Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014399.1 Kokia drynarioides strain JFW-HI SEQ_129437, 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: 50290
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Warning! 23 characters in sequence are not A, C, G, or T
Found at i:3827 original size:61 final size:60
Alignment explanation
Indices: 3749--3998 Score: 262
Period size: 61 Copynumber: 4.2 Consensus size: 60
3739 TTTACCAAAT
* *
3749 AAAAAGGGGGCGTCGGCCATTGCATGGCCAACA-CAAAAAAAATTGAAATTTTTTTATCCG
1 AAAAA-GGGGTGTCGGCCATTGCATGGCCAACACCAAAAAAAATTGAAAATTTTTTATCCG
* *
3809 AGAACAAGGGGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGAAAATTTTTTATCTG
1 A-AA-AAGGGGTGTCGGCCATTGCATGGCCAACACCAAAAAAAATTGAAAATTTTTTATCCG
* * * *
3871 AAAAAGGGGGTGTCGACCA-TGCAATGGCCAACACC--CAAAAA-TG-CAATTTTTTTTCTC-
1 AAAAA-GGGGTGTCGGCCATTGC-ATGGCCAACACCAAAAAAAATTGAAAATTTTTTATC-CG
* ** * *
3928 AAAAAGAGGGTGTCAGCCATTATATGACCAACACCAAAAAAATTTGAAAATTTTTTATCCG
1 AAAAAG-GGGTGTCGGCCATTGCATGGCCAACACCAAAAAAAATTGAAAATTTTTTATCCG
3989 AGAAAAGGGG
1 A-AAAAGGGG
3999 GTTGTTGAAA
Statistics
Matches: 157, Mismatches: 19, Indels: 27
0.77 0.09 0.13
Matches are distributed among these distances:
56 1 0.01
57 36 0.23
58 3 0.02
59 8 0.05
60 9 0.06
61 68 0.43
62 32 0.20
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (60 bp):
AAAAAGGGGTGTCGGCCATTGCATGGCCAACACCAAAAAAAATTGAAAATTTTTTATCCG
Found at i:3842 original size:120 final size:115
Alignment explanation
Indices: 3698--3999 Score: 301
Period size: 118 Copynumber: 2.5 Consensus size: 115
3688 GAGGGAAGTT
*
3698 GGTGTCGGCCATTATATGGTCAACACCAAAAAATTT-AATTTTTTACCAAAT-AAAAAGGGGGCG
1 GGTGTCGGCCATTATATGGCCAACACCAAAAAATTTAAATTTTTTACC---TGAAAAAGGGGGCG
*
3761 TCGGCCATTGC-ATGGCCAACACAAAAAAAATTGAAATTTTTTTATC-CGAGAACAAG-G
63 TCGACCA-TGCAATGGCCAACAC-AAAAAAA-TGAAATTTTTTT-TCTC-A-AA-AAGAG
** * *
3818 GGTGTCGGCCATTGCATGGCCAACACCAAAAAAATTTGAAAATTTTTTATCTGAAAAAGGGGGTG
1 GGTGTCGGCCATTATATGGCCAACACC-AAAAAATTT--AAATTTTTTACCTGAAAAAGGGGGCG
** *
3883 TCGACCATGCAATGGCCAACACCCAAAAATGCAATTTTTTTTCTCAAAAAGAG
63 TCGACCATGCAATGGCCAACACAAAAAAATGAAATTTTTTTTCTCAAAAAGAG
* *
3936 GGTGTCAGCCATTATATGACCAACACCAAAAAAATTTGAAAATTTTTTATCC-GAGAAAAGGGGG
1 GGTGTCGGCCATTATATGGCCAACACC-AAAAAATTT--AAATTTTTTA-CCTGA-AAAAGGGGG
4000 TTGTTGAAAC
Statistics
Matches: 158, Mismatches: 14, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
117 3 0.02
118 50 0.32
119 13 0.08
120 36 0.23
121 18 0.11
122 28 0.18
124 10 0.06
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (115 bp):
GGTGTCGGCCATTATATGGCCAACACCAAAAAATTTAAATTTTTTACCTGAAAAAGGGGGCGTCG
ACCATGCAATGGCCAACACAAAAAAATGAAATTTTTTTTCTCAAAAAGAG
Found at i:3959 original size:57 final size:57
Alignment explanation
Indices: 3817--3968 Score: 139
Period size: 57 Copynumber: 2.6 Consensus size: 57
3807 CGAGAACAAG
* * * * *
3817 GGGTGTCGGCCATTGC-ATGGCCAACACCAAAAAAATTTGAAAATTTTTTATCTGAAAAAGG
1 GGGTGTCGACCA-TGCAATGACCAACACC-AAAAAA--TG-CAATTTTTTATCTCAAAAAGA
* * *
3878 GGGTGTCGACCATGCAATGGCCAACACCCAAAAATGCAATTTTTTTTCTCAAAAAGA
1 GGGTGTCGACCATGCAATGACCAACACCAAAAAATGCAATTTTTTATCTCAAAAAGA
*
3935 GGGTGTC-AGCCAT-TATATGACCAACACCAAAAAA
1 GGGTGTCGA-CCATGCA-ATGACCAACACCAAAAAA
3969 ATTTGAAAAT
Statistics
Matches: 79, Mismatches: 9, Indels: 10
0.81 0.09 0.10
Matches are distributed among these distances:
56 2 0.03
57 44 0.56
58 2 0.03
60 8 0.10
61 23 0.29
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (57 bp):
GGGTGTCGACCATGCAATGACCAACACCAAAAAATGCAATTTTTTATCTCAAAAAGA
