69 Copynumber: 5.3 Consensus size: 69
879350 CAACCTTCAA
* **
879360 AAGTCTACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTCC
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
*
879425 TTCT
66 TTTT
* * *
879429 AAGTCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCTGTGGCATTCTTTTTCC
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
879494 TTTT
66 TTTT
* * *
879498 AAGCCCACAACTCCGTGGCA-CTCTTTTTCCTTTT-AAGCCCACAACTCCATGGCACTCTTTTTC
1 AAGTCCACAACTCCGTGGCACCT-TTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
*
879561 CTTCT
65 CTTTT
* *
879566 AAGTCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCGGTGGCACTCTTTTTCC
1 AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
879631 TTTT
66 TTTT
* * * *
879635 AAGCCCATAACTCCGTGGCA-CTCTTTTTCCTTTT-AAGCCCACAACTCCATGGCACTCTTTTTC
1 AAGTCCACAACTCCGTGGCACCT-TTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
879698 CTTTT
65 CTTTT
879703 AAGTCCACAACTCCGTGGCACC
1 AAGTCCACAACTCCGTGGCACC
879725 CTTATAAGCC
Statistics
Matches: 265, Mismatches: 26, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
68 112 0.42
69 153 0.58
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (69 bp):
AAGTCCACAACTCCGTGGCACCTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
TTTT
Found at i:879447 original size:34 final size:34
Alignment explanation
Indices: 879366--879723 Score: 497
Period size: 34 Copynumber: 10.4 Consensus size: 34
879356 TCAAAAGTCT
*
879366 ACAACTCCGTGGCAC-CTTTTTTCTTTTTAAAGCCC
1 ACAACTCCGTGGCACTC-TTTTTCCTTTT-AAGCCC
** * *
879401 ACAACTTTGTGGCACTCTTTTTCCTTCTAAGTCC
1 ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCC
*
879435 ACAACTCCGTGGCAC-CTTTCTTCTTTTTAAAGCCC
1 ACAACTCCGTGGCACTCTTT-TTCCTTTT-AAGCCC
* *
879470 ACAACTCTGTGGCATTCTTTTTCCTTTTAAGCCC
1 ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCC
879504 ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCC
1 ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCC
* * *
879538 ACAACTCCATGGCACTCTTTTTCCTTCTAAGTCC
1 ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCC
*
879572 ACAACTCCGTGGCAC-CTTTCTTCTTTTTAAAGCCC
1 ACAACTCCGTGGCACTCTTT-TTCCTTTT-AAGCCC
*
879607 ACAACTCGGTGGCACTCTTTTTCCTTTTAAGCCC
1 ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCC
*
879641 ATAACTCCGTGGCACTCTTTTTCCTTTTAAGCCC
1 ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCC
* *
879675 ACAACTCCATGGCACTCTTTTTCCTTTTAAGTCC
1 ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCC
879709 ACAACTCCGTGGCAC
1 ACAACTCCGTGGCAC
879724 CCTTATAAGC
Statistics
Matches: 286, Mismatches: 30, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
33 8 0.03
34 196 0.69
35 73 0.26
36 9 0.03
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (34 bp):
ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCC
Found at i:879572 original size:137 final size:137
Alignment explanation
Indices: 879366--879724 Score: 621
Period size: 137 Copynumber: 2.6 Consensus size: 137
879356 TCAAAAGTCT
* ***
879366 ACAACTCCGTGGCAC-CTTTTTTCTTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTCCTTCTA
1 ACAACTCCGTGGCACTC-TTTTTCCTTTT-AAGCCCACAACTCCATGGCACTCTTTTTCCTTCTA
* *
879430 AGTCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCTGTGGCATTCTTTTTCCT
64 AGTCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCGGTGGCACTCTTTTTCCT
879495 TTTAAGCCC
129 TTTAAGCCC
879504 ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAG
1 ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAG
879569 TCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCGGTGGCACTCTTTTTCCTTT
66 TCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCGGTGGCACTCTTTTTCCTTT
879634 TAAGCCC
131 TAAGCCC
* *
879641 ATAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAG
1 ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAG
879706 TCCACAACTCCGTGGCACC
66 TCCACAACTCCGTGGCACC
879725 CTTATAAGCC
Statistics
Matches: 212, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
137 186 0.88
138 25 0.12
139 1 0.00
ACGTcount: A:0.19, C:0.33, G:0.12, T:0.36
Consensus pattern (137 bp):
ACAACTCCGTGGCACTCTTTTTCCTTTTAAGCCCACAACTCCATGGCACTCTTTTTCCTTCTAAG
TCCACAACTCCGTGGCACCTTTCTTCTTTTTAAAGCCCACAACTCGGTGGCACTCTTTTTCCTTT
TAAGCCC
Found at i:879807 original size:27 final size:30
Alignment explanation
Indices: 879751--879831 Score: 89
Period size: 28 Copynumber: 2.7 Consensus size: 30
879741 TCGACGGGAC
* *
879751 CCCTTTTAAAGCCCACAAGTT-AGTGACAA
1 CCCTTTAAAAGCACACAAGTTGAGTGACAA
879780 -CCTTTAAAAGCACACAAGTTGA-TG-CAA
1 CCCTTTAAAAGCACACAAGTTGAGTGACAA
879807 CCCTTTCAAAAGCCCACACAAGTTG
1 CCCTTT-AAAAG--CACACAAGTTG
879832 GTGGCGTCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
27 3 0.07
28 25 0.56
29 6 0.13
31 11 0.24
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (30 bp):
CCCTTTAAAAGCACACAAGTTGAGTGACAA
Found at i:879938 original size:21 final size:22
Alignment explanation
Indices: 879913--879974 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
879903 AATATCGCTG
879913 GCCTTGAATCAGCATATTGACA
1 GCCTTGAATCAGCATATTGACA
* * **
879935 -CCTTGAAGTCCG-ATATCGTTA
1 GCCTTGAA-TCAGCATATTGACA
879956 GCCTTGAATCAGCATATTG
1 GCCTTGAATCAGCATATTG
879975 GCATTGGCAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
21 16 0.52
22 15 0.48
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (22 bp):
GCCTTGAATCAGCATATTGACA
Found at i:879972 original size:22 final size:22
Alignment explanation
Indices: 879904--879972 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
879894 TTAAAACCCA
* *
879904 ATATCGCTGGCCTTGAATCAGC
1 ATATCGATAGCCTTGAATCAGC
* * *
879926 ATATTGACA-CCTTGAAGTCCG-
1 ATATCGATAGCCTTGAA-TCAGC
*
879947 ATATCGTTAGCCTTGAATCAGC
1 ATATCGATAGCCTTGAATCAGC
879969 ATAT
1 ATAT
879973 TGGCATTGGC
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
21 16 0.46
22 19 0.54
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (22 bp):
ATATCGATAGCCTTGAATCAGC
Found at i:880105 original size:87 final size:87
Alignment explanation
Indices: 879846--880152 Score: 348
Period size: 87 Copynumber: 3.4 Consensus size: 87
879836 CGTCTTCTTC
* * * * *
879846 TAAGTCCAATATCGTTGGCCTTGAACCAGCATATTGGCACCTTTATCTTTAAAACCCAATATCGC
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGA-CCAATGTCGT
* *
879911 TGGCCTTGAATCAGCATATTGACA
64 TGGCCTTGAATCAGCACATTGGCA
* * *
879935 CCTTGAAGTCCGATATCGTTAGCCTTGAATCAGCATATTGGCA--TTGGCATCTTTAAGACTAAT
1 ---T-AAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTT-G--TCTTTAAGACCAAT
* *
879998 GTTGTTGGCCTTAAATCAGCACATTGGCA
59 GTCGTTGGCCTTGAATCAGCACATTGGCA
* * * *
880027 TAAGTCCAATATCGCTGGCTTTGAATCGGCATATTGGCACCTTGTCTTTAAGTCCAATGTCGTTG
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGTTG
*
880092 GCCTTGAATCAGCACATTAGCA
66 GCCTTGAATCAGCACATTGGCA
* *
880114 GAAGTCCAATATCGTTGGCCGTGAATCAGCATATTGGCA
1 TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCA
880153 TCTTTATCAC
Statistics
Matches: 182, Mismatches: 27, Indels: 17
0.81 0.12 0.08
Matches are distributed among these distances:
87 72 0.40
88 33 0.18
89 2 0.01
90 4 0.02
92 28 0.15
93 43 0.24
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (87 bp):
TAAGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGTTG
GCCTTGAATCAGCACATTGGCA
Found at i:880994 original size:13 final size:13
Alignment explanation
Indices: 880976--881000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
880966 TTCAACAATT
880976 TGTATCGATACAA
1 TGTATCGATACAA
880989 TGTATCGATACA
1 TGTATCGATACA
881001 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:881017 original size:19 final size:19
Alignment explanation
Indices: 880989--881102 Score: 108
Period size: 19 Copynumber: 6.6 Consensus size: 19
880979 ATCGATACAA
880989 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
881008 TGTATTGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
881027 TTTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
881040 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
881059 TTTATCGATAC--AA----
