Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01013504.1 Corchorus olitorius cultivar O-4 contig13537, whole genome shotgun sequence
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: 66580
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Found at i:5902 original size:46 final size:43
Alignment explanation
Indices: 5846--6042 Score: 227
Period size: 46 Copynumber: 4.4 Consensus size: 43
5836 TTTTCCCTCT
* *
5846 TTCCAAAAATGCCCCTTCCTAGTTGGAAGGTCCCCGTTTTTTTCTA
1 TTCCAAAAATGCCCCTTCCTGGTTGGAAGGT-CCC-TTGTTTTC-A
* * * *
5892 TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGTTTTCTTTCA
1 TTCCAAAAATGCCCCTTCCTGGTTGGAAGGTC-C-CTTGT-TTTCA
*
5938 TTCCAAAAATGCCCTTTCCTGGTTGGAAGGT-CCTTGTTTTCA
1 TTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCCTTGTTTTCA
* *
5980 TTTCCAAAAAATGCCCCTTCCTGGTTGGAAGGTCTC-TGTTTTTA
1 -TTCC-AAAAATGCCCCTTCCTGGTTGGAAGGTCCCTTGTTTTCA
6024 TTCCAAAAATGCCCCTTCC
1 TTCCAAAAATGCCCCTTCC
6043 CGGTCAGAAG
Statistics
Matches: 133, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
42 20 0.15
43 11 0.08
44 34 0.26
45 2 0.02
46 62 0.47
47 4 0.03
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (43 bp):
TTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCCTTGTTTTCA
Found at i:6531 original size:20 final size:21
Alignment explanation
Indices: 6493--6532 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
6483 ACACAAGTCT
* *
6493 GAGGCTACCCGGGGGCGGGTA
1 GAGGCTACCCAGGGCCGGGTA
6514 GAGG-TACCCAGGGCCGGGT
1 GAGGCTACCCAGGGCCGGGT
6533 GACCCCCGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.15, C:0.25, G:0.50, T:0.10
Consensus pattern (21 bp):
GAGGCTACCCAGGGCCGGGTA
Found at i:7148 original size:52 final size:49
Alignment explanation
Indices: 7021--7249 Score: 288
Period size: 52 Copynumber: 4.7 Consensus size: 49
7011 CTCCGTTTTA
*
7021 TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGTTTTCAATGTC-T
1 TTCCAAAAATGCCCCTTCCCAGTCGGAAGGTCACAGTTTTCAATGTCTT
*
7069 TTCCAAAAATGCCCCTTCCCAGTCGGAAGGTCCCAGTTTTCAATGTCTT
1 TTCCAAAAATGCCCCTTCCCAGTCGGAAGGTCACAGTTTTCAATGTCTT
* * *
7118 ATTCCAAAAAAAGCCCCTTTCCCAGTCGGAAGGTCCCAGTTCTCAATGTCTCT
1 -TTCC-AAAAATGCCCC-TTCCCAGTCGGAAGGTCACAGTTTTCAATGTCT-T
* * *
7171 TTCCAAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTTC--TTTC-T
1 TTCC-AAAAATGCCCCTTCCCAGTCGGAAGGTCACAGTTTTCAATGTCTT
*
7218 TTCCAAAAATGCCCCTTCCTAGGT-GGAAGGTC
1 TTCCAAAAATGCCCCTTCCCA-GTCGGAAGGTC
7250 TCCGTTTTAT
Statistics
Matches: 163, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
46 23 0.14
47 7 0.04
48 45 0.28
49 4 0.02
50 4 0.02
51 32 0.20
52 47 0.29
53 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (49 bp):
TTCCAAAAATGCCCCTTCCCAGTCGGAAGGTCACAGTTTTCAATGTCTT
Found at i:7275 original size:87 final size:87
Alignment explanation
Indices: 7171--8003 Score: 515
Period size: 87 Copynumber: 9.5 Consensus size: 87
7161 CAATGTCTCT
*
7171 TTCCAAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTTCTTTCTTTCCAAAAATGCCCCTTC
1 TTCC-AAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTTCTTTCATTCCAAAAATGCCCCTTC
*
7236 CTAGGTGGAAGGTCTCCG-TTTTA
65 CT-GGTGGAAGGTCTCAGTTTTTA
* * * * *
7259 TTCCAAAAATACCCCTTCCCGGTCGGAAGG-AACAGTTTTC-TTCACTCCAAAGATGCCCCTTCC
1 TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTTCTTTCATTCCAAAAATGCCCCTTCC
* *
7322 TGGTTGGAAGGTC-CTTGTTTTCA
66 TGG-TGGAAGGTCTC-AGTTTTTA
** * * *
7345 TTTCCAAAAAATGCCCCTTCCTAGTTGGAAGGTCTCTG--TT-TTT-ATTCCAAAAATGCCCCTT
1 -TTCC-AAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTTCTTTCATTCCAAAAATGCCCCTT