Found at i:5132 original size:29 final size:29
Alignment explanation
Indices: 5068--5440 Score: 216
Period size: 29 Copynumber: 12.7 Consensus size: 29
5058 CTCGTGGGTG
* * * *
5068 AAATGGTAATTTTTGCAAGTTTCGGGATCAT
1 AAATGG-AATTTTTGGAAGTTTGGGGGT-AA
5099 AAATGGAATTTTTGGAAGTTTGGGGGTAA
1 AAATGGAATTTTTGGAAGTTTGGGGGTAA
* *
5128 AAATGTAATTTTTGGAAAATTT-GGGGTCAAA
1 AAATGGAATTTTTGG-AAGTTTGGGGGT--AA
* * *
5159 AAATGGAATTTTT-AAAGTTTGAGGGTTA
1 AAATGGAATTTTTGGAAGTTTGGGGGTAA
* *** * *
5187 AAATGTAATTTTCAAAAGTTTTAGGGTTAA
1 AAATGGAATTTTTGGAAG-TTTGGGGGTAA
*** * **
5217 AAATGGAATTTTCAAAAGTTCGATGGTAA
1 AAATGGAATTTTTGGAAGTTTGGGGGTAA
* * * * *
5246 AAATGTATTTTTTGAAAGTTTCGAGGT--
1 AAATGGAATTTTTGGAAGTTTGGGGGTAA
* * *
5273 CAATGAAATTTTTGGAAGTTCGGGGGTAA
1 AAATGGAATTTTTGGAAGTTTGGGGGTAA
* * ***
5302 AAATGTAA-TTTTGTAAGTTTCAAGGTCAA
1 AAATGGAATTTTTGGAAGTTTGGGGGT-AA
* *
5331 AAAAGGAATTTTTGGAAGTTTAGGGGTAA
1 AAATGGAATTTTTGGAAGTTTGGGGGTAA
* ** *
5360 AAATGTAATTTTTGGAAGTTTTAGGGTCA
1 AAATGGAATTTTTGGAAGTTTGGGGGTAA
* * *
5389 AAATGGAATTTTGGAGAAGTTTAGGGGTCA
1 AAATGGAATTTTTG-GAAGTTTGGGGGTAA
** *
5419 AAATATAATTTTTAGACAGTTT
1 AAATGGAATTTTTGGA-AGTTT
5441 AGGGACCTTC
Statistics
Matches: 266, Mismatches: 64, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
27 20 0.08
28 25 0.09
29 108 0.41
30 93 0.35
31 20 0.08
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (29 bp):
AAATGGAATTTTTGGAAGTTTGGGGGTAA
Found at i:5136 original size:59 final size:58
Alignment explanation
Indices: 5068--5440 Score: 335
Period size: 59 Copynumber: 6.4 Consensus size: 58
5058 CTCGTGGGTG
* *
5068 AAATGGTAATTTTTGCAAGTTTCGGGATCATAAATGGAATTTTTGGAAGTTTGGGGGTAA
1 AAAT-GTAATTTTTGAAAGTTTCGGG-TCAAAAATGGAATTTTTGGAAGTTTGGGGGTAA
* * * * *
5128 AAATGTAATTTTTGGAAAATTTGGGGTCAAAAAATGGAATTTTT-AAAGTTTGAGGGTTA
1 AAATGTAATTTTT-GAAAGTTTCGGGTC-AAAAATGGAATTTTTGGAAGTTTGGGGGTAA
** * * *** * **
5187 AAATGTAATTTTCAAAAGTTTTAGGGTTAAAAATGGAATTTTCAAAAGTTCGATGGTAA
1 AAATGTAATTTTTGAAAG-TTTCGGGTCAAAAATGGAATTTTTGGAAGTTTGGGGGTAA
* * *
5246 AAATGTATTTTTTGAAAGTTTCGAGGTC---AATGAAATTTTTGGAAGTTCGGGGGTAA
1 AAATGTAATTTTTGAAAGTTTCG-GGTCAAAAATGGAATTTTTGGAAGTTTGGGGGTAA
* * * *
5302 AAATGTAA-TTTTGTAAGTTTCAAGGTCAAAAAAGGAATTTTTGGAAGTTTAGGGGTAA
1 AAATGTAATTTTTGAAAGTTTC-GGGTCAAAAATGGAATTTTTGGAAGTTTGGGGGTAA
* * * * *
5360 AAATGTAATTTTTGGAAGTTTTAGGGTC-AAAATGGAATTTTGGAGAAGTTTAGGGGTCA
1 AAATGTAATTTTTGAAAG-TTTCGGGTCAAAAATGGAATTTTTG-GAAGTTTGGGGGTAA
* *
5419 AAATATAATTTTTAGACAGTTT
1 AAATGTAATTTTT-GAAAGTTT
5441 AGGGACCTTC
Statistics
Matches: 257, Mismatches: 43, Indels: 27
0.79 0.13 0.08
Matches are distributed among these distances:
55 16 0.06
56 29 0.11
58 66 0.26
59 113 0.44
60 33 0.13
ACGTcount: A:0.35, C:0.04, G:0.24, T:0.37
Consensus pattern (58 bp):
AAATGTAATTTTTGAAAGTTTCGGGTCAAAAATGGAATTTTTGGAAGTTTGGGGGTAA
Found at i:8046 original size:210 final size:206
Alignment explanation
Indices: 7710--8193 Score: 612
Period size: 210 Copynumber: 2.3 Consensus size: 206
7700 GCCTTTCTTT
* * * * * * * * *
7710 TCAGTATCTCATTAGGAAGACGACCGCATCACTTGGTTTGATCCACTTCTCTGTGTTTCATCAGG
1 TCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTTAATCCACTTCTCTATATCTCATCAGG
* * * * *
7775 AAGACGGATTTGGTTCACTTCTCCGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCCG
66 AAGACGAATTTGGTCCACTTCTCAGTATATCATCAGGAAGCTAACCACTTTATTACTTCGACCCG
* * *
7840 TTTCTCAATATCTCATCAAGAAGCTGGGGGTTCGAAGATTTGCTTACT-TTGAGCCT-TGTTTCA
131 CTTCTCAATATCTCATCAAGAAGCT-GGGGTTCGAAGATTTGCTCA-TATTGAGCCTGGGTTTCA
7903 TTGACATGGTCTACTTC
194 TT----TGGTCTACTTC
* * * *
