Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01000536.1 Kokia drynarioides strain JFW-HI SEQ_111431, 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: 2348
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Found at i:277 original size:62 final size:60
Alignment explanation
Indices: 176--344 Score: 194
Period size: 62 Copynumber: 2.7 Consensus size: 60
166 TCACTGAATT
* * * *
176 AAAAACTTATTTACATGAGAATTGAATCTCTCTTGGTTCTTGGACAAACTTTCGAACTTGTC
1 AAAAACTTATTTACGTGAGAATTG-TTTTCTCTT-GTTCTTGGACAAACTTCCGAACTTGTC
* * *
238 GAAAACTTGTTTACGTGAGAATTGCTTTTCTCTTAGTTCTTGGATAAACTTCCGAACTTGTC
1 AAAAACTTATTTACGTGAGAATTG-TTTTCTCTT-GTTCTTGGACAAACTTCCGAACTTGTC
* *
300 AAAAACTTATTTTATGTAAGAATTGTTTCTCTCTTGCTTCTTGGA
1 AAAAACTTA-TTTACGTGAGAATTGTTT-TCTCTTG-TTCTTGGA
345 TGAACATATG
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
62 64 0.70
63 27 0.30
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (60 bp):
AAAAACTTATTTACGTGAGAATTGTTTTCTCTTGTTCTTGGACAAACTTCCGAACTTGTC
Found at i:358 original size:63 final size:60
Alignment explanation
Indices: 176--365 Score: 172
Period size: 62 Copynumber: 3.0 Consensus size: 60
166 TCACTGAATT
* ** * *
176 AAAAACTTATTTACATG-AGAATTGAATCTCTCTTGGTTCTTGGACAAACTTTCGAACTTGTC
1 AAAAACTTATTT-TATGTAGAATTGTTTCTCTCTT-GTTCTTGGATAAACTAT-GAACTTGTC
* * *
238 GAAAACTT-GTTTACGTGAGAATTGCTTT-TCTCTTAGTTCTTGGATAAACT-TCCGAACTTGTC
1 AAAAACTTATTTTATGT-AGAATTG-TTTCTCTCTT-GTTCTTGGATAAACTAT--GAACTTGTC
*
300 AAAAACTTATTTTATGTAAGAATTGTTTCTCTCTTGCTTCTTGGATGAACATATGAACTTGTC
1 AAAAACTTATTTTATGT-AGAATTGTTTCTCTCTTG-TTCTTGGATAAAC-TATGAACTTGTC
363 AAA
1 AAA
366 CATTTACGAT
Statistics
Matches: 106, Mismatches: 13, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
60 2 0.02
61 3 0.03
62 55 0.52
63 44 0.42
64 1 0.01
65 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (60 bp):
AAAAACTTATTTTATGTAGAATTGTTTCTCTCTTGTTCTTGGATAAACTATGAACTTGTC
Found at i:975 original size:207 final size:209
Alignment explanation
Indices: 300--980 Score: 661
Period size: 215 Copynumber: 3.2 Consensus size: 209
290 CGAACTTGTC
* * * * * * *
300 AAAAACTTATTTTATGTAAGAATTGTTTCTCTCTTGCTTCTTGGATGAACATATGAACTTGTCAA
1 AAAAACTTA-TTTACGTGAGAATTG-TT-TCTC-T-C-TCTTGGACGAACTTCTGAACTTTTTAA
* * * *
365 ACATTTACGATTTCTTTTATAACTTCGGTTCCTGAAAGTATTCATGACGATCCATTCCTTCGAGC
60 ACTTTTACGAGTTCTTTTATAACTTCGGTACCT-AAAGTATTCA-GAAGATCCATTCCTTCGAGC
* * * *
430 TATTTTCCAAACATTCCTTGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG-A
123 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* *
494 AAAATATTTTGGTCTTTGAATT
188 AACATGTTTTGGTCTTTGAATT
* * * *
516 AAAAACTTATTTATGTGAGAACTGTTTCTCTCTCTTTGTTCTTAGACGAACTTCAGAACATTTTA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTC-TTG------GACGAACTTCTGAACTTTTTA
* * * * * *
581 AACTTTTACTAGTTGTTTTATAACTTAGATTACTTAAAGTATTC--AAG----A--CCTTCGAGT
59 AACTTTTACGAGTTCTTTTATAACTTCG-GTACCTAAAGTATTCAGAAGATCCATTCCTTCGAGC
*
638 AGTTTTTCGAA-ATTTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT
123 AATTTTTCGAACA-TTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT
* * *
702 AAACAGGATTTGGTCTTTCAATT
187 AAACATGTTTTGGTCTTTGAATT
*
725 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCTGAACTTTTTAAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTC-----TCTTGGACGAACTTCTGAACTTTTTAAA