* * * * *
7406 CCCGATCAGAAGGTCACAGCTTTCTTTCT
64 CCTGGT-GGAAGGTCTCAG--TT-TTT-A
* * * *
7435 TTCAAAAAATGCCCCTTCCTGGGT-GGAAGGTCTC--C-GT-TTT-ATTCCAAAAATGCCCCTTC
1 TTCCAAAAATGCCCCTTCC-CGGTCGGAAGGTCACAGCTTTCTTTCATTCCAAAAATGCCCCTTC
* *
7494 CCGGTCGGAAGGTCACAGTTTTCTTTCA
65 CTGGT-GGAAGGTCTCAG--TT-TTT-A
* * * *
7522 TTCCAAAAATGCCCATGCCTGGTTGGAAGGT--C--CTTGT-TTTCATTTCCAAAAAATGCCCCT
1 TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTT-TCTTTCA-TTCC-AAAAATGCCCCT
* *
7582 TCCTGGTTGAAGGTCTCTGTTTTTA
63 TCCTGGTGGAAGGTCTCAGTTTTTA
*
7607 TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTTCTTTCTTTCCAAAAATGCCCCTTCC
1 TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTTCTTTCATTCCAAAAATGCCCCTTCC
* *
7672 TAGTTGGAAGGTCTCCG-TTTTA
66 T-GGTGGAAGGTCTCAGTTTTTA
* * * ** * * *
7694 TTCCAAAAATGTCCCTTCTCGATCGGAAGGTCACAATTTTCTTTCATTCCAAATATGCTCATTCC
1 TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTTCTTTCATTCCAAAAATGCCCCTTCC
* *
7759 TGGTTGGAAGGTCCTTA-TTTTCA
66 TGG-TGGAAGGT-CTCAGTTTTTA
* * * * * * *
7782 CCTCCAAAAATGCCCCTTCCTGGTTGGGAGGT-----CTTTGTTTTCATTCTC-AAGACGCCCCT
1 -TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTT-CTTTCATTC-CAAAAATGCCCCT
* * *
7841 TCCTGGTTGGAAGGTCCTTA-TCTTCA
63 TCCTGG-TGGAAGGT-CTCAGTTTTTA
* * *
7867 TTTCCAAAAATG-CCCTTCCCGGTCGGAAGGTC-CAGTTTTCGATATCTCTTTCCAAAAATGCCT
1 -TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTTC--T-T-TCATTCCAAAAATGCCC
*** * * *
7930 CTTCCCAATCGGAAGGTC-CTTGCTTTCA
61 CTTCCTGGT-GGAAGGTCTC-AGTTTTTA
* * * *
7958 TTTCCAAAAATGACCCTTCCCAGTCGGAAGGTCCCA-CTTTCCTTCA
1 -TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTTCTTTCA
8004 ATAATTCCTA
Statistics
Matches: 601, Mismatches: 97, Indels: 94
0.76 0.12 0.12
Matches are distributed among these distances:
84 22 0.04
85 112 0.19
86 47 0.08
87 197 0.33
88 82 0.14
89 55 0.09
90 22 0.04
91 39 0.06
92 23 0.04
93 2 0.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (87 bp):
TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTTCTTTCATTCCAAAAATGCCCCTTCC
TGGTGGAAGGTCTCAGTTTTTA
Found at i:7609 original size:131 final size:128
Alignment explanation
Indices: 6971--7977 Score: 562
Period size: 131 Copynumber: 7.6 Consensus size: 128
6961 TATCAACAGC
* *
6971 TTTCTTTCTTTCCAAAAATGCCCCTTCCTGGTTGGAAGGT-CTCCGTTTT-A-TTCCAAAAATGC
1 TTTCTTTCATTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCT-TGTTTTCATTTCCAAAAATGC
* * * * *
7033 CCCTTCCCGGTCGGAAGGTCACAGTTTTCAATGTCTTTCCAAAAATGCCCCTTCCCAGTCGGAAG
65 CCCTTCCTGGT-TGAAGGTC-CTG-TTT---T-T-ATTCCAAAAATGCCCCTTCCCGGTCGGAAG
7098 GTCCCAGT
122 GT-CCAGT
* * ** * *
7106 TTTCAATGTCTTATTCCAAAAAAAGCCCCTTTCCCAGTCGGAAGGTCCCAGTTCTCAATGTCTC-
1 TTTC--T-T-TCATTCC-AAAAATGCCCC-TTCCTGGTTGGAAGGT-CC--TTGT---T-T-TCA
* * * *
7170 TTTCCAAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTTTCTTTCTTTCCAAAAATGCCCCTT
52 TTTCC-AAAAATGCCCCTTCCTGGT-TGAAGGTC-CTG--TT-TTT-ATTCCAAAAATGCCCCTT
* *
7235 CCTAGGT-GGAAGGTCTCCG-
110 CC-CGGTCGGAAGGTC-CAGT
* * * * * * *
7254 --T-TTT-ATTCCAAAAATACCCCTTCCCGGTCGGAAGGAACAGTT-TTCTTCA-CTCCAAAGAT
1 TTTCTTTCATTCCAAAAATGCCCCTTCCTGGTTGGAAGG-TC-CTTGTT-TTCATTTCCAAAAAT
* ** *
7313 GCCCCTTCCTGGTTGGAAGGTCCTTGTTTTCATTTCCAAAAAATGCCCCTTCCTAGTTGGAAGGT
63 GCCCCTTCCTGGTT-GAAGGTCC-TGTTTTTA-TTCC-AAAAATGCCCCTTCCCGGTCGGAAGGT
7378 CTC--T
124 C-CAGT
* * * ** *
7382 GTT-TTT-ATTCCAAAAATGCCCCTTCCCGATCAGAAGGTCACAGCTT-TCTTTC-TTTCAAAAA
1 TTTCTTTCATTCCAAAAATGCCCCTTCCTGGTTGGAAGGT--C--CTTGT-TTTCATTTCCAAAA
* *
7443 ATGCCCCTTCCTGGGTGGAAGGTCTCCG-TTTTATTCCAAAAATGCCCCTTCCCGGTCGGAAGGT