7920 TCAGTATCTCATCAAGAGGATGACCGCATCGCTTGTTTTAATCTACTTCTCTATACCTCATCAGG
1 TCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTTAATCCACTTCTCTATATCTCATCAGG
* *
7985 AAGACGAATTTGGTCCACTTCTCAGTATATCATCAGGAAGCTAACCATTTTATTACTTCGACCTG
66 AAGACGAATTTGGTCCACTTCTCAGTATATCATCAGGAAGCTAACCACTTTATTACTTCGACCCG
* * * *
8050 CTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATTGAGCGTGGGTTTGATT
131 CTTCTCAATATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCATATTGAGCCTGGGTTTCATT
*
8115 TGGTCTTCTTC
196 TGGTCTACTTC
* * * *
8126 TCAGTATCTCATCAAGAAGATGACCGTATCGCTTGCTTCAATCCGCTTCTCTATATCTCATTAGG
1 TCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTTAATCCACTTCTCTATATCTCATCAGG
8191 AAG
66 AAG
8194 TTGGGGGTTC
Statistics
Matches: 237, Mismatches: 35, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
206 70 0.30
208 1 0.00
209 26 0.11
210 140 0.59
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (206 bp):
TCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTTAATCCACTTCTCTATATCTCATCAGG
AAGACGAATTTGGTCCACTTCTCAGTATATCATCAGGAAGCTAACCACTTTATTACTTCGACCCG
CTTCTCAATATCTCATCAAGAAGCTGGGGTTCGAAGATTTGCTCATATTGAGCCTGGGTTTCATT
TGGTCTACTTC
Found at i:8226 original size:122 final size:122
Alignment explanation
Indices: 8049--8316 Score: 423
Period size: 123 Copynumber: 2.2 Consensus size: 122
8039 ACTTCGACCT
* *
8049 GCTTCTC-AGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATTGAGCGTGGGTTTGA
1 GCTTCTCTA-TATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGA
*
8113 -TTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGTATCGCTTGCTTCAATCC
65 TTTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTCAATCC
* *
8170 GCTTCTCTATATCTCATTAGGAAGTTGGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGA
1 GCTTCTCTATATCTCATCAGGAAGCT-GGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGA
* * *
8235 TTTTGGTCTTTTTCTCAGTATCTCATCAAGAAGGTGACCGCATCGCTTGCTTCAATCT
65 TTTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTCAATCC
*
8293 GCTTCTCTGTATCTCATCAGGAAG
1 GCTTCTCTATATCTCATCAGGAAG
8317 ATGAATTTGG
Statistics
Matches: 134, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
121 22 0.16
122 37 0.28
123 75 0.56
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.35
Consensus pattern (122 bp):
GCTTCTCTATATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGAT
TTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTCAATCC
Found at i:8509 original size:206 final size:207
Alignment explanation
Indices: 8112--8630 Score: 756
Period size: 206 Copynumber: 2.5 Consensus size: 207
8102 CGTGGGTTTG
* * * *** *
8112 ATTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGTATCGCTTGCTTCAATCC-GCTTCT
1 ATTTGGTCTACTTCTCAGTATCTCATCAAGAAGCTGACCAT-TTTATTGCTTCGA-CCTGCTTCT
*
8176 CTA-TATCTCATTAGGAAGTTGGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTTG
64 -TAGTATCTCATCAGGAAGTT-GGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTTG
* * * *
8240 GTCTTTTTCTCAGTATCTCATCAAGAAGGTGACCGCATCGCTTGCTTCAATCTGCTTCTCTGTAT
127 GTATTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTCAATATGCTTCTCTGTAT
*
8305 CTCATCAGGAAGATGA
192 CTCATCAGGAAGACGA
* *
8321 ATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTGACCATTTTATTGCTTCGACCTGCTTCTTA
1 ATTTGGTCTACTTCTCAGTATCTCATCAAGAAGCTGACCATTTTATTGCTTCGACCTGCTTCTTA
* *
8386 GTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGCGTGGGTTTGA-TTTGGTAT
66 GTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTTGGTAT
* * * *
8450 TCTTCTCAGTATCTCATCAGGGAGATGACCGCATCGTTTGTTTCAATATGCTTCTCTGTATCTCA