1 TGTATCGATACATAAGTGT
*
881072 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
881091 TGTATCGATACA
1 TGTATCGATACA
881103 ATGTATCGCT
Statistics
Matches: 77, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
13 20 0.26
15 4 0.05
17 4 0.05
19 49 0.64
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:881044 original size:32 final size:32
Alignment explanation
Indices: 881008--881118 Score: 181
Period size: 32 Copynumber: 3.5 Consensus size: 32
880998 ACATAAGTGT
*
881008 TGTATTGATACATAAGTGTTTTATCGATACAA
1 TGTATCGATACATAAGTGTTTTATCGATACAA
881040 TGTATCGATACATAAGTGTTTTATCGATACAA
1 TGTATCGATACATAAGTGTTTTATCGATACAA
881072 TGTATCGATACATAAGT-TTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTT-TATCGATACAA
*
881104 TGTATCGCTAC-TAAG
1 TGTATCGATACATAAG
881119 CTACTATTAA
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
31 7 0.09
32 69 0.91
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTTTATCGATACAA
Found at i:881047 original size:13 final size:13
Alignment explanation
Indices: 881029--881083 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 13
881019 ATAAGTGTTT
881029 TATCGATACAATG
1 TATCGATACAATG
881042 TATCGATACATAAGTG
1 TATCGATAC--AA-TG
881058 TTTTATCGATACAATG
1 ---TATCGATACAATG
881074 TATCGATACA
1 TATCGATACA
881084 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 19 0.53
15 2 0.06
16 4 0.11
17 2 0.06
19 9 0.25
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.35
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:881172 original size:13 final size:13
Alignment explanation
Indices: 881154--881179 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
881144 CATTATTCCA
881154 TGTATCGATACAT
1 TGTATCGATACAT
881167 TGTATCGATACAT
1 TGTATCGATACAT
881180 GGATTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:894257 original size:61 final size:59
Alignment explanation
Indices: 894125--894699 Score: 647
Period size: 61 Copynumber: 9.6 Consensus size: 59
894115 AACCTTTTAT
* * * * *
894125 CCTTTTAGTCCTCAAAAAGCATGACGCCTTTTTCCCTTTAAAGCCCATACAAG-T--T-GCA
1 CCTTTTAGTCCTCAAAGAGCAAGAC-AC--TTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
894183 CTTTTTAGTCCTCAAAGAGCAGGACACCTTTCCTTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGACA-CTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCA
* * *
894244 CTTTTTAGTCCTCAAAGAGCAAGACACTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGACACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
894303 CCTTCTAGTCCTCAAAGAGCAGGACACCTTCTCTTTCATAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGACACTTTC-CTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
894363 CCTTTCAGTTCTCAAAGAGCAAGACACCTTCTCCTTTTAATGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGACA-CTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
894424 CCTTTCAGTCCTCAAAGAGCAAGATGC-CTTCTCCTTTTAAAGCCCACACAAGTTAGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGA--CACTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
894485 CATTTCAGTCCTCAAAGAGCAGGACATTTTTCTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGACACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
894544 CCTTCTAGTCCTCAAAGAGCAAGACATTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGACACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * ** * *
894603 CCTTCTAGTCCTCAAAGAGTAGGATGCTTTCTCCTTTTAAAGCCCATACAAGTTGGTGGTA
1 CCTTTTAGTCCTCAAAGAGCAAGACAC-TT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
894664 CCTTTTAGTCCTCAAAAAGCAAGACACTTTCTTTTT
1 CCTTTTAGTCCTCAAAGAGCAAGACACTTTCCTTTT
894700 TATTTTAAAG
Statistics
Matches: 447, Mismatches: 56, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
56 5 0.01
57 15 0.03
58 24 0.05
59 159 0.36
60 61 0.14
61 180 0.40
62 2 0.00
63 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (59 bp):
CCTTTTAGTCCTCAAAGAGCAAGACACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:894323 original size:120 final size:120
Alignment explanation
Indices: 894188--894752 Score: 642
Period size: 120 Copynumber: 4.7 Consensus size: 120
894178 TTGCACTTTT
* * * *
894188 TAGTCCTCAAAGAGCAGGACACCTTTCCTTTTTAAAGCCTACACAAGTTGGTGGCACTTTTTAGT
1 TAGTCCTCAAAGAGCAAGACACCTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
*
894253 CCTCAAAGAGCAAGACACTTTTCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
66 CCTCAAAGAGCAAGACACTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * *
894308 TAGTCCTCAAAGAGCAGGACACC-TT-CTCTTTCATAGCCCACACAAGTTGGTGGCACCTTTCAG
1 TAGTCCTCAAAGAGCAAGACACCTTTCCT-TTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* * *
894371 TTCTCAAAGAGCAAGACACCTTCTCCTTTTAATGCCCACACAAGTTGGTGGCACCTT-
65 TCCTCAAAGAGCAAGACA-CTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
** * *
894428 TCAGTCCTCAAAGAGCAAGATGCCTTCTCC-TTTTAAAGCCCACACAAGTTAGTGGCACATTTCA
1 T-AGTCCTCAAAGAGCAAGACACCTT-TCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCA
* * *
894492 GTCCTCAAAGAGCAGGACATTTTTCTTTTAAAGCCCACATAAGTTGGTGGCACCTTC
64 GTCCTCAAAGAGCAAGACACTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
894549 TAGTCCTCAAAGAGCAAGACA-TTTTCC-TTTCAAAGCCCACACAAGTTGGTGGCACC-TTCTAG
1 TAGTCCTCAAAGAGCAAGACACCTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC-AG
* * ** * * *
894611 TCCTCAAAGAGTAGGATGCTTTCTCCTTTTAAAGCCCATACAAGTTGGTGGTACCTTT
65 TCCTCAAAGAGCAAGACACTTT-T-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* ** * * *
894669 TAGTCCTCAAAAAGCAAGACACTTTCTTTTTTATTTTAAAGCCCACACAAGCTGGTGGTATC-TT
1 TAGTCCTCAAAGAGCAAGACAC---CTTTCCT-TTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
894733 CTAGTCCTTAAAGAGTAAGA
62 C-AGTCCTCAAAGAGCAAGA
894753 TGCCTCTCTC
Statistics
Matches: 382, Mismatches: 46, Indels: 28
0.84 0.10 0.06
Matches are distributed among these distances:
117 3 0.01
118 51 0.13
119 52 0.14
120 125 0.33
121 53 0.14
122 48 0.13
123 1 0.00
124 4 0.01
126 45 0.12
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (120 bp):
TAGTCCTCAAAGAGCAAGACACCTTTCCTTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
CCTCAAAGAGCAAGACACTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:894794 original size:69 final size:65
Alignment explanation
Indices: 894221--894795 Score: 247
Period size: 61 Copynumber: 9.3 Consensus size: 65
894211 TTTCCTTTTT
* * * * * * *
894221 AAAGCCTACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAAGACA----CTTTTCT-T-TC
1 AAAGCCCATACAAGTTGGTGGTACCTTCTAGTCCTCAAAAAGCAAGACACTTTCTTTTTTATCTC
* * * * * *
894280 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACAC---CTTCTCT-T-TC
1 AAAGCCCATACAAGTTGGTGGTACCTTCTAGTCCTCAAAAAGCAAGACACTTTCTTTTTTATCTC
* * * * * * **
894340 ATAGCCCACACAAGTTGGTGGCACCTT-TCAGTTCTCAAAGAGCAAGACACCTTC-TCCTT-T-T
1 AAAGCCCATACAAGTTGGTGGTACCTTCT-AGTCCTCAAAAAGCAAGACACTTTCTTTTTTATCT
894401 -
65 C
* * * * ** * **
894401 AATGCCCACACAAGTTGGTGGCACCTT-TCAGTCCTCAAAGAGCAAGATGCCTTC-TCCTT-T-T
1 AAAGCCCATACAAGTTGGTGGTACCTTCT-AGTCCTCAAAAAGCAAGACACTTTCTTTTTTATCT
894462 -
65 C
* * * * * * *
894462 AAAGCCCACACAAGTTAGTGGCACATT-TCAGTCCTCAAAGAGCAGGACA--TT-TTTCTT-T-T
1 AAAGCCCATACAAGTTGGTGGTACCTTCT-AGTCCTCAAAAAGCAAGACACTTTCTTTTTTATCT
894521 -
65 C
* * * * **
894521 AAAGCCCACATAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAAGACA---T-TTTCCT-T-TC
1 AAAGCCCATACAAGTTGGTGGTACCTTCTAGTCCTCAAAAAGCAAGACACTTTCTTTTTTATCTC
* * * * * ** **
894580 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTAGGATGCTTTC-TCCTT-T-T-
1 AAAGCCCATACAAGTTGGTGGTACCTTCTAGTCCTCAAAAAGCAAGACACTTTCTTTTTTATCTC
* * *
894641 AAAGCCCATACAAGTTGGTGGTACCTTTTAGTCCTCAAAAAGCAAGACACTTTCTTTTTTATTTT
1 AAAGCCCATACAAGTTGGTGGTACCTTCTAGTCCTCAAAAAGCAAGACACTTTCTTTTTTATCTC
* * * * * *
894706 AAAGCCCACACAAGCTGGTGGTATCTTCTAGTCCTTAAAGAGTAAGATGC-CTCTCTCTTTTTCT
1 AAAGCCCATACAAGTTGGTGGTACCTTCTAGTCCTCAAAAAGCAAGA--CACT-T-TCTTTTT-T
894770 ATCTC
61 ATCTC
*
894775 AAAGCCCATACAAATTGGTGG
1 AAAGCCCATACAAGTTGGTGG
894796 CACATATCTA
Statistics
Matches: 439, Mismatches: 56, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
58 8 0.02
59 141 0.32
60 55 0.13