61 ATGCCCCTTCCT-GGTTGAAGGTC-CTGTTTTTATTCCAAAAATGCCCCTTCCCGGTCGGAAGGT
7507 CACAGT
124 C-CAGT
* *
7513 TTTCTTTCATTCCAAAAATGCCCATGCCTGGTTGGAAGGTCCTTGTTTTCATTTCCAAAAAATGC
1 TTTCTTTCATTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCTTGTTTTCATTTCC-AAAAATGC
7578 CCCTTCCTGGTTGAAGGTCTCTGTTTTTATTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAG
65 CCCTTCCTGGTTGAAGGTC-CTGTTTTTATTCCAAAAATGCCCCTTCCCGGTCGGAAGGTC-CAG
*
7643 C
128 T
* * * *
7644 TTTCTTTCTTTCCAAAAATGCCCCTTCCTAGTTGGAAGGT-CTCCGTTTT-A-TTCCAAAAATGT
1 TTTCTTTCATTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCT-TGTTTTCATTTCCAAAAATGC
* * * * * * * *
7706 CCCTT-CTCGATCGGAAGGTCACAATTTTCTTTCATTCCAAATATGCTCATTCCTGGTTGGAAGG
65 CCCTTCCT-GGT-TGAAGGTC-C--TGTT-TTT-ATTCCAAAAATGCCCCTTCCCGGTCGGAAGG
7770 TCC--T
123 TCCAGT
* * * * * *
7774 TAT-TTTCACCTCCAAAAATGCCCCTTCCTGGTTGGGAGGTCTTTGTTTTCA-TTCTC-AAGACG
1 TTTCTTTCA-TTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCTTGTTTTCATTTC-CAAAAATG
*
7836 CCCCTTCCTGGTTGGAAGGTCCT-TATCTTCATTTCCAAAAATG-CCCTTCCCGGTCGGAAGGTC
64 CCCCTTCCTGGTT-GAAGGTCCTGT-T-TTTA-TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTC
7899 CAGT
125 CAGT
* * *** * *
7903 TTTCGATATCTCTTTCCAAAAATGCCTCTTCCCAATCGGAAGGTCCTTGCTTTCATTTCCAAAAA
1 TTTC--T-T-TCATTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCTTGTTTTCATTTCCAAAAA
*
7968 TGACCCTTCC
62 TGCCCCTTCC
7978 CAGTCGGAAG
Statistics
Matches: 699, Mismatches: 101, Indels: 145
0.74 0.11 0.15
Matches are distributed among these distances:
127 21 0.03
128 37 0.05
129 79 0.11
130 94 0.13
131 158 0.23
132 47 0.07
133 96 0.14
134 16 0.02
135 4 0.01
136 1 0.00
137 3 0.00
138 16 0.02
139 14 0.02
140 15 0.02
141 14 0.02
142 1 0.00
143 2 0.00
144 1 0.00
145 1 0.00
146 1 0.00
147 1 0.00
148 2 0.00
149 32 0.05
150 7 0.01
151 32 0.05
152 3 0.00
153 1 0.00
ACGTcount: A:0.22, C:0.28, G:0.17, T:0.33
Consensus pattern (128 bp):
TTTCTTTCATTCCAAAAATGCCCCTTCCTGGTTGGAAGGTCCTTGTTTTCATTTCCAAAAATGCC
CCTTCCTGGTTGAAGGTCCTGTTTTTATTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCCAGT
Found at i:7654 original size:218 final size:219
Alignment explanation
Indices: 6966--7856 Score: 1164
Period size: 218 Copynumber: 4.0 Consensus size: 219
6956 ATTCGTATCA
6966 ACAGCTTTCTTTCTTTCCAAAAATGCCCCTTCCT-GGTTGGAAGGTCTCCGTTTTATTCCAAAAA
1 ACAGCTTTCTTTCTTTCCAAAAATGCCCCTTCCTAGG-TGGAAGGTCTCCGTTTTATTCCAAAAA
* * * ** *
7030 TGCCCCTTCCCGGTCGGAAGGTCACAGTTTTCAATGTCTTTCCAAAAATGCCCCTTCCCAGTCGG
65 TGCCCCTTCCCGGTCGGAAGGTCACAGTTTTC--TTTCATTCCAAAAATGCCCATTCCTGGTTGG
** * * * * *
7095 AAGGTCCCAGTTTTCAATGTCTTATTCCAAAAAAAGCCCCTTTCCCAGTCGGAAGGTCCCAGTTC
128 AAGGTCCTTGTTTTC-A-----T-TTCCAAAAAATGCCCC-TTCCTAGTTGGAAGGTCTCTG-T-
*
7160 TCAATGTCTCTTTCCAAAAAATGCCCCTTCCCGGTCGGAAGGTC
183 T---T-T-T-ATTCC-AAAAATGCCCCTTCCCGGTCGGAAGGTC
7204 ACAGCTTTCTTTCTTTCCAAAAATGCCCCTTCCTAGGTGGAAGGTCTCCGTTTTATTCCAAAAAT
1 ACAGCTTTCTTTCTTTCCAAAAATGCCCCTTCCTAGGTGGAAGGTCTCCGTTTTATTCCAAAAAT
* * * * *
7269 ACCCCTTCCCGGTCGGAAGG-AACAGTTTTC-TTCACTCCAAAGATGCCCCTTCCTGGTTGGAAG
66 GCCCCTTCCCGGTCGGAAGGTCACAGTTTTCTTTCATTCCAAAAATGCCCATTCCTGGTTGGAAG
7332 GTCCTTGTTTTCATTTCCAAAAAATGCCCCTTCCTAGTTGGAAGGTCTCTGTTTTTATTCCAAAA
131 GTCCTTGTTTTCATTTCCAAAAAATGCCCCTTCCTAGTTGGAAGGTCTCTGTTTTTATTCCAAAA
* *
7397 ATGCCCCTTCCCGATCAGAAGGTC
196 ATGCCCCTTCCCGGTCGGAAGGTC
* *
7421 ACAGCTTTCTTTCTTTCAAAAAATGCCCCTTCCTGGGTGGAAGGTCTCCGTTTTATTCCAAAAAT
1 ACAGCTTTCTTTCTTTCCAAAAATGCCCCTTCCTAGGTGGAAGGTCTCCGTTTTATTCCAAAAAT
*