131 TCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTCAATATGCTTCTCTGTATCTCA
*
8515 TCAGGAATACGA
196 TCAGGAAGACGA
* * *
8527 ATTTGGTCTACTTCTCAGTATCTCATCAAGAAGCTAACCATTTTATTACTTCGACCTGCTTCTCA
1 ATTTGGTCTACTTCTCAGTATCTCATCAAGAAGCTGACCATTTTATTGCTTCGACCTGCTTCTTA
8592 GTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCAC
66 GTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCAC
8631 TTTGAGCCTT
Statistics
Matches: 279, Mismatches: 29, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
206 172 0.62
207 41 0.15
208 30 0.11
209 36 0.13
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (207 bp):
ATTTGGTCTACTTCTCAGTATCTCATCAAGAAGCTGACCATTTTATTGCTTCGACCTGCTTCTTA
GTATCTCATCAGGAAGTTGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTTGGTAT
TCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTCAATATGCTTCTCTGTATCTCA
TCAGGAAGACGA
Found at i:8515 original size:329 final size:329
Alignment explanation
Indices: 7841--8521 Score: 1015
Period size: 329 Copynumber: 2.1 Consensus size: 329
7831 TTCGACCCGT
* * * * * * * * *
7841 TTCTCAATATCTCATCAAGAAGCTGGGGGTTCGAAGATTTGCTTACTTTGAGCCT-TGTTTCATT
1 TTCTCTATATCTCATCAGGAAGTTGGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATT
* ** * *
7905 GACATGGTCTACTTCTCAGTATCTCATCAAGAGGATGACCGCATCGCTTGTTTTAATCTACTTCT
66 ---TTGGTCTTTTTCTCAGTATCTCATCAAGAGGATGACCGCATCGCTTGCTTCAATCTACTTCT
7970 CTATACCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATATCATCAGGAAGCTAACCATTT
128 CTATACCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATATCATCAGGAAGCTAACCATTT
*
8035 TATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATTG
193 TATTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCG
* *
8100 AGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAAGAAGATGACCGTATCGCTTGCTTC
258 AGCGTGGGTTTGATTTGGTATTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTC
*
8165 AATCCGC
323 AATACGC
*
8172 TTCTCTATATCTCATTAGGAAGTTGGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATT
1 TTCTCTATATCTCATCAGGAAGTTGGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATT
*
8237 TTGGTCTTTTTCTCAGTATCTCATCAAGAAGG-TGACCGCATCGCTTGCTTCAATCTGCTTCTCT
66 TTGGTCTTTTTCTCAGTATCTCATCAAG-AGGATGACCGCATCGCTTGCTTCAATCTACTTCTCT
* * * * *
8301 GTATCTCATCAGGAAGATGAATTTGGTCCACTTCTCAGTATCTCATCAGGAAGCTGACCATTTTA
130 ATACCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATATCATCAGGAAGCTAACCATTTTA
* *
8366 TTGCTTCGACCTGCTTCTTAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAG
195 TTACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAG
* * * *
8431 CGTGGGTTTGATTTGGTATTCTTCTCAGTATCTCATCAGGGAGATGACCGCATCGTTTGTTTCAA
260 CGTGGGTTTGATTTGGTATTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTCAA
*
8496 TATGC
325 TACGC
*
8501 TTCTCTGTATCTCATCAGGAA
1 TTCTCTATATCTCATCAGGAA
8522 TACGAATTTG
Statistics
Matches: 314, Mismatches: 34, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
329 257 0.82
330 3 0.01
331 47 0.15
332 7 0.02
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.36
Consensus pattern (329 bp):
TTCTCTATATCTCATCAGGAAGTTGGGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATT
TTGGTCTTTTTCTCAGTATCTCATCAAGAGGATGACCGCATCGCTTGCTTCAATCTACTTCTCTA
TACCTCATCAGGAAGACGAATTTGGTCCACTTCTCAGTATATCATCAGGAAGCTAACCATTTTAT
TACTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCATATCGAGC
GTGGGTTTGATTTGGTATTCTTCTCAGTATCTCATCAAGAAGATGACCGCATCGCTTGCTTCAAT
ACGC
Found at i:20117 original size:124 final size:124
Alignment explanation
Indices: 19953--20201 Score: 462