61 145 0.33
62 14 0.03
63 2 0.00
64 1 0.00
65 40 0.09
66 2 0.00
67 2 0.00
68 7 0.02
69 22 0.05
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (65 bp):
AAAGCCCATACAAGTTGGTGGTACCTTCTAGTCCTCAAAAAGCAAGACACTTTCTTTTTTATCTC
Found at i:897644 original size:78 final size:79
Alignment explanation
Indices: 897499--897697 Score: 213
Period size: 78 Copynumber: 2.5 Consensus size: 79
897489 CATTACCGGA
* * * *
897499 GATACTCCAACCCCGTTATTTCTGAGGGGATACTCTAACCCCGATTCTACTCTTAACATATAAAT
1 GATACTCCAACCTCATTATTTCTCAAGGGATACTCTAACCCCGATTCTACTCTTAACATATAAAT
*
897564 TTTCCACCATCGGG
66 TTTCCACCATCGAG
* * * * **
897578 GATACTCCAACCTCATTATTTC-CAAGGGATACTCTAACCCCTATTTTATTTTTTAA-ATATTGA
1 GATACTCCAACCTCATTATTTCTCAAGGGATACTCTAACCCCGATTCTA-CTCTTAACATATAAA
*
897641 TTTTTCACCATCGAG
65 TTTTCCACCATCGAG
** * * * *
897656 GATACTCCAACCTTGTTATTTTTGAGGGGATACTCCAACCCC
1 GATACTCCAACCTCATTATTTCTCAAGGGATACTCTAACCCC
897698 ATTTTTATTT
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 59 0.59
79 41 0.41
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.34
Consensus pattern (79 bp):
GATACTCCAACCTCATTATTTCTCAAGGGATACTCTAACCCCGATTCTACTCTTAACATATAAAT
TTTCCACCATCGAG
Found at i:897715 original size:79 final size:79
Alignment explanation
Indices: 897383--897750 Score: 275
Period size: 79 Copynumber: 4.7 Consensus size: 79
897373 TTCATTGATT
* * *
897383 TTTTTATTTCCACAATAT-GATTTTCTTCACCATCGGGGACACTCCAACCCCATTATTTTTGAGG
1 TTTTTATTTCCAAAATATCGA-TTT-TTCACCATCGAGGATACTCCAACCCCATTATTTTTGAGG
* * *
897447 AGATACTCCAATCTCA
64 GGATACTCCAACCCCA
* * ** * ** * * *
897463 ATTTTATTTTCAGCATATCAATTTTTCATTACCG-GAGATACTCCAACCCCGTTATTTCTGAGGG
1 TTTTTATTTCCAAAATATCGATTTTTCACCATCGAG-GATACTCCAACCCCATTATTTTTGAGGG
*
897527 GATACTCTAACCCCGA
65 GATACTCCAACCCC-A
* * ** * * * ** *
897543 -TTCTACTCTT--AACATATAAATTTTCCACCATCGGGGATACTCCAACCTCATTA-TTTCCAAG
1 TTTTTA-T-TTCCAAAATATCGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTTGAGG
*
897604 GGATACTCTAACCCC-
64 GGATACTCCAACCCCA
*** * ***
897619 TATTTTATTTTTTAAATATTGATTTTTCACCATCGAGGATACTCCAACCTTGTTATTTTTGAGGG
1 T-TTTTATTTCCAAAATATCGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTTGAGGG
897684 GATACTCCAACCCCA
65 GATACTCCAACCCCA
* **
897699 TTTTTATTTCCAAAATATCGATTCTTCACCATC-AGGATACTCCTGCCCCATT
1 TTTTTATTTCCAAAATATCGATTTTTCACCATCGAGGATACTCCAACCCCATT
897751 TTTATTTCTA
Statistics
Matches: 225, Mismatches: 51, Indels: 26
0.75 0.17 0.09
Matches are distributed among these distances:
76 2 0.01
77 1 0.00
78 73 0.32
79 125 0.56
80 21 0.09
81 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (79 bp):
TTTTTATTTCCAAAATATCGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTTGAGGGG
ATACTCCAACCCCA
Found at i:897729 original size:157 final size:158
Alignment explanation
Indices: 897383--897750 Score: 349
Period size: 157 Copynumber: 2.3 Consensus size: 158
897373 TTCATTGATT
* * ***
897383 TTTTTATTTCCACAATATGATTTTCTTCACCATCGGGGACACTCCAACCCCATTATTTTTGAGGA
1 TTTTTATTTCCAAAATATGA--TTCTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGA
* * * **
897448 GATACTCCAATCTCAATTTTATTTTCAGCATATCAATTTTTCATTACCGGAGATACTCCAACCCC
64 GATACTCCAACCCCAATTTTATTTTCAGAATATCAATTTTTCACCACCGGAGATACTCCAACCCC
*
897513 GTTATTTCTGAGGGGATACTCTAACCCCGA
129 GTTATTTCTGAGGGGATACTCCAACCCCGA
* * * *
897543 -TTCTACTCTT--AACATATAAATT-TTCCACCATCGGGGATACTCCAACCTCATTATTTCCAAG
1 TTTTTA-T-TTCCAAAATAT-GATTCTT-CACCATCGGGGATACTCCAACCCCATTATTTCCAAG
* * * ** *
897604 G-GATACTCTAACCCCTATTTTATTTTTTA-AATATTGATTTTTCACCATC-GAGGATACTCCAA
62 GAGATACTCCAACCCCAATTTTA-TTTTCAGAATATCAATTTTTCACCACCGGA-GATACTCCAA
** *
897666 CCTTGTTATTTTTGAGGGGATACTCCAACCCC-A
125 CCCCGTTATTTCTGAGGGGATACTCCAACCCCGA
* **
897699 TTTTTATTTCCAAAATATCGATTCTTCACCATC-AGGATACTCCTGCCCCATT
1 TTTTTATTTCCAAAATAT-GATTCTTCACCATCGGGGATACTCCAACCCCATT
897751 TTTATTTCTA
Statistics
Matches: 166, Mismatches: 32, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
155 2 0.01
156 19 0.11
157 91 0.55
158 41 0.25
159 9 0.05
160 2 0.01
161 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.36
Consensus pattern (158 bp):
TTTTTATTTCCAAAATATGATTCTTCACCATCGGGGATACTCCAACCCCATTATTTCCAAGGAGA
TACTCCAACCCCAATTTTATTTTCAGAATATCAATTTTTCACCACCGGAGATACTCCAACCCCGT
TATTTCTGAGGGGATACTCCAACCCCGA
Found at i:897748 original size:50 final size:50
Alignment explanation
Indices: 897683--897795 Score: 154
Period size: 50 Copynumber: 2.2 Consensus size: 50
897673 ATTTTTGAGG
*
897683 GGATACTCCAACCCCATTTTTATTTCCAAAATATCGATTCTTCACCATCA
1 GGATACTCCAACCCCATTTTTATTTCCAAAATATCAATTCTTCACCATCA
** * * **
897733 GGATACTCCTGCCCCATTTTTATTTCTAAAATATCAATTTTTCACCATTGG
1 GGATACTCCAACCCCATTTTTATTTCCAAAATATCAATTCTTCACCA-TCA
897784 GGATACTCCAAC
1 GGATACTCCAAC
897796 TCTGTTGTTT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
50 42 0.79
51 11 0.21
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.35
Consensus pattern (50 bp):
GGATACTCCAACCCCATTTTTATTTCCAAAATATCAATTCTTCACCATCA
Found at i:897856 original size:129 final size:130
Alignment explanation
Indices: 897621--897870 Score: 324
Period size: 129 Copynumber: 1.9 Consensus size: 130
897611 CTAACCCCTA
* * ** ***
897621 TTTTATTTTTTAAATATTGATTTTTCACCATCGAGGATACTCCAACCTTGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATACTCCAACCTTGTTATTTCAAAGGGGA
* * *
897686 TACTCCAACCCCATTTTTATTTCCAAAATATCGATTCTTCACCATC-AGGATACTCCTGCCCCAT
66 TACTCCAACCCCAGTTTAATTTCCAAAATATCAATTCTTCACCATCGAGGATACTCCTGCCCCAT
* * *
897750 TTTTATTTCTAAAATATCAATTTTTCACCATTGGGGATACTCCAA-CTCTGTTGTTTCAAAGGGG
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATACTCCAACCT-TGTTATTTCAAAGGGG
* * * *
897814 ATACTCCAACCCCAGTTTAATTTCCAAAATATTAATTTTTCACTATCGGGGATACTC
65 ATACTCCAACCCCAGTTTAATTTCCAAAATATCAATTCTTCACCATCGAGGATACTC
897871 TAACCCTGTT
Statistics
Matches: 102, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
128 2 0.02
129 92 0.90
130 8 0.08
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (130 bp):
TTTTATTTCTAAAATATCAATTTTTCACCATCGAGGATACTCCAACCTTGTTATTTCAAAGGGGA
TACTCCAACCCCAGTTTAATTTCCAAAATATCAATTCTTCACCATCGAGGATACTCCTGCCCCAT
Found at i:897919 original size:79 final size:80
Alignment explanation
Indices: 897732--897933 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 80
897722 CTTCACCATC
** * * *
897732 AGGATACTCCTGCCCCA-TTTTTATTTCTAAAATATCAATTTTTCACCATTGGGGATACTCCAAC
1 AGGATACTCCAACCCCAGTTTTTATTTCCAAAATATTAATTTTTCACCATCGGGGATACTCCAAC
*
897796 TCTGTTGTTTCAAAG
66 CCTGTTGTTTCAAAG
* * * *
897811 GGGATACTCCAACCCCAG-TTTAATTTCCAAAATATTAATTTTTCACTATCGGGGATACTCTAAC
1 AGGATACTCCAACCCCAGTTTTTATTTCCAAAATATTAATTTTTCACCATCGGGGATACTCCAAC
**
897875 CCTGTTGTTTCTGAG
66 CCTGTTGTTTCAAAG
* * * * *
897890 AGGATACTCCCATCTC-GTTTTTATCTCCAAAATATTAAATTTTC
1 AGGATACTCCAACCCCAGTTTTTATTTCCAAAATATTAATTTTTC
897934 CATTAGGGAA
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
78 1 0.01
79 101 0.99
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.38
Consensus pattern (80 bp):
AGGATACTCCAACCCCAGTTTTTATTTCCAAAATATTAATTTTTCACCATCGGGGATACTCCAAC
CCTGTTGTTTCAAAG
Found at i:899312 original size:20 final size:19
Alignment explanation
Indices: 899258--899313 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
899248 AAAACCCTTA
*
899258 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
899278 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
899298 AATGTATCGATACATG
1 AAAGTATCGATACATG
899314 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:899406 original size:32 final size:33
Alignment explanation
Indices: 899365--899428 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
899355 TAGCCAAACT
*
899365 TGTATCGATACACAAAATA-TGTATCAATACAA
1 TGTATCGATACACAAAAAATTGTATCAATACAA
*
899397 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCAATACA
899429 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.45, C:0.16, G:0.11, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCAATACAA
Found at i:903485 original size:15 final size:15
Alignment explanation