7486 GCCCCTTCCCGGTCGGAAGGTCACAGTTTTCTTTCATTCCAAAAATGCCCATGCCTGGTTGGAAG
66 GCCCCTTCCCGGTCGGAAGGTCACAGTTTTCTTTCATTCCAAAAATGCCCATTCCTGGTTGGAAG
*
7551 GTCCTTGTTTTCATTTCCAAAAAATGCCCCTTCCTGGTT-GAAGGTCTCTGTTTTTATTCCAAAA
131 GTCCTTGTTTTCATTTCCAAAAAATGCCCCTTCCTAGTTGGAAGGTCTCTGTTTTTATTCCAAAA
7615 ATGCCCCTTCCCGGTCGGAAGGTC
196 ATGCCCCTTCCCGGTCGGAAGGTC
*
7639 ACAGCTTTCTTTCTTTCCAAAAATGCCCCTTCCTAGTTGGAAGGTCTCCGTTTTATTCCAAAAAT
1 ACAGCTTTCTTTCTTTCCAAAAATGCCCCTTCCTAGGTGGAAGGTCTCCGTTTTATTCCAAAAAT
* * * * * *
7704 GTCCCTTCTCGATCGGAAGGTCACAATTTTCTTTCATTCCAAATATGCTCATTCCTGGTTGGAAG
66 GCCCCTTCCCGGTCGGAAGGTCACAGTTTTCTTTCATTCCAAAAATGCCCATTCCTGGTTGGAAG
* ** * * * *
7769 GTCCTTATTTTCACCTCC-AAAAATGCCCCTTCCTGGTTGGGAGGTCTTTGTTTTCATTCTC-AA
131 GTCCTTGTTTTCATTTCCAAAAAATGCCCCTTCCTAGTTGGAAGGTCTCTGTTTTTATTC-CAAA
* * * *
7832 GACGCCCCTTCCTGGTTGGAAGGTC
195 AATGCCCCTTCCCGGTCGGAAGGTC
7857 CTTATCTTCA
Statistics
Matches: 598, Mismatches: 50, Indels: 30
0.88 0.07 0.04
Matches are distributed among these distances:
217 128 0.21
218 235 0.39
219 69 0.12
220 1 0.00
221 1 0.00
224 1 0.00
225 1 0.00
226 17 0.03
227 15 0.03
228 1 0.00
233 1 0.00
234 36 0.06
237 9 0.02
238 81 0.14
239 2 0.00
ACGTcount: A:0.22, C:0.28, G:0.18, T:0.33
Consensus pattern (219 bp):
ACAGCTTTCTTTCTTTCCAAAAATGCCCCTTCCTAGGTGGAAGGTCTCCGTTTTATTCCAAAAAT
GCCCCTTCCCGGTCGGAAGGTCACAGTTTTCTTTCATTCCAAAAATGCCCATTCCTGGTTGGAAG
GTCCTTGTTTTCATTTCCAAAAAATGCCCCTTCCTAGTTGGAAGGTCTCTGTTTTTATTCCAAAA
ATGCCCCTTCCCGGTCGGAAGGTC
Found at i:7856 original size:42 final size:43
Alignment explanation
Indices: 7299--7899 Score: 188
Period size: 46 Copynumber: 13.9 Consensus size: 43
7289 AACAGTTTTC
* * *
7299 TTCA-CTCCAAAGATGCCCCTTCCTGGTTGGAAGGTCCTTGTT
1 TTCACCTCCAAAAACGCCCCTTCCTGGTTGGAAGGTCCTTATT
** * *
7341 TTCATTTCCAAAAAATGCCCCTTCCTAGTTGGAAGGTCTCTGT-TT
1 TTCACCTCC-AAAAACGCCCCTTCCTGGTTGGAAGGTC-CT-TATT
* * * * **
7386 TT-A-TTCCAAAAATGCCCCTTCCCGATCAGAAGGTCACAGCTT-TCT
1 TTCACCTCCAAAAACGCCCCTTCCTGGTTGGAAGGT--C--CTTAT-T
** * * * **
7431 TTC-TTTCAAAAAATGCCCCTTCCTGGGTGGAAGGT-CTCCGTT
1 TTCACCTCCAAAAACGCCCCTTCCTGGTTGGAAGGTCCT-TATT
* * * * *
7473 TT-A-TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGTTTTCT
1 TTCACCTCCAAAAACGCCCCTTCCTGGTTGGAAGGTC-C--TTAT-T
* * * * *
7518 TTCA-TTCCAAAAATGCCCATGCCTGGTTGGAAGGTCCTTGTT
1 TTCACCTCCAAAAACGCCCCTTCCTGGTTGGAAGGTCCTTATT
** *
7560 TTCATTTCCAAAAAATGCCCCTTCCTGGTT-GAAGGTCTCTGT-TT
1 TTCACCTCC-AAAAACGCCCCTTCCTGGTTGGAAGGTC-CT-TATT
* * * *
7604 TT-A-TTCCAAAAATGCCCCTTCCCGGTCGGAAGGTCACAGCTT-TCT
1 TTCACCTCCAAAAACGCCCCTTCCTGGTTGGAAGGT--C--CTTAT-T
** * * **
7649 TTC-TTTCCAAAAATGCCCCTTCCTAGTTGGAAGGT-CTCCGTT
1 TTCACCTCCAAAAACGCCCCTTCCTGGTTGGAAGGTCCT-TATT
* * * * * *
7691 TT-A-TTCCAAAAATGTCCCTT-CTCGATCGGAAGGTCACAATTTTCT
1 TTCACCTCCAAAAACGCCCCTTCCT-GGTTGGAAGGTC-C--TTAT-T
* * * * *
7736 TTCA-TTCCAAATATGCTCATTCCTGGTTGGAAGGTCCTTATT
1 TTCACCTCCAAAAACGCCCCTTCCTGGTTGGAAGGTCCTTATT
* * * *
7778 TTCACCTCCAAAAATGCCCCTTCCTGGTTGGGAGGTCTTTGTT
1 TTCACCTCCAAAAACGCCCCTTCCTGGTTGGAAGGTCCTTATT
* * *
7821 TTCA-TTCTC-AAGACGCCCCTTCCTGGTTGGAAGGTCCTTATC
1 TTCACCTC-CAAAAACGCCCCTTCCTGGTTGGAAGGTCCTTATT
** * * *
7863 TTCATTTCCAAAAATG-CCCTTCCCGGTCGGAAGGTCC
1 TTCACCTCCAAAAACGCCCCTTCCTGGTTGGAAGGTCC
7900 AGTTTTCGAT
Statistics
Matches: 447, Mismatches: 67, Indels: 90
0.74 0.11 0.15
Matches are distributed among these distances:
40 2 0.00
41 73 0.16
42 105 0.23
43 72 0.16
44 59 0.13
45 27 0.06
46 107 0.24
47 2 0.00
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (43 bp):
TTCACCTCCAAAAACGCCCCTTCCTGGTTGGAAGGTCCTTATT