Period size: 124 Copynumber: 2.0 Consensus size: 124
19943 AACGATATGA
* *
19953 ATCATGAATGCTAAGATGTTGAGCATGAGTAAACGACCTTAATTATGTTATATTGATTAATTGAT
1 ATCATGAATGCTAAAATGTTGAGCATGAGTAAACGACCTTAATTATGTTATATTGATGAATTGAT
20018 AAAGGAAGCTTTCGCACTAGGCGCCTTCTATTCACTCTCGCATTCTCTGTTGGGTCAAG
66 AAAGGAAGCTTTCGCACTAGGCGCCTTCTATTCACTCTCGCATTCTCTGTTGGGTCAAG
20077 ATCATGAATGCTAAAATGTTGAGCATGAGTAAACGACCTTAATTATGTTATATTGATGAATTGAT
1 ATCATGAATGCTAAAATGTTGAGCATGAGTAAACGACCTTAATTATGTTATATTGATGAATTGAT
* *
20142 AAAGGAAGCTTTCGCACTGGGCGCCTTCTATTCACTCTTGCATTCTCTGTTGGGTCAAG
66 AAAGGAAGCTTTCGCACTAGGCGCCTTCTATTCACTCTCGCATTCTCTGTTGGGTCAAG
20201 A
1 A
20202 ACGTATCACT
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
124 121 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (124 bp):
ATCATGAATGCTAAAATGTTGAGCATGAGTAAACGACCTTAATTATGTTATATTGATGAATTGAT
AAAGGAAGCTTTCGCACTAGGCGCCTTCTATTCACTCTCGCATTCTCTGTTGGGTCAAG
Found at i:20545 original size:36 final size:36
Alignment explanation
Indices: 20498--20573 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
20488 TCTTAGGAAT
* *
20498 AATGTAAGTCGTAATACCCTAAGGGTGGCATGATAC
1 AATGTAAGTCGTAATACCCTAAGGGTGGAATAATAC
20534 AATGTAAGTCGTAATACCCTAAGGGTGGAATAATAC
1 AATGTAAGTCGTAATACCCTAAGGGTGGAATAATAC
20570 AATG
1 AATG
20574 ATCTGATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (36 bp):
AATGTAAGTCGTAATACCCTAAGGGTGGAATAATAC
Found at i:26157 original size:58 final size:58
Alignment explanation
Indices: 25995--26162 Score: 198
Period size: 58 Copynumber: 2.9 Consensus size: 58
25985 TAGGTTATAT
* * * *
25995 ATTATAATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAACATTATTAAATTA
1 ATTATTATTTTTATTAAATT-ATATTTT-ATAATAATTATATT-AAAATATAATTAAATTA
* * * *
26055 TTTATTA-TTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATTA
1 ATTATTATTTTTATTAAATTATATTTTATAATAATTATATTAAAATATAATTAAATTA
*
26112 ATTATTATTTTTATTAAATTATATTTTATAATAATCT-TATTAAAATTTAAT
1 ATTATTATTTTTATTAAATTATATTTTATAATAAT-TATATTAAAATATAAT
26163 AACAATAATC
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
57 21 0.23
58 50 0.54
59 12 0.13
60 9 0.10
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.52
Consensus pattern (58 bp):
ATTATTATTTTTATTAAATTATATTTTATAATAATTATATTAAAATATAATTAAATTA
Found at i:26339 original size:16 final size:17
Alignment explanation
Indices: 26318--26357 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
26308 TGAATTACTG
26318 ATTACAGTC-CTATTCC
1 ATTACAGTCTCTATTCC
26334 ATTACAG-CTCTATTCC
1 ATTACAGTCTCTATTCC
26350 ATTACAGT
1 ATTACAGT
26358 GAACCAAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.05
16 21 0.95
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (17 bp):
ATTACAGTCTCTATTCC
Found at i:29223 original size:14 final size:14
Alignment explanation
Indices: 29204--29233 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29194 CGTTTGTTTA
29204 TCTGTAAAAACTTT
1 TCTGTAAAAACTTT
*
29218 TCTGTAAAAGCTTT
1 TCTGTAAAAACTTT
29232 TC
1 TC
29234 AGTCTTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.43
Consensus pattern (14 bp):
TCTGTAAAAACTTT
Found at i:29472 original size:6 final size:6
Alignment explanation
Indices: 29431--29474 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
29421 TTCTCATTCT
* * *
29431 CCTTCT CCTTGC CTTTCC CCTTCC CCTTCC CCTTCC CCTTCC CC
1 CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CCTTCC CC
29475 CTTCATTGCG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.61, G:0.02, T:0.36
Consensus pattern (6 bp):
CCTTCC
Found at i:30847 original size:30 final size:30