Indices: 903465--903495 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
903455 TAAAAATATC
*
903465 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
903480 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
903495 C
1 C
903496 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:905651 original size:13 final size:13
Alignment explanation
Indices: 905633--905658 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
905623 ATCTTTTTCG
905633 TGTATCAATACAT
1 TGTATCAATACAT
905646 TGTATCAATACAT
1 TGTATCAATACAT
905659 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:905658 original size:86 final size:86
Alignment explanation
Indices: 905560--905733 Score: 312
Period size: 86 Copynumber: 2.0 Consensus size: 86
905550 CAATTTTTTG
* *
905560 TGTATCGATACATACTTGCTGTATCGATACAAGTTTGGGTACTGCCAAGAAATGTATCGATACAT
1 TGTATCAATACATACTTGCTGTATCGATACAAGTTTGGCTACTGCCAAGAAATGTATCGATACAT
*
905625 CTTTTTCGTGTATCAATACAT
66 CTTTTTCATGTATCAATACAT
905646 TGTATCAATACATACTTGCTGTATCGATACAAGTTTGGCTACTGCCAAGAAATGTATCGATACAT
1 TGTATCAATACATACTTGCTGTATCGATACAAGTTTGGCTACTGCCAAGAAATGTATCGATACAT
*
905711 CTTTTTCATGTATCGATACAT
66 CTTTTTCATGTATCAATACAT
905732 TG
1 TG
905734 CAACATGTAT
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 84 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (86 bp):
TGTATCAATACATACTTGCTGTATCGATACAAGTTTGGCTACTGCCAAGAAATGTATCGATACAT
CTTTTTCATGTATCAATACAT
Found at i:907749 original size:21 final size:20
Alignment explanation
Indices: 907720--907762 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
907710 GGCTAGTGTG
*
907720 GGGACTGCCCAGTTGTGACCT
1 GGGACTG-CCAGTTATGACCT
* *
907741 GGGAGTGCCGGTTATGACCT
1 GGGACTGCCAGTTATGACCT
907761 GG
1 GG
907763 TGATGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.14, C:0.23, G:0.40, T:0.23
Consensus pattern (20 bp):
GGGACTGCCAGTTATGACCT
Found at i:912157 original size:21 final size:21
Alignment explanation
Indices: 912128--912172 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
912118 AAGTTTTCAT
*
912128 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
912148 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
912170 TTT
1 TTT
912173 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:914486 original size:86 final size:86
Alignment explanation
Indices: 914366--914574 Score: 359
Period size: 86 Copynumber: 2.4 Consensus size: 86
914356 GTTACAAGCC
914366 AATGTATCGATACAAT-TTTTT-GTGTATCGATACATTGTATCAATACATACTTGCTGTATCGAT
1 AATGTATCGATAC-ATCTTTTTCGTGTATCGATACATTGTATCAATACATACTTGCTGTATCGAT
* *
914429 ACAAGTTTGGCTACTGCTAAGA
65 ACAAGTTTGGCTACTACCAAGA
*
914451 AATGTATCGATACATCTTTTTCGTGTATCGATACATTGTATCGATACATACTTGCTGTATCGATA
1 AATGTATCGATACATCTTTTTCGTGTATCGATACATTGTATCAATACATACTTGCTGTATCGATA
914516 CAAGTTTGGCTACTACCAAGA
66 CAAGTTTGGCTACTACCAAGA
*
914537 AATGTATCGATACATCTTTTTCATGTATCGATACATTG
1 AATGTATCGATACATCTTTTTCGTGTATCGATACATTG
914575 CAACATGTAT
Statistics
Matches: 118, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
84 2 0.02
85 18 0.15
86 98 0.83
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (86 bp):
AATGTATCGATACATCTTTTTCGTGTATCGATACATTGTATCAATACATACTTGCTGTATCGATA
CAAGTTTGGCTACTACCAAGA
Found at i:914492 original size:13 final size:13
Alignment explanation
Indices: 914474--914499 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
914464 ATCTTTTTCG
914474 TGTATCGATACAT
1 TGTATCGATACAT
914487 TGTATCGATACAT
1 TGTATCGATACAT
914500 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:915651 original size:13 final size:13
Alignment explanation
Indices: 915633--915671 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
915623 ACATTTTTCT
915633 TTGTATCGATACA
1 TTGTATCGATACA
915646 TTGTATCGATACA
1 TTGTATCGATACA
* *
915659 CTGTATTGATACA
1 TTGTATCGATACA
915672 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:915835 original size:20 final size:20
Alignment explanation
Indices: 915792--915837 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
915782 AAATCTTTTG
915792 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
915813 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
915833 CAAAA
1 CAAAA
915838 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:918155 original size:20 final size:19
Alignment explanation
Indices: 918101--918156 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
918091 AAAACCCTTA
*
918101 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
918121 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
918141 AATGTATCGATACATG
1 AAAGTATCGATACATG
918157 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:918244 original size:13 final size:13
Alignment explanation
Indices: 918226--918251 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
918216 TACACAAAAT
918226 ATGTATCGATACA
1 ATGTATCGATACA
918239 ATGTATCGATACA
1 ATGTATCGATACA
918252 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:918249 original size:32 final size:33
Alignment explanation
Indices: 918208--918271 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
918198 TAGCCAAACT
*
918208 TGTATCGATACACAAAATA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
*
918240 TGTATCGATACACAAAAAATTGTATCTATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
918272 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.30
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:920021 original size:31 final size:32
Alignment explanation
Indices: 919972--920069 Score: 119
Period size: 36 Copynumber: 3.0 Consensus size: 32
919962 CCTTACAACT
*
919972 CTATCTTTTGAAGGCTAAGATAGAACCT-T-C
1 CTATCTTTTCAAGGCTAAGATAGAACCTCTCC
920002 CTATCTTTTCATAGGCTAAGATAGAACCTTTCTCC
1 CTATCTTTTCA-AGGCTAAGATAGAACC--TCTCC
*
920037 CTATGTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTAT-CTTTTC-AAGGCTAAGATAGAACCTCTC
920070 AATTACTTCA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
30 10 0.17
31 16 0.27
33 1 0.02
34 5 0.08
35 5 0.08
36 21 0.36
37 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (32 bp):
CTATCTTTTCAAGGCTAAGATAGAACCTCTCC
Found at i:920602 original size:20 final size:19
Alignment explanation
Indices: 920559--920609 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
920549 CATTTTATGG
920559 TGTATCGATACAAAAAACA
1 TGTATCGATACAAAAAACA
** *
920578 TGTATCGATACTAAGCAATA
1 TGTATCGATAC-AAAAAACA
920598 TGTATCGATACA
1 TGTATCGATACA
920610 TCTGGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (19 bp):
TGTATCGATACAAAAAACA
Found at i:925289 original size:20 final size:20
Alignment explanation
Indices: 925264--925329 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
925254 AAATTTCCAA
925264 ATGTATCGATACAAAGATCC
1 ATGTATCGATACAAAGATCC
925284 ATGTATCGATAC----A---
1 ATGTATCGATACAAAGATCC
925297 ATGTATCGATACAAAGATCC
1 ATGTATCGATACAAAGATCC
925317 ATGTATCGATACA
1 ATGTATCGATACA
925330 TGGACTGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.31
16 1 0.03
17 1 0.03
20 25 0.64
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACAAAGATCC
Found at i:925302 original size:13 final size:13
Alignment explanation
Indices: 925284--925310 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
925274 ACAAAGATCC
925284 ATGTATCGATACA
1 ATGTATCGATACA
925297 ATGTATCGATACA
1 ATGTATCGATACA
925310 A
1 A
925311 AGATCCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:925305 original size:33 final size:33
Alignment explanation
Indices: 925263--925329 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
925253 AAAATTTCCA
925263 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGATCCATGTATCGATAC
925296 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGATCCATGTATCGATAC
925329 A
1 A
925330 TGGACTGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGATCCATGTATCGATAC
Found at i:925405 original size:19 final size:18
Alignment explanation
Indices: 925381--925440 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 18
925371 AGTGATACAT
925381 TGTATCGATACAACACTTA
1 TGTATCGATA-AACACTTA
925400 TGTATCGAT--ACA--T-
1 TGTATCGATAAACACTTA