Found at i:8098 original size:40 final size:41
Alignment explanation
Indices: 8006--8105 Score: 157
Period size: 41 Copynumber: 2.5 Consensus size: 41
7996 TTCCTTCAAT
* * * *
8006 AATTCCTAGTTTGCCATTCCTTATCGGAAGGTGTTGTTTTA
1 AATTCCCAGTTTGCCCTTCCTCATAGGAAGGTGTTGTTTTA
8047 AATTCCCAGTTTGCCCTTCCTCATAGGAAGGTGTTG-TTTA
1 AATTCCCAGTTTGCCCTTCCTCATAGGAAGGTGTTGTTTTA
8087 AATTCCCAGTTTGCCCTTC
1 AATTCCCAGTTTGCCCTTC
8106 ACGGTTGGAA
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
40 23 0.42
41 32 0.58
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (41 bp):
AATTCCCAGTTTGCCCTTCCTCATAGGAAGGTGTTGTTTTA
Found at i:8164 original size:48 final size:48
Alignment explanation
Indices: 8088--8473 Score: 569
Period size: 48 Copynumber: 8.0 Consensus size: 48
8078 TGTTGTTTAA
* * * * **
8088 ATTCCCAG-TTTGCCCTTCACGGTTGGAAGGTGTCGTTTTCAATGCGTT-
1 ATTCCC-GTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCGAT-ATTTC
*
8136 ATTCCCGTTTTGCCCTTCCCGGTCGGAAGTTGTTGTTTTCGATATTTC
1 ATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCGATATTTC
*
8184 ATTCCCGTTTTGCCCTTCCCGGTAGGAAGGTGTTGTTTTCGATATTTC
1 ATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCGATATTTC
* *
8232 ATTCCTGTTTTGCCCTTCTCGGTCGGAAGGTGTTGTTTTCGATATTTC
1 ATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCGATATTTC
8280 ATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCGATATTTC
1 ATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCGATATTTC
8328 ATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCGATATTTC
1 ATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCGATATTTC
** * *
8376 ATTCCCGTTTTGCCCTTCCCAATCGGAAGGTGTTGTCTTCAATATTTC
1 ATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCGATATTTC
* * * * *
8424 ATTCCTGTTTTGTCCTTCCCGGTCGGAAGATGTCGTTTTCAATATTTC
1 ATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCGATATTTC
8472 AT
1 AT
8474 CCATGTCTTC
Statistics
Matches: 311, Mismatches: 25, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
47 3 0.01
48 308 0.99
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.42
Consensus pattern (48 bp):
ATTCCCGTTTTGCCCTTCCCGGTCGGAAGGTGTTGTTTTCGATATTTC
Found at i:9517 original size:12 final size:13
Alignment explanation
Indices: 9502--9561 Score: 90
Period size: 12 Copynumber: 4.8 Consensus size: 13
9492 CCAAGAAAAG
9502 AAAGGAAAAA-AA
1 AAAGGAAAAAGAA
9514 AAA-GAAAAAGAA
1 AAAGGAAAAAGAA
9526 AAA-GAAAAAGAA
1 AAAGGAAAAAGAA
9538 AAAGGAAAAAGGAA
1 AAAGGAAAAA-GAA
9552 AAAGGAAAAA
1 AAAGGAAAAA
9562 AATAAAAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
11 6 0.13
12 20 0.44
13 6 0.13
14 13 0.29
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGGAAAAAGAA
Found at i:9521 original size:6 final size:6
Alignment explanation
Indices: 9497--9561 Score: 80
Period size: 6 Copynumber: 10.7 Consensus size: 6
9487 CCAAGCCAAG
*
9497 AAAAG- AAAGGA AAAA-A AAAAGA AAAAGA AAAAGA AAAAGA AAAAGGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA-GA
9544 AAAAGGA AAAAGGA AAAA
1 AAAA-GA AAAA-GA AAAA
9562 AATAAAAATA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
5 9 0.16
6 26 0.47
7 20 0.36
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:9528 original size:7 final size:7
Alignment explanation
Indices: 9497--9562 Score: 57
Period size: 7 Copynumber: 9.6 Consensus size: 7
9487 CCAAGCCAAG
9497 AAAAGAA
1 AAAAGAA
*
9504 AGGAAAAAA
1 A--AAAGAA
9513 AAAAG-A
1 AAAAGAA
9519 AAAAG-A
1 AAAAGAA
9525 AAAAG-A
1 AAAAGAA
9531 AAAAGAA
1 AAAAGAA
*
9538 AAAGGAA
1 AAAAGAA
*