Alignment explanation
Indices: 30813--30892 Score: 124
Period size: 30 Copynumber: 2.7 Consensus size: 30
30803 CCTACCTTCT
* *
30813 TGTAAATGTAGTTCGTGCGACTGCAATCCG
1 TGTAAATGCAGCTCGTGCGACTGCAATCCG
*
30843 TGTAAATGCAGCTCGTGCGACTGTAATCCG
1 TGTAAATGCAGCTCGTGCGACTGCAATCCG
*
30873 TGTAAATACAGCTCGTGCGA
1 TGTAAATGCAGCTCGTGCGA
30893 TTGTAGTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (30 bp):
TGTAAATGCAGCTCGTGCGACTGCAATCCG
Found at i:38809 original size:42 final size:42
Alignment explanation
Indices: 38762--38847 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
38752 AAAGAAGGTG
*
38762 CGTCTATGCACGAACACTTGAATGTGTTTAAAGAAATTTTCT
1 CGTCTATGCACGAACACTTGAATGTGTTTAAAGAAATTGTCT
38804 CGTCTATGCACGAACACTTGAATGTGTTTAAAGAAATTGTCT
1 CGTCTATGCACGAACACTTGAATGTGTTTAAAGAAATTGTCT
38846 CG
1 CG
38848 GATTTGGAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (42 bp):
CGTCTATGCACGAACACTTGAATGTGTTTAAAGAAATTGTCT
Found at i:41139 original size:18 final size:18
Alignment explanation
Indices: 41116--41161 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
41106 AAATTCTTGT
41116 TAAAATAAAATACAGTGG
1 TAAAATAAAATACAGTGG
41134 TAAAATAAAATACAGTGG
1 TAAAATAAAATACAGTGG
41152 TAAAATAAAA
1 TAAAATAAAA
41162 AAAATAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.61, C:0.04, G:0.13, T:0.22
Consensus pattern (18 bp):
TAAAATAAAATACAGTGG
Found at i:43434 original size:58 final size:56
Alignment explanation
Indices: 43352--43776 Score: 232
Period size: 59 Copynumber: 7.3 Consensus size: 56
43342 CACCCGAGGC
* * *
43352 AAAATGGTAATTTTGGGC-TCTCGAGGGCAAAATGGTAATTTTGGGAAAATTTAGGGTTA
1 AAAATGG-AATTTTGGACAT-TCGAGGGTAAAATGGTAATTTT--GAAAATTTAGGGTCA
* * * * * *
43411 AAAATGGAATTTTAGACATTCGAGGGTAAAACGGTAATTTTTAGAAAAATCAAGATCA
1 AAAATGGAATTTTGGACATTCGAGGGTAAAATGGTAA-TTTT-GAAAATTTAGGGTCA
* * * *
43469 AAAATTGAATTTTCGGACA-TCTAGGGGTAAAATGGTAATTTTGAAAGTTTCGAGGTCA
1 AAAATGGAATTTT-GGACATTCGA-GGGTAAAATGGTAATTTTGAAAATTTAG-GGTCA
* * * ** * **
43527 AAAATGGAGTTTTTGGACATCCGAGGGTAAAATTGTAATTTTTGAAAGCTTCGGCGTTT
1 AAAATGGA-ATTTTGGACATTCGAGGGTAAAATGGTAA-TTTTGAAAATTTAGG-GTCA
* * * * * *
43586 AAAATAGAGTTTTTGGACATTCGGGGGTAAAATGGTACTTTTTGAAAGTTTTGAGGTCA
1 AAAATGGA-ATTTTGGACATTCGAGGGTAAAATGGTA-ATTTTGAAAATTTAG-GGTCA
* * * * * * *
43645 AAATTGGAATTTTTGAAAGTT-TAGGGGTAAAAAT-GTAATTTTGAAAGTTTTGGGGT-T
1 AAAATGGAATTTTGGACA-TTCGA-GGGT-AAAATGGTAATTTTGAAA-ATTTAGGGTCA
* * * * * * *
43702 AAAATGGAATTTTTGAAAGTTCAAGGGTAAAAAT-GTAATTTTTGGAAGTTTCAAGTTCA
1 AAAATGGAATTTTGGACA-TTCGAGGGT-AAAATGGTAA-TTTTGAAAATTT-AGGGTCA
43761 AAAATGGAATTTTGGA
1 AAAATGGAATTTTGGA
43777 AAGTTTGGGG
Statistics
Matches: 290, Mismatches: 57, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
57 42 0.14
58 111 0.38
59 131 0.45
60 6 0.02
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.34
Consensus pattern (56 bp):
AAAATGGAATTTTGGACATTCGAGGGTAAAATGGTAATTTTGAAAATTTAGGGTCA
Found at i:43541 original size:30 final size:29
Alignment explanation
Indices: 43497--43782 Score: 167
Period size: 30 Copynumber: 9.8 Consensus size: 29
43487 ATCTAGGGGT
43497 AAAATGGTAA-TTTTGAAAGTTTCGAGGTCA
1 AAAATGG-AATTTTTGAAAGTTTCGAGGT-A
* * *
43527 AAAATGGAGTTTTTGGACA--TCCGAGGGTA
1 AAAATGGAATTTTT-GAAAGTTTCGA-GGTA
* * * *
43556 AAATTGTAATTTTTGAAAGCTTCG-GCGTTT
1 AAAATGGAATTTTTGAAAGTTTCGAG-G-TA
* * * *
43586 AAAATAGAGTTTTTGGACA--TTCGGGGGT-
1 AAAATGGAATTTTT-GAAAGTTTC-GAGGTA
* *
43614 AAAATGGTACTTTTTGAAAGTTTTGAGGTCA
1 AAAATGG-AATTTTTGAAAGTTTCGAGGT-A
* * *
43645 AAATTGGAATTTTTGAAAGTTTAGGGGTA