925413 TGTATCGATATAACACTTA
1 TGTATCGATA-AACACTTA
925432 TGTATCGAT
1 TGTATCGAT
925441 GCATTTACTG
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.26
14 1 0.03
16 6 0.17
18 1 0.03
19 18 0.51
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (18 bp):
TGTATCGATAAACACTTA
Found at i:925415 original size:32 final size:32
Alignment explanation
Indices: 925374--925445 Score: 126
Period size: 32 Copynumber: 2.2 Consensus size: 32
925364 GCTTTGTAGT
925374 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
*
925406 GATACATTGTATCGATATAACACTTATGTATC
1 GATACATTGTATCGATACAACACTTATGTATC
*
925438 GATGCATT
1 GATACATT
925446 TACTGTTTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (32 bp):
GATACATTGTATCGATACAACACTTATGTATC
Found at i:925552 original size:21 final size:21
Alignment explanation
Indices: 925502--925553 Score: 76
Period size: 17 Copynumber: 2.7 Consensus size: 21
925492 GTCGAGACCT
925502 TGTATCGATACATTCTAGCAA
1 TGTATCGATACATTCTAGCAA
925523 TG--T--ATACATTCTAGCAA
1 TGTATCGATACATTCTAGCAA
925540 TGTATCGATACATT
1 TGTATCGATACATT
925554 TGGACAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 16 0.59
19 2 0.07
21 9 0.33
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (21 bp):
TGTATCGATACATTCTAGCAA
Found at i:926326 original size:49 final size:49
Alignment explanation
Indices: 926155--926352 Score: 195
Period size: 49 Copynumber: 4.0 Consensus size: 49
926145 CTCAAAGATG
* * * ** *
926155 TGAAGAATGACAATGTACTGATTCATGGCCAGCGACATTAAACTTGAAGA
1 TGAA-AATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* ** * **
926205 --AGAATGCCAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGGA
1 TGAAAATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* * *
926252 TGTTAAAGATGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGA
1 TG--AAA-ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
926304 TGAAAATGCCAATGTGCTGATTCAAGGCCAGCGACATT-GATCTTAAAGA
1 TGAAAATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGA
926353 CAAGGTGCCA
Statistics
Matches: 118, Mismatches: 24, Indels: 13
0.76 0.15 0.08
Matches are distributed among these distances:
47 34 0.29
48 3 0.03
49 38 0.32
50 3 0.03
51 2 0.02
52 38 0.32
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (49 bp):
TGAAAATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
Found at i:940139 original size:176 final size:176
Alignment explanation
Indices: 939845--940200 Score: 712
Period size: 176 Copynumber: 2.0 Consensus size: 176
939835 GTCAATTTAT
939845 TGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGGAGGT
1 TGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGGAGGT
939910 GTTTGAAAATCTGTTTTGAGGCAATAAACATGCATTTTTGACAAGAAAAATGGGATGCTCATGCA
66 GTTTGAAAATCTGTTTTGAGGCAATAAACATGCATTTTTGACAAGAAAAATGGGATGCTCATGCA
939975 AGAAGAGTATGAATAACACTCATGAAGGTGCTAGACATGCTGTAAA
131 AGAAGAGTATGAATAACACTCATGAAGGTGCTAGACATGCTGTAAA
940021 TGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGGAGGT
1 TGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGGAGGT
940086 GTTTGAAAATCTGTTTTGAGGCAATAAACATGCATTTTTGACAAGAAAAATGGGATGCTCATGCA
66 GTTTGAAAATCTGTTTTGAGGCAATAAACATGCATTTTTGACAAGAAAAATGGGATGCTCATGCA
940151 AGAAGAGTATGAATAACACTCATGAAGGTGCTAGACATGCTGTAAA
131 AGAAGAGTATGAATAACACTCATGAAGGTGCTAGACATGCTGTAAA
940197 TGAA
1 TGAA
940201 TGAAACATAG
Statistics
Matches: 180, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
176 180 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (176 bp):
TGAAAAGCTTAAATCCAAGCTAATCCTCATTGATTGAGGCTAGCTTGAACTTAACTTGGGGAGGT
GTTTGAAAATCTGTTTTGAGGCAATAAACATGCATTTTTGACAAGAAAAATGGGATGCTCATGCA
AGAAGAGTATGAATAACACTCATGAAGGTGCTAGACATGCTGTAAA
Found at i:941155 original size:20 final size:20
Alignment explanation
Indices: 941130--941195 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
941120 AAATTTCCAA
941130 ATGTATCGATACAAAGATCC
1 ATGTATCGATACAAAGATCC
941150 ATGTATCGATAC----A---
1 ATGTATCGATACAAAGATCC
941163 ATGTATCGATACAAAGATCC
1 ATGTATCGATACAAAGATCC
941183 ATGTATCGATACA
1 ATGTATCGATACA
941196 TGGACTGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.31
16 1 0.03
17 1 0.03
20 25 0.64
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACAAAGATCC
Found at i:941168 original size:13 final size:13
Alignment explanation
Indices: 941150--941176 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
941140 ACAAAGATCC
941150 ATGTATCGATACA
1 ATGTATCGATACA
941163 ATGTATCGATACA
1 ATGTATCGATACA
941176 A
1 A
941177 AGATCCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:941171 original size:33 final size:33
Alignment explanation
Indices: 941129--941195 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
941119 AAAATTTCCA
941129 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGATCCATGTATCGATAC
941162 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGATCCATGTATCGATAC
941195 A
1 A
941196 TGGACTGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGATCCATGTATCGATAC
Found at i:942512 original size:30 final size:31
Alignment explanation
Indices: 942458--942607 Score: 123
Period size: 30 Copynumber: 5.0 Consensus size: 31
942448 GCCACGAGTT
942458 AGTGGCATCTCTTCTTAAAAGTCCACAACTC
1 AGTGGCATCTCTTCTTAAAAGTCCACAACTC
* ** * * *
942489 AGTGGCATCT-TTCCTCCAAGTCCACGAGTT
1 AGTGGCATCTCTTCTTAAAAGTCCACAACTC
* * *
942519 GGTGGCATCTCATCTTAAAAATCCACAACTC
1 AGTGGCATCTCTTCTTAAAAGTCCACAACTC
** *
942550 AGTGGCATCTC-TCTTCCAAGTCCACGAC-C
1 AGTGGCATCTCTTCTTAAAAGTCCACAACTC
* *
942579 TAGTGGTATC-CTT-TT-AAAGTCTACAACTC
1 -AGTGGCATCTCTTCTTAAAAGTCCACAACTC
942608 CATGGCACCT
Statistics
Matches: 91, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
28 9 0.10
29 5 0.05
30 45 0.49
31 32 0.35
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (31 bp):
AGTGGCATCTCTTCTTAAAAGTCCACAACTC
Found at i:942514 original size:61 final size:61
Alignment explanation
Indices: 942442--942607 Score: 221
Period size: 61 Copynumber: 2.8 Consensus size: 61
942432 TTTTCCTTTT
* *
942442 TCCAAGGCCACGAGTTAGTGGCATCTCTTCTTAAAAGTCCACAACTCAGTGGCATCTTTCC
1 TCCAAGTCCACGAGTTAGTGGCATCTCTTCTTAAAAGTCCACAACTCAGTGGCATCTCTCC
* * * *
942503 TCCAAGTCCACGAGTTGGTGGCATCTCATCTTAAAAATCCACAACTCAGTGGCATCTCTCT
1 TCCAAGTCCACGAGTTAGTGGCATCTCTTCTTAAAAGTCCACAACTCAGTGGCATCTCTCC
** * *
942564 TCCAAGTCCACGACCTAGTGGTATC-CTT-TT-AAAGTCTACAACTC
1 TCCAAGTCCACGAGTTAGTGGCATCTCTTCTTAAAAGTCCACAACTC
942608 CATGGCACCT
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
58 12 0.13
59 2 0.02
60 2 0.02
61 76 0.83
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (61 bp):
TCCAAGTCCACGAGTTAGTGGCATCTCTTCTTAAAAGTCCACAACTCAGTGGCATCTCTCC
Found at i:943432 original size:13 final size:13
Alignment explanation
Indices: 943414--943444 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
943404 ACATTTCTTC
943414 ATGTATCGATACA
1 ATGTATCGATACA
943427 ATGTATCGATACA
1 ATGTATCGATACA
*
943440 TTGTA
1 ATGTA
943445 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:943432 original size:33 final size:33
Alignment explanation
Indices: 943394--943460 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
943384 GGTACAAGCT
943394 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
943427 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
943460 A
1 A
943461 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:945948 original size:13 final size:13
Alignment explanation
Indices: 945930--945958 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
945920 AAATAGTACC
945930 CAATGTATCGATA
1 CAATGTATCGATA
945943 CAATGTATCGATA
1 CAATGTATCGATA
945956 CAA
1 CAA
945959 AGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:949950 original size:21 final size:20
Alignment explanation
Indices: 949902--949951 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
949892 ATCATGCAAG
*
949902 TTTTTATTTTTCTTAGCTAAT
1 TTTTTA-TTTTCTTAGCCAAT
**
949923 TCATTATTTTCATTAGCCAAT
1 TTTTTATTTTC-TTAGCCAAT
949944 TTTTTATT
1 TTTTTATT
949952 ATCTACTTGC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.22, C:0.12, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTTATTTTCTTAGCCAAT
Found at i:952180 original size:13 final size:13
Alignment explanation
Indices: 952162--952192 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
952152 ACATTTCTTC
952162 ATGTATCGATACA
1 ATGTATCGATACA
952175 ATGTATCGATACA
1 ATGTATCGATACA
*
952188 TTGTA
1 ATGTA
952193 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:952180 original size:33 final size:33
Alignment explanation
Indices: 952142--952208 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
952132 GTTACAAGCT
952142 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
952175 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
952208 A
1 A
952209 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:952286 original size:19 final size:19
Alignment explanation
Indices: 952237--952293 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
952227 CTGCCAGTTT
**
952237 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA--TGAA
*
952258 CATGTGTCGATACAATGAA
1 CATGTATCGATACAATGAA
952277 CATGTATCGATACAATG
1 CATGTATCGATACAATG
952294 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 18 0.56
21 14 0.44
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:952296 original size:13 final size:13
Alignment explanation
Indices: 952278--952304 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
952268 TACAATGAAC
952278 ATGTATCGATACA
1 ATGTATCGATACA
952291 ATGTATCGATACA
1 ATGTATCGATACA
952304 A
1 A
952305 AGCAGCATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:952318 original size:33 final size:32
Alignment explanation
Indices: 952259--952323 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
952249 CAATTTGTCC
* *
952259 ATGTGTCGATACAATGAACATGTATCGATACA
1 ATGTATCGATACAAAGAACATGTATCGATACA
*
952291 ATGTATCGATACAAAGCAGCATGTATCGATACA
1 ATGTATCGATACAAAG-AACATGTATCGATACA
952324 TCTGGGTGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (32 bp):
ATGTATCGATACAAAGAACATGTATCGATACA
Found at i:952658 original size:34 final size:33
Alignment explanation
Indices: 952615--953243 Score: 232
Period size: 33 Copynumber: 19.8 Consensus size: 33
952605 TCCTAACACT
*
952615 CTTTTAAGTCCACAACTCCGTGGCACATTTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCAC-TTTTTTC
** *
952649 CTTTTAAGTCCACAACTCCATGGCACATTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCACTTTTTTC
* * ** * **
952682 TTTTTAAAGCCCATGACTCTATGGCA--TCCTTC
1 CTTTT-AAGTCCACAACTCTGTGGCACTTTTTTC
* ** ** * * *
952714 C--TAAAGTCCATGACTGAGAGGTACCCTTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCA-CTTTTTTC
* *
952746 CTTTTAAGCCCACAACTCTGTTGCAC------C
1 CTTTTAAGTCCACAACTCTGTGGCACTTTTTTC
* * *
952773 CTTTTAAGTCCAAAACTCTATGACACCTTTTTT-
1 CTTTTAAGTCCACAACTCTGTGGCA-CTTTTTTC
* * * *
952806 C---AAAGCCCACAACTCCGTGGCACCTTTTATC
1 CTTTTAAGTCCACAACTCTGTGGCA-CTTTTTTC
* *
952837 C-TTTAAGTCCATAACTTTGTGGCAC-----T-
1 CTTTTAAGTCCACAACTCTGTGGCACTTTTTTC
*
952863 CTTTTAAGTCCATAACTCTGTGGCACTCTTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCACT-TTTTTC
* ** *
952897 TTTTTAAGTCCACAACTCCATGGCACCTTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCACTTTTTTC
* *** ** *
952930 ATTTTAAGTCCGTGACTCAATGGCA-TCTTTT-
1 CTTTTAAGTCCACAACTCTGTGGCACTTTTTTC
** * * * *
952961 C-TCAAAGTCCACGACTCCGTGGCACTCTTTCTA
1 CTTTTAAGTCCACAACTCTGTGGCACT-TTTTTC
* ** *
952994 CTATTAAAGTCCATGACT-TAGTGGCA-TTTCTT-
1 CT-TTTAAGTCCACAACTCT-GTGGCACTTTTTTC
** * *
953026 -TTCAAAGTTCACAACTCTATGGCAC-TTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCACTTTTTTC
* * * *
953057 CTTTTTAAGTCCCCGACTCAGTGGCA-----TCC
1 C-TTTTAAGTCCACAACTCTGTGGCACTTTTTTC
* * **
953086 CTCTTAAGTCCACAACTCTATTACACTTTTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCAC-TTTTTTC
* * *
953120 CTTTTAAGTCCATAACTTTGTGGCACCCTTTTT-
1 CTTTTAAGTCCACAACTCTGTGGCA-CTTTTTTC
* *
953153 CTTTTAAGTCCATAACTCTGTGGCACCTTTTTC
1 CTTTTAAGTCCACAACTCTGTGGCACTTTTTTC
* * *
953186 CTTTTAAGTCGACAACTCCGTGGCACATTTTT-
1 CTTTTAAGTCCACAACTCTGTGGCACTTTTTTC
**
953218 CTTCAAAGTCCACAACTCTGTGGCAC
1 CTTTTAAGTCCACAACTCTGTGGCAC
953244 CCTTCTCTAA
Statistics
Matches: 442, Mismatches: 110, Indels: 88
0.69 0.17 0.14
Matches are distributed among these distances:
26 1 0.00
27 45 0.10
28 18 0.04
29 17 0.04
30 60 0.14
31 4 0.01
32 46 0.10
33 128 0.29
34 103 0.23
35 20 0.05
ACGTcount: A:0.22, C:0.28, G:0.12, T:0.37
Consensus pattern (33 bp):
CTTTTAAGTCCACAACTCTGTGGCACTTTTTTC
Found at i:952687 original size:33 final size:34
Alignment explanation
Indices: 952615--952688 Score: 123
Period size: 34 Copynumber: 2.2 Consensus size: 34
952605 TCCTAACACT
*
952615 CTTTTAAGTCCACAACTCCGTGGCACATTTTTTC
1 CTTTTAAGTCCACAACTCCATGGCACATTTTTTC
952649 CTTTTAAGTCCACAACTCCATGGCACA-TTTTTC
1 CTTTTAAGTCCACAACTCCATGGCACATTTTTTC
*
952682 TTTTTAA
1 CTTTTAA
952689 AGCCCATGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
33 12 0.32
34 26 0.68
ACGTcount: A:0.23, C:0.27, G:0.09, T:0.41
Consensus pattern (34 bp):
CTTTTAAGTCCACAACTCCATGGCACATTTTTTC
Found at i:952799 original size:27 final size:27
Alignment explanation
Indices: 952745--952804 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
952735 TACCCTTTTT
* *
952745 CCTTTTAAGCCCACAACTCTGTTGCAC
1 CCTTTTAAGCCCAAAACTCTGATGCAC
*
952772 CCTTTTAAGTCCAAAACTCT-ATGACAC
1 CCTTTTAAGCCCAAAACTCTGATG-CAC
*
952799 CTTTTT
1 CCTTTT
952805 TCAAAGCCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.25, C:0.32, G:0.08, T:0.35
Consensus pattern (27 bp):
CCTTTTAAGCCCAAAACTCTGATGCAC
Found at i:952842 original size:90 final size:93
Alignment explanation
Indices: 952738--952937 Score: 237
Period size: 90 Copynumber: 2.2 Consensus size: 93
952728 TGAGAGGTAC
*
952738 CCTTTTTCCTTTTAAGCCCACAACTCTGTTGCACCCTTTTAAGTCCAAAACTCTATGACAC-C-T
1 CCTTTTTCCTTTTAAGCCCACAACTCTGTGGCACCCTTTTAAGTCCAAAACTCTATGACACTCTT
*
952801 TT-TTTCAAAGCCCACAACTCCGTGGCA
66 TTCTTTCAAAGCCCACAACTCCATGGCA
* * * * * * *
952828 CCTTTTATCC-TTTAAGTCCATAACTTTGTGGCACTCTTTTAAGTCCATAACTCTGTGGCACTCT
1 CCTTTT-TCCTTTTAAGCCCACAACTCTGTGGCACCCTTTTAAGTCCAAAACTCTATGACACTC-
** *
952892 TTTTCTTTTTAAGTCCACAACTCCATGGCA
64 TTTTCTTTCAAAGCCCACAACTCCATGGCA
*
952922 CCTTTTTCATTTTAAG
1 CCTTTTTCCTTTTAAG
952938 TCCGTGACTC
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
90 49 0.54
91 4 0.04
93 5 0.05
94 33 0.36
ACGTcount: A:0.23, C:0.29, G:0.10, T:0.38
Consensus pattern (93 bp):
CCTTTTTCCTTTTAAGCCCACAACTCTGTGGCACCCTTTTAAGTCCAAAACTCTATGACACTCTT
TTCTTTCAAAGCCCACAACTCCATGGCA
Found at i:952874 original size:27 final size:27
Alignment explanation
Indices: 952838--952894 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
952828 CCTTTTATCC
*
952838 TTTAAGTCCATAACTTTGTGGCACTCT
1 TTTAAGTCCATAACTCTGTGGCACTCT
952865 TTTAAGTCCATAACTCTGTGGCACTCT
1 TTTAAGTCCATAACTCTGTGGCACTCT
952892 TTT
1 TTT
952895 TCTTTTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (27 bp):
TTTAAGTCCATAACTCTGTGGCACTCT
Found at i:952921 original size:61 final size:61
Alignment explanation
Indices: 952773--952927 Score: 154
Period size: 60 Copynumber: 2.5 Consensus size: 61
952763 CTGTTGCACC
* *
952773 CTTTTAAGTCCAAAACTCTATGACACCTTTTTTCAAAGCCCACAACTCCGTGGCACCTTTTAT
1 CTTTTAAGTCCAAAACTCTATGGCA-CTCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTAT
* * * * * * *
952836 CCTTTAAGTCCATAACTTTGTGGCACTCTTTT-AAGTCCATAACTCTGTGGCACTCTTTT-T
1 CTTTTAAGTCCAAAACTCTATGGCACTCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTAT
* *
952896 CTTTTTAAGTCCACAACTCCATGGCAC-CTTTT
1 C-TTTTAAGTCCAAAACTCTATGGCACTCTTTT
952928 TCATTTTAAG
Statistics
Matches: 76, Mismatches: 14, Indels: 7
0.78 0.14 0.07
Matches are distributed among these distances:
60 25 0.33
61 25 0.33
62 6 0.08
63 20 0.26
ACGTcount: A:0.23, C:0.28, G:0.11, T:0.37
Consensus pattern (61 bp):
CTTTTAAGTCCAAAACTCTATGGCACTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTAT
Found at i:952984 original size:63 final size:63
Alignment explanation
Indices: 952864--953235 Score: 207
Period size: 65 Copynumber: 5.8 Consensus size: 63
952854 TGTGGCACTC