9545 AAAGGAA
1 AAAAGAA
*
9552 AAAGGAA
1 AAAAGAA
9559 AAAA
1 AAAA
9563 ATAAAAATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
6 18 0.35
7 28 0.54
9 6 0.12
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:9606 original size:12 final size:12
Alignment explanation
Indices: 9502--9606 Score: 60
Period size: 12 Copynumber: 8.8 Consensus size: 12
9492 CCAAGAAAAG
*
9502 AAAGGAAAAAAA
1 AAAGGAAAATAA
* *
9514 AAAGAAAAAGAA
1 AAAGGAAAATAA
* *
9526 AAAGAAAAAGAA
1 AAAGGAAAATAA
*
9538 AAAGGAAAAAGGAA
1 AAAGG-AAAA-TAA
9552 AAAGGAAAA-AA
1 AAAGGAAAATAA
*
9563 ATA--AAAATAA
1 AAAGGAAAATAA
9573 TAAA--AATAATAA
1 -AAAGGAA-AATAA
9585 ATAAGG-AAATAA
1 A-AAGGAAAATAA
9597 AAAGGAAAAT
1 AAAGGAAAAT
9607 TTGGAAAATA
Statistics
Matches: 79, Mismatches: 5, Indels: 18
0.77 0.05 0.18
Matches are distributed among these distances:
9 4 0.05
10 2 0.03
11 13 0.16
12 43 0.54
13 9 0.11
14 8 0.10
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAGGAAAATAA
Found at i:14799 original size:26 final size:25
Alignment explanation
Indices: 14762--14811 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
14752 AGAAAGGAAA
14762 TTTATTTTATTTT-TTATTTTTTTCG
1 TTTATTTTATTTTCTT-TTTTTTTCG
14787 TTTATTATTATTTTCTTTTTTTTTC
1 TTTATT-TTATTTTCTTTTTTTTTC
14812 ATAATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 15 0.65
27 2 0.09
ACGTcount: A:0.12, C:0.06, G:0.02, T:0.80
Consensus pattern (25 bp):
TTTATTTTATTTTCTTTTTTTTTCG
Found at i:21395 original size:3 final size:3
Alignment explanation
Indices: 21387--21417 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
21377 GGTGGTTGCC
*
21387 GTG GTG GTG ATG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
21418 CCGTAAGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.03, C:0.00, G:0.65, T:0.32
Consensus pattern (3 bp):
GTG
Found at i:25187 original size:119 final size:119
Alignment explanation
Indices: 24976--25216 Score: 473
Period size: 119 Copynumber: 2.0 Consensus size: 119
24966 TAAAAGTCCT
24976 AGGACAATAATTACATTTAGCCATTGGATACCCATCATTAGCTTTAAACCTAGTTACATGTTGTC
1 AGGACAATAATTACATTTAGCCATTGGATACCCATCATTAGCTTTAAACCTAGTTACATGTTGTC
25041 AAACCTTAGAAGTAGAAGCTCTTTTCCTAGTTTCATCATTTTCAACAACTACAG
66 AAACCTTAGAAGTAGAAGCTCTTTTCCTAGTTTCATCATTTTCAACAACTACAG
25095 AGGACAATAATTACATTTAGCCATTGGATACCCATCATTAGCTTTAAACCTAGTTACATGTTGTC
1 AGGACAATAATTACATTTAGCCATTGGATACCCATCATTAGCTTTAAACCTAGTTACATGTTGTC
*
25160 AAACTTTAGAAGTAGAAGCTCTTTTCCTAGTTTCATCATTTTCAACAACTACAG
66 AAACCTTAGAAGTAGAAGCTCTTTTCCTAGTTTCATCATTTTCAACAACTACAG
25214 AGG
1 AGG
25217 TTGGTTCAGT
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 121 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (119 bp):
AGGACAATAATTACATTTAGCCATTGGATACCCATCATTAGCTTTAAACCTAGTTACATGTTGTC
AAACCTTAGAAGTAGAAGCTCTTTTCCTAGTTTCATCATTTTCAACAACTACAG
Found at i:25571 original size:24 final size:25
Alignment explanation
Indices: 25543--25602 Score: 95
Period size: 24 Copynumber: 2.4 Consensus size: 25
25533 TAATTAACAG
*
25543 AATTTGAAGAAATTCAGAATAT-TC
1 AATTTGAAGAAATTCAGAATATAAC
*
25567 AATTTCAAGAAATTCAGAATATAAC
1 AATTTGAAGAAATTCAGAATATAAC
25592 AATTTGAAGAA
1 AATTTGAAGAA
25603 TATGAATGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
24 21 0.66
25 11 0.34
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (25 bp):
AATTTGAAGAAATTCAGAATATAAC
Found at i:26481 original size:2 final size:2
Alignment explanation
Indices: 26474--26534 Score: 58
Period size: 2 Copynumber: 31.5 Consensus size: 2
26464 TGGAGTATTT
* *