1 AAAATGGAATTTTTGAAAGTTTCGAGGTA
* * * *
43674 AAAATGTAA-TTTTGAAAGTTTTGGGGTT
1 AAAATGGAATTTTTGAAAGTTTCGAGGTA
*
43702 AAAATGGAATTTTTGAAAG-TTCAAGGGTA
1 AAAATGGAATTTTTGAAAGTTTCGA-GGTA
* * * *
43731 AAAATGTAATTTTTGGAAGTTTCAAGTTCA
1 AAAATGGAATTTTTGAAAGTTTCGAGGT-A
*
43761 AAAATGGAATTTTGGAAAGTTT
1 AAAATGGAATTTTTGAAAGTTT
43783 GGGGGGTAAA
Statistics
Matches: 199, Mismatches: 38, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
28 40 0.20
29 71 0.36
30 75 0.38
31 13 0.07
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (29 bp):
AAAATGGAATTTTTGAAAGTTTCGAGGTA
Found at i:43781 original size:59 final size:58
Alignment explanation
Indices: 43410--43776 Score: 248
Period size: 59 Copynumber: 6.3 Consensus size: 58
43400 ATTTAGGGTT
* * ** ** * *
43410 AAAAATGGAATTTTAGACATTCGAGGGTAAAACGGTAATTTTTAGAAA-AATCAAGATC
1 AAAAATGGAATTTTGGACATTCAAGGGTAAAAATGTAATTTTT-GAAAGTTTCGAGTTC
* * *
43468 AAAAATTGAATTTTCGGACA-TCTAGGGGT-AAAATGGTAA-TTTTGAAAGTTTCGAGGTC
1 AAAAATGGAATTTT-GGACATTC-AAGGGTAAAAAT-GTAATTTTTGAAAGTTTCGAGTTC
* * * * * *
43526 AAAAATGGAGTTTTTGGACATCCGAGGGTAAAATTGTAATTTTTGAAAGCTTCGGCGTT-
1 AAAAATGGA-ATTTTGGACATTCAAGGGTAAAAATGTAATTTTTGAAAGTTTC-GAGTTC
* * * ** * * *
43585 TAAAATAGAGTTTTTGGACATTCGGGGGT-AAAATGGTACTTTTTGAAAGTTTTGAGGTC
1 AAAAATGGA-ATTTTGGACATTCAAGGGTAAAAAT-GTAATTTTTGAAAGTTTCGAGTTC
* * * * * * *
43644 AAAATTGGAATTTTTGAAAGTTTAGGGGTAAAAATGTAA-TTTTGAAAGTTTTGGGGTT-
1 AAAAATGGAATTTTGGACA-TTCAAGGGTAAAAATGTAATTTTTGAAAG-TTTCGAGTTC
* * * *
43702 -AAAATGGAATTTTTGAAAGTTCAAGGGTAAAAATGTAATTTTTGGAAGTTTCAAGTTC
1 AAAAATGGAATTTTGGACA-TTCAAGGGTAAAAATGTAATTTTTGAAAGTTTCGAGTTC
43760 AAAAATGGAATTTTGGA
1 AAAAATGGAATTTTGGA
43777 AAGTTTGGGG
Statistics
Matches: 243, Mismatches: 49, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
57 45 0.19
58 80 0.33
59 110 0.45
60 8 0.03
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (58 bp):
AAAAATGGAATTTTGGACATTCAAGGGTAAAAATGTAATTTTTGAAAGTTTCGAGTTC
Found at i:43794 original size:30 final size:29
Alignment explanation
Indices: 43609--43795 Score: 173
Period size: 29 Copynumber: 6.4 Consensus size: 29
43599 TGGACATTCG
* *
43609 GGGGT-AAAATGGTACTTTTTGAAAGTTTT
1 GGGGTAAAAATGG-AATTTTTGAAAGTTTA
* *
43638 GAGGTCAAAATTGGAATTTTTGAAAGTTTA
1 GGGGT-AAAAATGGAATTTTTGAAAGTTTA
* *
43668 GGGGTAAAAATGTAA-TTTTGAAAGTTTT
1 GGGGTAAAAATGGAATTTTTGAAAGTTTA
* *
43696 GGGGTTAAAATGGAATTTTTGAAAGTTCA
1 GGGGTAAAAATGGAATTTTTGAAAGTTTA
* * *
43725 AGGGTAAAAATGTAATTTTTGGAAGTTTCA
1 GGGGTAAAAATGGAATTTTTGAAAGTTT-A
* * * *
43755 -AGTTCAAAAATGGAATTTTGGAAAGTTTGG
1 GGGGT-AAAAATGGAATTTTTGAAAGTTT-A
43785 GGGGTAAAAAT
1 GGGGTAAAAAT
43796 ATAATTTCTA
Statistics
Matches: 126, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
28 25 0.20
29 48 0.38
30 45 0.36
31 8 0.06
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTTGAAAGTTTA
Found at i:43802 original size:30 final size:29
Alignment explanation
Indices: 43609--43817 Score: 147
Period size: 30 Copynumber: 7.1 Consensus size: 29
43599 TGGACATTCG
* * *
43609 GGGGT-AAAATGGTACTTTTTGAAAGTTTT
1 GGGGTAAAAAT-GTAATTTTGGAAAGTTTA
* * * *
43638 GAGGTCAAAATTGGAATTTTTGAAAGTTTA
1 GGGGT-AAAAATGTAATTTTGGAAAGTTTA
*
43668 GGGGTAAAAATGTAATTTT-GAAAGTTTT
1 GGGGTAAAAATGTAATTTTGGAAAGTTTA
* * * *
43696 GGGGTTAAAATGGAATTTTTGAAAGTTCA
1 GGGGTAAAAATGTAATTTTGGAAAGTTTA
*
43725 AGGGTAAAAATGTAATTTTTGG-AAGTTTCA
1 GGGGTAAAAATGTAA-TTTTGGAAAGTTT-A
* * * *
43755 -AGTTCAAAAATGGAATTTTGGAAAGTTTGG
1 GGGGT-AAAAATGTAATTTTGGAAAGTTT-A
* * *
43785 GGGGTAAAAATATAATTTCTAGACAGTTTA
1 GGGGTAAAAATGTAATTT-TGGAAAGTTTA
43815 GGG