* * * **
952864 TTTTAAGTCCATAACTCTGTGGCACTCTTTTTCTTTTTAAGTCCACAACTCCATGGCACCTTTTT
1 TTTTAAGTCCATGACTCAGTGGCA-TCTTCTTC--TCAAAGTCCACAACTCCATGGCA-CTTTTT
952929 CA
62 CA
* * * * *
952931 TTTTAAGTCCGTGACTCAATGGCATCTT-TTCTCAAAGTCCACGACTCCGTGGCACTCTTTCTA
1 TTTTAAGTCCATGACTCAGTGGCATCTTCTTCTCAAAGTCCACAACTCCATGGCACTTTTTC-A
* * * * *
952994 CTATTAAAGTCCATGACTTAGTGGCAT-TTCTTTTCAAAGTTCACAACTCTATGGCACTTTTTCC
1 -T-TTTAAGTCCATGACTCAGTGGCATCTTCTTCTCAAAGTCCACAACTCCATGGCACTTTTT-C
*
953058 T
63 A
** * * * ** *
953059 TTTTAAGTCCCCGACTCAGTGGCATC--CCTCT-TAAGTCCACAACTCTATTACACTTTTTTTCC
1 TTTTAAGTCCATGACTCAGTGGCATCTTCTTCTCAAAGTCCACAACTCCATGGCAC--TTTTTCA
* ** * * ** * **
953121 TTTTAAGTCCATAACTTTGTGGCACCCTTTTTCTTTTAAGTCCATAACTCTGTGGCACCTTTTTC
1 TTTTAAGTCCATGACTCAGTGGCA-TCTTCTTC-TCAAAGTCCACAACTCCATGGCA-CTTTTTC
*
953186 C
63 A
* ** * *
953187 TTTTAAGTCGACAACTCCGTGGCA-CATTTTTCTTCAAAGTCCACAACTC
1 TTTTAAGTCCATGACTCAGTGGCATC-TTCTTC-TCAAAGTCCACAACTC
953236 TGTGGCACCC
Statistics
Matches: 240, Mismatches: 50, Indels: 32
0.75 0.16 0.10
Matches are distributed among these distances:
61 18 0.08
62 29 0.12
63 46 0.19
64 5 0.02
65 71 0.30
66 33 0.14
67 37 0.15
68 1 0.00
ACGTcount: A:0.22, C:0.27, G:0.12, T:0.39
Consensus pattern (63 bp):
TTTTAAGTCCATGACTCAGTGGCATCTTCTTCTCAAAGTCCACAACTCCATGGCACTTTTTCA
Found at i:953170 original size:128 final size:129
Alignment explanation
Indices: 952863--953195 Score: 347
Period size: 128 Copynumber: 2.6 Consensus size: 129
952853 TTGTGGCACT
* *
952863 CTTTTAAGTCCATAACTCTGTGGCACTCTTTTTCTTTTTAAGTCCACAACTCCATGGCACCTTTT
1 CTTTTAAGTCCATAACTTTGTGGCAC-CTTTTTC-TTTTAAGTCCACAACTCTATGGCACCTTTT
* ** ** * * *
952928 TCATTTTAAGTCCGTGACTCAATGGCATCTTTTCTCAAAGTCCACGACTCCGTGGCACTCTTTCT
64 TCCTTTTAAGTCCCCGACTCAATGGCATCTCCTCTCAAAGTCCACAACTCCATGACACTCTTTCT
952993 A
129 A
* * * *
952994 CTATTAAAGTCCATGACTTAGTGGCA----TTTCTTTTCAAAGTTCACAACTCTATGGCA-CTTT
1 CT-TTTAAGTCCATAACTTTGTGGCACCTTTTTCTTTT--AAGTCCACAACTCTATGGCACCTTT
* * * * *
953054 TTCCTTTTTAAGTCCCCGACTCAGTGGCATC-CCTCT-TAAGTCCACAACTCTATTACACTTTTT
63 TTCC-TTTTAAGTCCCCGACTCAATGGCATCTCCTCTCAAAGTCCACAACTCCATGACACTCTTT
* *
953117 TTC
127 CTA
* *
953120 CTTTTAAGTCCATAACTTTGTGGCACCCTTTTTCTTTTAAGTCCATAACTCTGTGGCACCTTTTT
1 CTTTTAAGTCCATAACTTTGTGGCA-CCTTTTTCTTTTAAGTCCACAACTCTATGGCACCTTTTT
953185 CCTTTTAAGTC
65 CCTTTTAAGTC
953196 GACAACTCCG
Statistics
Matches: 165, Mismatches: 27, Indels: 23
0.77 0.13 0.11
Matches are distributed among these distances:
125 20 0.12
126 27 0.16
127 14 0.08
128 67 0.41
129 8 0.05
130 8 0.05
131 2 0.01
132 19 0.12
ACGTcount: A:0.21, C:0.27, G:0.12, T:0.40
Consensus pattern (129 bp):
CTTTTAAGTCCATAACTTTGTGGCACCTTTTTCTTTTAAGTCCACAACTCTATGGCACCTTTTTC
CTTTTAAGTCCCCGACTCAATGGCATCTCCTCTCAAAGTCCACAACTCCATGACACTCTTTCTA
Found at i:953273 original size:32 final size:31
Alignment explanation
Indices: 953228--953746 Score: 502
Period size: 32 Copynumber: 16.5 Consensus size: 31
953218 CTTCAAAGTC
* *
953228 CACAACTCTGTGGCACCCTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCACCC-TCTCTAAAGCCCA
*
953260 CATAAGAT-GGTGGCAACCCTCTC-AAAGCCCA
1 CACAAG-TCGGTGGC-ACCCTCTCTAAAGCCCA
* * *
953291 CACAAGTTGGTGACAACCC-CTTTAAAGCCCA
1 CACAAGTCGGTGGC-ACCCTCTCTAAAGCCCA
* *
953322 CACAAGTTGGTGGCACTCT-TCTAAAGCCCA
1 CACAAGTCGGTGGCACCCTCTCTAAAGCCCA
* *
953352 CACAAGTTGGTGGCACCCT-TCTAAAGTCCA
1 CACAAGTCGGTGGCACCCTCTCTAAAGCCCA
*
953382 CACAAGTCAGTGGCACCC-CTTCTAAAGCCCA
1 CACAAGTCGGTGGCACCCTC-TCTAAAGCCCA
*
953413 CACAAGTCGGTGGTAACCCT-TCTCAAAGCCCA
1 CACAAGTCGGTGG-CACCCTCTCT-AAAGCCCA
*
953445 CACAAGTCGGTGGCAACCTCTTCTAAAGCCCA
1 CACAAGTCGGTGGCACCCTC-TCTAAAGCCCA
* * *
953477 CACAAGTTGGTGGCAACCT-TCTAAAGCCTA
1 CACAAGTCGGTGGCACCCTCTCTAAAGCCCA
**
953507 CACAAGTAAGTGGCAACCCT-TCTCAAAGCCCA
1 CACAAGTCGGTGGC-ACCCTCTCT-AAAGCCCA
* * *
953539 CACAAGTCAGTGGCAACCTCATCTCAAGCCCA
1 CACAAGTCGGTGGCACCCTC-TCTAAAGCCCA
* *
953571 CACAAGTTGGTGGCAACCTCTTCTAAAGCCCA
1 CACAAGTCGGTGGCACCCTC-TCTAAAGCCCA
* *
953603 CACAAGTCAGTGGCAACCCT-TCTAAAGTCCA
1 CACAAGTCGGTGGC-ACCCTCTCTAAAGCCCA
*
953634 CACAAGTCAGTGGCACCCCTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCA-CCC-TCTCTAAAGCCCA
* * *
953667 CATAAG-CTGATGGCAACCTTCCTCTAAAGCCCA
1 CACAAGTC-GGTGGC-ACCCT-CTCTAAAGCCCA
* *
953700 CACAAGTCGGTGGCAACCCTCTCAAAAGCCGA
1 CACAAGTCGGTGGC-ACCCTCTCTAAAGCCCA
*
953732 CATAAGTCGGTGGCA
1 CACAAGTCGGTGGCA
953747 TCTCCTTCTA
Statistics
Matches: 417, Mismatches: 46, Indels: 49
0.81 0.09 0.10
Matches are distributed among these distances:
30 83 0.20
31 112 0.27
32 157 0.38
33 63 0.15
34 2 0.00
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (31 bp):
CACAAGTCGGTGGCACCCTCTCTAAAGCCCA
Found at i:953337 original size:94 final size:96
Alignment explanation
Indices: 953228--953746 Score: 595
Period size: 94 Copynumber: 5.5 Consensus size: 96
953218 CTTCAAAGTC
* * *
953228 CACAACTCTGTGGC-ACCCTTCTCTAAAGCCCACATAAGAT-GGTGGCAACCCTCTC-AAAGCCC
1 CACAAGTCGGTGGCAACCC-TCTCTAAAGCCCACACAAG-TCGGTGGCAACCCTCTCTAAAGCCC
*
953290 ACACAAGTTGGTGACAACCCCTT-TAAAGCCCA
64 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCCA
* * * *
953322 CACAAGTTGGTGGC-ACTCT-TCTAAAGCCCACACAAGTTGGTGGC-ACCCT-TCTAAAGTCCAC
1 CACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCAC
**
953383 ACAAGTCAGTGGC-ACCCCTTCTAAAGCCCA
66 ACAAGTTGGTGGCAACCCCTTCTAAAGCCCA
*
953413 CACAAGTCGGTGGTAACCCT-TCTCAAAGCCCACACAAGTCGGTGGCAA-CCTCTTCTAAAGCCC
1 CACAAGTCGGTGGCAACCCTCTCT-AAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCC
*
953476 ACACAAGTTGGTGGCAA--CCTTCTAAAGCCTA
64 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCCA
** * *
953507 CACAAGTAAGTGGCAACCCT-TCTCAAAGCCCACACAAGTCAGTGGCAA-CCTCATCTCAAGCCC
1 CACAAGTCGGTGGCAACCCTCTCT-AAAGCCCACACAAGTCGGTGGCAACCCTC-TCTAAAGCCC
*
953570 ACACAAGTTGGTGGCAACCTCTTCTAAAGCCCA
64 ACACAAGTTGGTGGCAACCCCTTCTAAAGCCCA
* * * *
953603 CACAAGTCAGTGGCAACCCT-TCTAAAGTCCACACAAGTCAGTGGCACCCCTTCTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCC-TCTCTAAAGCCCA
* * *
953667 CATAAGCTGATGGCAACCTTCC-TCTAAAGCCCA
65 CACAAGTTGGTGGCAACC--CCTTCTAAAGCCCA
* * *
953700 CACAAGTCGGTGGCAACCCTCTCAAAAGCCGACATAAGTCGGTGGCA
1 CACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCA
953747 TCTCCTTCTA
Statistics
Matches: 370, Mismatches: 39, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
90 9 0.02
91 45 0.12
92 29 0.08
93 25 0.07
94 102 0.28
95 44 0.12
96 62 0.17
97 32 0.09
98 22 0.06
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (96 bp):
CACAAGTCGGTGGCAACCCTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCTAAAGCCCAC
ACAAGTTGGTGGCAACCCCTTCTAAAGCCCA
Found at i:953480 original size:64 final size:62
Alignment explanation
Indices: 953249--953758 Score: 575
Period size: 64 Copynumber: 8.1 Consensus size: 62
953239 GGCACCCTTC
* * *
953249 TCTAAAGCCCACATAAGAT-GGTGGCAACCC-TCTCAAAGCCCACACAAGTTGGTGACAACCCCT
1 TCTAAAGCCCACACAAG-TCGGTGGCAACCCTTCT-AAAGCCCACACAAGTCGGTGGCAA-CCCT
* * *
953312 T-TAAAGCCCACACAAGTTGGTGGC-ACTCTTCTAAAGCCCACACAAGTTGGTGGC-ACCCT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
* * * *
953371 TCTAAAGTCCACACAAGTCAGTGGCACCCCTTCTAAAGCCCACACAAGTCGGTGGTAACCCT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
*
953433 TCTCAAAGCCCACACAAGTCGGTGGCAACCTCTTCTAAAGCCCACACAAGTTGGTGGCAA-CCT
1 TCT-AAAGCCCACACAAGTCGGTGGCAACC-CTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
* ** * *
953496 TCTAAAGCCTACACAAGTAAGTGGCAACCCTTCTCAAAGCCCACACAAGTCAGTGGCAACCTCA
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT-AAAGCCCACACAAGTCGGTGGCAACC-CT
* * *
953560 TCTCAAGCCCACACAAGTTGGTGGCAACCTCTTCTAAAGCCCACACAAGTCAGTGGCAACCCT
1 TCTAAAGCCCACACAAGTCGGTGGCAACC-CTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
* * * * *
953623 TCTAAAGTCCACACAAGTCAGTGGCACCCCTTCTCTAAAGCCCACATAAG-CTGATGGCAACCTT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCC-T-TCTAAAGCCCACACAAGTC-GGTGGCAACC--
*
953687 CC
61 CT
* * * *
953689 TCTAAAGCCCACACAAGTCGGTGGCAACCCTCTCAAAAGCCGACATAAGTCGGTGGCATCTCCT