26474 TA TA TA TA T- TA TA TA TGA T- TA TA T- TCA GA TA TA TA TA AA TA
1 TA TA TA TA TA TA TA TA T-A TA TA TA TA T-A TA TA TA TA TA TA TA
26515 T- TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
26535 TAATCGGTCG
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
1 4 0.08
2 43 0.88
3 2 0.04
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:27454 original size:62 final size:62
Alignment explanation
Indices: 27357--27473 Score: 225
Period size: 62 Copynumber: 1.9 Consensus size: 62
27347 TGTCATGATT
*
27357 TCACACCTCCTTGTGTACCTCATTTCCCTTACAAATCGATTTTTGTTCTTTAAAGAACATAA
1 TCACACCTCCTTGTGCACCTCATTTCCCTTACAAATCGATTTTTGTTCTTTAAAGAACATAA
27419 TCACACCTCCTTGTGCACCTCATTTCCCTTACAAATCGATTTTTGTTCTTTAAAG
1 TCACACCTCCTTGTGCACCTCATTTCCCTTACAAATCGATTTTTGTTCTTTAAAG
27474 CACCTTATGT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.25, C:0.27, G:0.09, T:0.39
Consensus pattern (62 bp):
TCACACCTCCTTGTGCACCTCATTTCCCTTACAAATCGATTTTTGTTCTTTAAAGAACATAA
Found at i:30923 original size:16 final size:15
Alignment explanation
Indices: 30895--30936 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
30885 GATAATTCAA
*
30895 AAGTTTTTC-AAGGT
1 AAGTTTTTCAAAGGG
30909 AAGTATTTTCAAAGGG
1 AAGT-TTTTCAAAGGG
30925 AATGTTTTTCAA
1 AA-GTTTTTCAA
30937 TTAAGAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 4 0.17
15 5 0.21
16 13 0.54
17 2 0.08
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.40
Consensus pattern (15 bp):
AAGTTTTTCAAAGGG
Found at i:33687 original size:12 final size:12
Alignment explanation
Indices: 33670--33698 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33660 CTTGAAAACT
33670 AGAAAAGAAAAA
1 AGAAAAGAAAAA
33682 AGAAAAGAAAAA
1 AGAAAAGAAAAA
33694 A-AAAA
1 AGAAAA
33699 AACCCAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AGAAAAGAAAAA
Found at i:42162 original size:15 final size:15
Alignment explanation
Indices: 42144--42172 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42134 TGTCGTTATT
42144 AAAATATAATTTTTC
1 AAAATATAATTTTTC
42159 AAAATATAATTTTT
1 AAAATATAATTTTT
42173 ATTTAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAATATAATTTTTC
Found at i:44496 original size:159 final size:159
Alignment explanation
Indices: 44207--44530 Score: 630
Period size: 159 Copynumber: 2.0 Consensus size: 159
44197 ACCTGAAGCC
44207 ATGGAATGGCCTCCTTTATATAGGGGGCGACATGGGCCTTGAAATTAATGGGCTTGCCTTGTTGA
1 ATGGAATGGCCTCCTTTATATAGGGGGCGACATGGGCCTTGAAATTAATGGGCTTGCCTTGTTGA
44272 AGAAGGTAAATTCCTCCTCTTAGGTAGATGACAGCTTCCAAAAATGTGCAGTGAAGCTTCTTTCT
66 AGAAGGTAAATTCCTCCTCTTAGGTAGATGACAGCTTCCAAAAATGTGCAGTGAAGCTTCTTTCT
44337 CCTTCTGATTGCTTCCAACTACTGGGGAG
131 CCTTCTGATTGCTTCCAACTACTGGGGAG
44366 ATGGAATGGCCTCCTTTATATAGGGGGCGACATGGGCCTTGAAATTAATGGGCTTGCCTTGTTGA
1 ATGGAATGGCCTCCTTTATATAGGGGGCGACATGGGCCTTGAAATTAATGGGCTTGCCTTGTTGA
*
44431 AGAAGGTGAATTCCTCCTCTTAGGTAGATGACAGCTTCCAAAAATGTGCAGTGAAGCTTCTTTCT
66 AGAAGGTAAATTCCTCCTCTTAGGTAGATGACAGCTTCCAAAAATGTGCAGTGAAGCTTCTTTCT
44496 CCTTCTGATTGCTTCCAACTACTGGGGAG
131 CCTTCTGATTGCTTCCAACTACTGGGGAG
*
44525 AGGGAA
1 ATGGAA
44531 AAGTAGATGC
Statistics
Matches: 163, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 163 1.00
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (159 bp):
ATGGAATGGCCTCCTTTATATAGGGGGCGACATGGGCCTTGAAATTAATGGGCTTGCCTTGTTGA
AGAAGGTAAATTCCTCCTCTTAGGTAGATGACAGCTTCCAAAAATGTGCAGTGAAGCTTCTTTCT
CCTTCTGATTGCTTCCAACTACTGGGGAG
Found at i:53411 original size:10 final size:10
Alignment explanation
Indices: 53396--53445 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