1 GGG
43818 ACCTCTAGAG
Statistics
Matches: 141, Mismatches: 30, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
28 25 0.18
29 48 0.34
30 54 0.38
31 14 0.10
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (29 bp):
GGGGTAAAAATGTAATTTTGGAAAGTTTA
Found at i:49365 original size:13 final size:14
Alignment explanation
Indices: 49347--49375 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
49337 TTGGCTGAAA
49347 AATTTT-AAAAATG
1 AATTTTGAAAAATG
49360 AATTTTGAAAAATG
1 AATTTTGAAAAATG
49374 AA
1 AA
49376 AATGTGCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.34
Consensus pattern (14 bp):
AATTTTGAAAAATG
Found at i:49750 original size:6 final size:6
Alignment explanation
Indices: 49739--49785 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
49729 ATTTGTTTAA
* * *
49739 AAATTT AAATTT -ATTTT AATTTT AAATTT -AATTT AAGTTT AAATTT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT
49785 A
1 A
49786 TTTTCAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
5 9 0.26
6 26 0.74
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (6 bp):
AAATTT
Found at i:49761 original size:52 final size:52
Alignment explanation
Indices: 49705--49816 Score: 136
Period size: 52 Copynumber: 2.2 Consensus size: 52
49695 GTCCAAAATC
* * * *
49705 ATTTTAAATTTATTTTAGGATTAAATTT-GTTTAAAAATTTAAATTTATTTTA
1 ATTTTAAATTTAATTTAAGATTAAATTTAGTTTAAAAA-TTAAAATTATTATA
* * *
49757 ATTTTAAATTTAATTTAAGTTTAAATTTATTTTCAAAATTAAAATTATTATA
1 ATTTTAAATTTAATTTAAGATTAAATTTAGTTTAAAAATTAAAATTATTATA
*
49809 AATTTAAA
1 ATTTTAAA
49817 ATGAAGTTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 44 0.86
53 7 0.14
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (52 bp):
ATTTTAAATTTAATTTAAGATTAAATTTAGTTTAAAAATTAAAATTATTATA
Found at i:49764 original size:35 final size:34
Alignment explanation
Indices: 49707--49816 Score: 107
Period size: 35 Copynumber: 3.2 Consensus size: 34
49697 CCAAAATCAT
* *
49707 TTTAAATTTATTTTAGGATTAAATTT-GTTTAAAAA
1 TTTAAATTTATTTTAAGATTAAATTTAATTT--AAA
** *
49742 TTTAAATTTATTTTAATTTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAGATTAAATTTAATTTAAA
* *
49776 TTTAAATTTATTTTCAAAATTAAAATT-ATTATAAA
1 TTTAAATTTATTTT-AAGATTAAATTTAATT-TAAA
49811 TTTAAA
1 TTTAAA
49817 ATGAAGTTCA
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
34 19 0.30
35 41 0.65
36 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (34 bp):
TTTAAATTTATTTTAAGATTAAATTTAATTTAAA
Found at i:49779 original size:23 final size:23
Alignment explanation
Indices: 49739--49785 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
49729 ATTTGTTTAA
* *
49739 AAATTTAAATTTATTTTAATTTT
1 AAATTTAAATTTAGTTTAAATTT
49762 AAATTT-AATTTAAGTTTAAATTT
1 AAATTTAAATTT-AGTTTAAATTT
49785 A
1 A
49786 TTTTCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AAATTTAAATTTAGTTTAAATTT
Found at i:49818 original size:17 final size:17
Alignment explanation
Indices: 49707--49816 Score: 105
Period size: 17 Copynumber: 6.4 Consensus size: 17
49697 CCAAAATCAT
*
49707 TTTAAATTTATTTTAGGA
1 TTTAAATTTATTTTA-AA
* *
49725 -TTAAATTTGTTTAAAAA
1 TTTAAATTTATTT-TAAA
*
49742 TTTAAATTTATTTTAAT
1 TTTAAATTTATTTTAAA
* *
49759 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
49776 TTTAAATTTATTTTCAAA
1 TTTAAATTTATTTT-AAA
* * *
49794 ATTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
49811 TTTAAA
1 TTTAAA
49817 ATGAAGTTCA
Statistics
Matches: 75, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
17 50 0.67
18 25 0.33
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Done.