1 TCTAAAGCCCACACAAGTCGGTGGCAACCCT-TCTAAAGCCCACACAAGTCGGTGGCAAC-CCT
953753 TCTAAA
1 TCTAAA
953759 CCTAATGTCG
Statistics
Matches: 386, Mismatches: 43, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
59 5 0.01
60 21 0.05
61 56 0.15
62 77 0.20
63 58 0.15
64 110 0.28
65 29 0.08
66 30 0.08
ACGTcount: A:0.30, C:0.33, G:0.18, T:0.19
Consensus pattern (62 bp):
TCTAAAGCCCACACAAGTCGGTGGCAACCCTTCTAAAGCCCACACAAGTCGGTGGCAACCCT
Found at i:953883 original size:52 final size:51
Alignment explanation
Indices: 953808--953988 Score: 224
Period size: 52 Copynumber: 3.5 Consensus size: 51
953798 TCAAACCATC
* * *
953808 TCTTTC-TAAGTCCAATGTCGCTGGTCTTGAATCAGTACATTAGCACCTTTT
1 TCTTTCTTAAGTCCAATATCGCTGG-CTTGAATCAGCATATTAGCACCTTTT
*
953859 TCTTTCTTAAGTCCAATATCGCTGGCCTTGAATCCGCATATTAGCA-C-TTT
1 TCTTTCTTAAGTCCAATATCGCTGG-CTTGAATCAGCATATTAGCACCTTTT
* *
953909 TCTTATCTTGAAGTCCAATATCGCTGGCTTTGAATCAGCATATTGGCACCTTTG
1 TCTT-TCTT-AAGTCCAATATCGCTGGC-TTGAATCAGCATATTAGCACCTTTT
* *
953963 TCATCCTTAAGTCCAATATCGCTGGC
1 TCTTTCTTAAGTCCAATATCGCTGGC
953989 ACATCATTTG
Statistics
Matches: 114, Mismatches: 10, Indels: 11
0.84 0.07 0.08
Matches are distributed among these distances:
50 7 0.06
51 12 0.11
52 86 0.75
53 4 0.04
54 5 0.04
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (51 bp):
TCTTTCTTAAGTCCAATATCGCTGGCTTGAATCAGCATATTAGCACCTTTT
Found at i:954467 original size:13 final size:13
Alignment explanation
Indices: 954449--954475 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
954439 ATAAATAATA
954449 AATGTATCGATAC
1 AATGTATCGATAC
954462 AATGTATCGATAC
1 AATGTATCGATAC
954475 A
1 A
954476 TGCCTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:966489 original size:2 final size:2
Alignment explanation
Indices: 966472--966550 Score: 63
Period size: 2 Copynumber: 40.5 Consensus size: 2
966462 GTGCATATCT
* * * * * * *
966472 TA TA CA TA TG TA TA TA TA TA CA TG TG TG TA TG TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
966513 TA TA TA TA TA TG TA TA T- TA TA TA TA TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
966551 GTGTTTATAT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
1 2 0.03
2 59 0.97
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (2 bp):
TA
Found at i:966524 original size:21 final size:21
Alignment explanation
Indices: 966472--966550 Score: 104
Period size: 21 Copynumber: 3.7 Consensus size: 21
966462 GTGCATATCT
* *
966472 TATACATATGTATATATATACA
1 TATATATATGTATAT-TATATA
* * *
966494 TGTGTGTATGTATATTATATA
1 TATATATATGTATATTATATA
966515 TATATATATGTATATTATATA
1 TATATATATGTATATTATATA
966536 TATATATATGTATAT
1 TATATATATGTATAT
966551 GTGTTTATAT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
21 38 0.78
22 11 0.22
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.49
Consensus pattern (21 bp):
TATATATATGTATATTATATA
Found at i:970132 original size:19 final size:19
Alignment explanation
Indices: 970108--970166 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
970098 TACAACTTAT
*
970108 AAGCATTAAACATAATTAC
1 AAGCATTAAACATAATCAC
* *
970127 AAGCATTAAACTTAGTCAC
1 AAGCATTAAACATAATCAC
* *
970146 AAGCA-TAAGCATAAGCAC
1 AAGCATTAAACATAATCAC
970164 AAG
1 AAG
970167 TATAAACACA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
18 12 0.36
19 21 0.64
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.20
Consensus pattern (19 bp):
AAGCATTAAACATAATCAC
Found at i:973267 original size:17 final size:17
Alignment explanation
Indices: 973229--973267 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
973219 TAGGGTTTTT
**
973229 TTTTGGGTTTAGGTTTA
1 TTTTGGGTTTAGGTGGA
*
973246 GTTTGGGTTTAGGTGGA
1 TTTTGGGTTTAGGTGGA
973263 TTTTG
1 TTTTG
973268 CTAATTAGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.10, C:0.00, G:0.36, T:0.54
Consensus pattern (17 bp):
TTTTGGGTTTAGGTGGA
Found at i:975820 original size:155 final size:155
Alignment explanation
Indices: 975254--975822 Score: 461
Period size: 156 Copynumber: 3.7 Consensus size: 155
975244 TTGGCACCTT
* * * * *
975254 TAAAGGACTT-AAAAAGATTATAAATGGGATAAACCTATCCTAAATATCCACTTTTCG-CAAAAA
1 TAAAGGACTTAAAAAAGATTATAGAT-GGATGAACCTATCCTAAATACCCAC-CTTCGACATAAA
* * * *
975317 AGCAGA-CTCAATGATAACCTAGGACTTGATGCTAAAAAATTATCAAAATACCCCTATAGGTATA
64 AGCAGACCTCAGTGATAACCTAGGACTTGATTCTAAAAAATTA-CAAAATACCCTTAT-GGGATA
* *
975381 CTTTCGACATGAAAGTATCCC-AGTAACCC
127 CCTTCAACATGAAAGTATCCCGA-TAACCC
** *
975410 TAGTGGA--TACTAAAAA-ATTATAGAAAT-GATGAACCTATCCTAAATATCCACCTTC-AGCAT
1 TAAAGGACTTA--AAAAAGATTATAG--ATGGATGAACCTATCCTAAATACCCACCTTCGA-CAT
* * * * * * * * *
975470 AAAAG-TGAACTCAGTGACAACCTTGGACTTGATTTTAAAAAATTATGAAAATGCCTTTAGGGGA
61 AAAAGCAGACCTCAGTGATAACCTAGGACTTGATTCTAAAAAATTA-CAAAATACCCTTATGGGA
*
975534 TACCTTCAATATGAAAGTATCCCGATAACCC
125 TACCTTCAACATGAAAGTATCCCGATAACCC
** * * * * * * *
975565 TAGTGAACACTAAAACA-ATAATTA-ATAGGATGAACCTATCCTAAATACACACCTTTGGCATAA
1 TAAAGGAC-TTAAAAAAGATTA-TAGAT-GGATGAACCTATCCTAAATACCCACCTTCGACATAA
* * * * * * * *
975628 AA-CAGTCCTGA-TTATAGCTTAGGACTCGATTTTGAAAAATTACAAAAATACCCTTATGGGATA
63 AAGCAGACCTCAGTGATAACCTAGGACTTGATTCTAAAAAATTAC-AAAATACCCTTATGGGATA
975691 CCTTCAACATGAAAGTATCCCGATAACCC
127 CCTTCAACATGAAAGTATCCCGATAACCC
* *
975720 TAAAGGACTTAAAAAAGATTACAGATGGATGAA-CTATACTAAATACCCACCTTCGACATAAAAG
1 TAAAGGACTTAAAAAAGATTATAGATGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAG
** *
975784 TGGACCT-AGTGATAACCTAGGACTT-AGTTCTAGAAAATT
66 CAGACCTCAGTGATAACCTAGGACTTGA-TTCTAAAAAATT
975823 TTGAAAATGC
Statistics
Matches: 325, Mismatches: 65, Indels: 48
0.74 0.15 0.11
Matches are distributed among these distances:
153 28 0.09
154 42 0.13
155 118 0.36
156 126 0.39
157 7 0.02
158 4 0.01
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (155 bp):
TAAAGGACTTAAAAAAGATTATAGATGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAG
CAGACCTCAGTGATAACCTAGGACTTGATTCTAAAAAATTACAAAATACCCTTATGGGATACCTT
CAACATGAAAGTATCCCGATAACCC
Found at i:975848 original size:154 final size:154
Alignment explanation
Indices: 975280--975848 Score: 392
Period size: 155 Copynumber: 3.7 Consensus size: 154
975270 ATTATAAATG
* * * * * *
975280 GGATAAACCTATCCTAAATATCCACTTTTCG-CAAAAAAGCAGA-CTCAATGATAACCTAGGACT
1 GGATGAACCTATCCTAAATACCCAC-CTTCGACATAAAAG-TGACCT-AGTGATAACCTAGGACT
* * * * ** * * * *
975343 TGATGCTAAAAAATTATCAAAATACCCCTATAGGTATACTTTCGACATGAAAGTATCCC-AGTAA
63 TGAT-TTAGAAAATTATGAAAATGCTTCTA-GGGGATACCTTCAACATGAAAGTATCCCGA-TAA
** * * * *
975407 CCCTAGTGGATACTAAAA-AATTA-TAGAAA
125 CCCTAAAGAACACTAAAACAATAATTA-AGA
* * * * *
975436 TGATGAACCTATCCTAAATATCCACCTTC-AGCATAAAAGTGAACTCAGTGACAACCTTGGACTT
1 GGATGAACCTATCCTAAATACCCACCTTCGA-CATAAAAGTGACCT-AGTGATAACCTAGGACTT
* *
975500 GATTTTAAAAAATTATGAAAATGCCTT-TAGGGGATACCTTCAATATGAAAGTATCCCGATAACC
64 GA-TTTAGAAAATTATGAAAATG-CTTCTAGGGGATACCTTCAACATGAAAGTATCCCGATAACC
** *
975564 CTAGTGAACACTAAAACAATAATTAATA
127 CTAAAGAACACTAAAACAATAATTAAGA
* * * ** * * * * *
975592 GGATGAACCTATCCTAAATACACACCTTTGGCATAAAACAGTCCT-GATTATAGCTTAGGACTCG
1 GGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGTGACCTAG-TGATAACCTAGGACTTG
* ** * * *
975656 ATTTTGAAAAATTACAAAAATAC-CCTTATGGGATACCTTCAACATGAAAGTATCCCGATAACCC
65 ATTTAG-AAAATTATGAAAATGCTTC-TAGGGGATACCTTCAACATGAAAGTATCCCGATAACCC
* * *
975720 TAAAGGAC-TTAAAA-AA-GATTACAGA
128 TAAAGAACACTAAAACAATAATTA-AGA
*
975745 TGGATGAA-CTATACTAAATACCCACCTTCGACATAAAAGTGGACCTAGTGATAACCTAGGACTT
1 -GGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGT-GACCTAGTGATAACCTAGGACTT
*
975809 -AGTTCTAGAAAATTTTGAAAATGCTTCTAGGGGATACCTT
64 GA-TT-TAGAAAATTATGAAAATGCTTCTAGGGGATACCTT
975849 TAACGTAAAA
Statistics
Matches: 324, Mismatches: 69, Indels: 42
0.74 0.16 0.10
Matches are distributed among these distances:
152 4 0.01
153 31 0.10
154 59 0.18
155 116 0.36
156 110 0.34
157 4 0.01
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (154 bp):
GGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGTGACCTAGTGATAACCTAGGACTTGA
TTTAGAAAATTATGAAAATGCTTCTAGGGGATACCTTCAACATGAAAGTATCCCGATAACCCTAA
AGAACACTAAAACAATAATTAAGA
Done.