53386 CCGTTTAATA
53396 ATTATATATT
1 ATTATATATT
53406 ATTATATATGT
1 ATTATATAT-T
53417 AATTATATA-T
1 -ATTATATATT
53427 ATCTA-ATATT
1 AT-TATATATT
*
53437 ATTTTATAT
1 ATTATATAT
53446 ATATAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
9 6 0.18
10 19 0.56
11 1 0.03
12 8 0.24
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTATATATT
Found at i:53421 original size:12 final size:11
Alignment explanation
Indices: 53394--53469 Score: 52
Period size: 12 Copynumber: 6.7 Consensus size: 11
53384 AACCGTTTAA
53394 TAATTATATAT
1 TAATTATATAT
53405 T-ATTATATAT
1 TAATTATATAT
53415 GTAATTATATA-
1 -TAATTATATAT
53426 T-ATCTA-ATAT
1 TAAT-TATATAT
*
53436 TATTTTATATAT
1 TA-ATTATATAT
*
53448 ATAAAATATATATT
1 -T-AATTATATA-T
53462 TAATTATA
1 TAATTATA
53470 AATATTACTA
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
9 5 0.10
10 13 0.25
11 4 0.08
12 19 0.37
13 8 0.16
14 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (11 bp):
TAATTATATAT
Found at i:53449 original size:14 final size:14
Alignment explanation
Indices: 53398--53449 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 14
53388 GTTTAATAAT
53398 TATATATTATTATA
1 TATATATTATTATA
*
53412 TATGTAATTATATATA
1 TATAT-ATTAT-TATA
* *
53428 TCTAATATTATTTTA
1 TAT-ATATTATTATA
53443 TATATAT
1 TATATAT
53450 AAAATATATA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
14 8 0.27
15 10 0.33
16 11 0.37
17 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (14 bp):
TATATATTATTATA
Found at i:53455 original size:21 final size:21
Alignment explanation
Indices: 53419--53476 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
53409 ATATATGTAA
*
53419 TTATATATATCTAATATTAT-T
1 TTATATATAT-AAATATTATAT
53440 TTATATATATAAA-ATATATAT
1 TTATATATATAAATAT-TATAT
53461 TTA-AT-TATAAATATTA
1 TTATATATATAAATATTA
53477 CTAAACGGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 10 0.30
20 9 0.27
21 14 0.42
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATATATATAAATATTATAT
Found at i:61773 original size:122 final size:130
Alignment explanation
Indices: 61528--61783 Score: 393
Period size: 122 Copynumber: 2.0 Consensus size: 130
61518 ATTTAAGAAA
61528 TATATTTAAAAATTTCTAATATATATATAAGTTTTTTAAATAAAATAGTAAAATGGTAAAAATAA
1 TATATTTAAAAATTTCTAATATATATATAAGTTTTTTAAATAAAATAGTAAAATGGT---AATAA
* *
61593 AATAGATATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTGTAA
63 AATACATATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAA
61658 AAG
128 AAG
*
61661 TATATTTAAAAA-TTCT-A-ATATATATAAGTTTTTTAATTAAAATAGTAAAATGGT-A-AAAAT
1 TATATTTAAAAATTTCTAATATATATATAAGTTTTTTAAATAAAATAGTAAAATGGTAATAAAAT
*
61721 -CATA-AA-GATATTAGATTTAATTAAATAAAATTAGAGTTTTTAGTTGAGTAAAACTATAAAAG
66 ACATATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAAAG
61783 T
1 T
61784 TTAAACAATG
Statistics
Matches: 119, Mismatches: 4, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
122 55 0.46
123 2 0.02
124 3 0.03
125 5 0.04
126 1 0.01
130 36 0.30
131 1 0.01
132 4 0.03
133 12 0.10
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (130 bp):
TATATTTAAAAATTTCTAATATATATATAAGTTTTTTAAATAAAATAGTAAAATGGTAATAAAAT
ACATATAAGGATATTAGATTTAATTAAATAAAAATAGAGTTTTTAGTTGAGTAAAACTATAAAAG
Found at i:66561 original size:1 final size:1
Alignment explanation
Indices: 66522--66547 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
66512 AACAGGACAG
66522 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
66548 GTAACGACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Done.