* *
790 CTTTTACGAGTTCTTTTATAACATCGGTACCATAAAGTATTCAAGAAGATCCATTCCTTCAAG-A
61 CTTTTACGAGTTCTTTTATAACTTCGGTACC-TAAAGTATTC-AGAAGATCCATTCCTTCGAGCA
* ** ** * * *
854 ATTTTTTGAACATTCCATGCTCGTAAAATCGCATTGTATGGTCTAAAAAGTTTGTCATTTCGTAA
124 ATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
919 ACATGTTTTGGT-TTTGAATT
189 ACATGTTTTGGTCTTTGAATT
*
939 AAAAACTTATTTACGTAAGAATTG-TT-TCTCTCTTGGACGAAC
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTCTTGGACGAAC
981 ATCCAAACTT
Statistics
Matches: 384, Mismatches: 55, Indels: 61
0.77 0.11 0.12
Matches are distributed among these distances:
206 3 0.01
207 64 0.17
208 64 0.17
209 48 0.12
210 6 0.02
211 4 0.01
212 5 0.01
213 9 0.02
214 37 0.10
215 78 0.20
216 17 0.04
217 46 0.12
218 3 0.01
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (209 bp):
AAAAACTTATTTACGTGAGAATTGTTTCTCTCTCTTGGACGAACTTCTGAACTTTTTAAACTTTT
ACGAGTTCTTTTATAACTTCGGTACCTAAAGTATTCAGAAGATCCATTCCTTCGAGCAATTTTTC
GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACATGTT
TTGGTCTTTGAATT
Found at i:1036 original size:60 final size:61
Alignment explanation
Indices: 969--1122 Score: 166
Period size: 63 Copynumber: 2.5 Consensus size: 61
959 ATTGTTTCTC
** *
969 TCTTGGACGAACATCCAAACTTGTCAAACTTA-TTCACGTAAGTATTGTTTCTCTCTCAGT
1 TCTTGGACGAACATCTGAACTTGTCAAACTTATTTCACGTAAGAATTGTTTCTCTCTCAGT
* * * * * * **
1029 TCTTGGACGAACTTTTGAGCTTGTAAAAAACTTATTTTATGTAAGAATTGTTTCTCTCTTGGT
1 TCTTGGACGAACATCTGAACTTGT--CAAACTTATTTCACGTAAGAATTGTTTCTCTCTCAGT
* *
1092 TATTGGATGAACATCTGAACTTGTCAAACTT
1 TCTTGGACGAACATCTGAACTTGTCAAACTT
1123 TTACGATTTA
Statistics
Matches: 74, Mismatches: 17, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
60 19 0.26
61 6 0.08
62 7 0.09
63 42 0.57
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (61 bp):
TCTTGGACGAACATCTGAACTTGTCAAACTTATTTCACGTAAGAATTGTTTCTCTCTCAGT
Found at i:1443 original size:216 final size:215
Alignment explanation
Indices: 1054--1550 Score: 633
Period size: 216 Copynumber: 2.3 Consensus size: 215
1044 TGAGCTTGTA
* * *
1054 AAAAACTTATTTTATGTAAGAATTGTTTCTCTCTTGGTTATTGGATGAACATCTGAACTTGTCAA
1 AAAAACTTA-TTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGAAGAACATCTGAACTTGTCAA
* * *
1119 ACTTTTACGATTTATTTTATAACTTCGGTTCCCGAAAGTATTCAAGAGGATCCATTCCTTTGAGC
65 ACTTTTACGATTTATTTTATAACTTCGATTCCCGAAAGTATTCAAGACGATCCATTCCTTCGAGC
*** * * ** *
1184 AATTTTTTGACCATCCCATGCTCTGGAAATCGCATAATTTGGTCTAAATAGTTTTTCTTTTTGTA
130 AATTTTCCAAACATCCCATGCTCGGGAAATCGCATAATTTGGTCTAAATAGTTTGACATTTTG-A
*
1249 AACAA-GTTTTGGTCGCTGAATT
194 AA-AATATTTTGGTCGCTGAATT
* *
1271 AAAAACTTATTTACGTAAGAATTGTTTGTCTCTTGGTTCTTGGACGAACATCTGAACTTGTCAAA
1 AAAAACTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGAAGAACATCTGAACTTGTCAAA
* *
1336 CTTTTACGA-TTACTTTTATAACTTCGATTCCTGAAAGTATTCATGACGATCCATTCCTTCGAG-
66 CTTTTACGATTTA-TTTTATAACTTCGATTCCCGAAAGTATTCAAGACGATCCATTCCTTCGAGC
* *
1399 ATATTTTCCAAACAT-TCATTGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGACATTTTG
130 A-ATTTTCCAAACATCCCA-TGCTCGGGAAATCGCATAATTTGGTCTAAATAGTTTGACATTTTG
**
1463 AAAAATATTTTGGTCTTTGAATT
193 AAAAATATTTTGGTCGCTGAATT
** * * * * * *
1486 AAAAACAAATTTACGTGAGAACTATTTCTCTCTTGGTTCTTGGAAGAACTTCCGAACTTATCAAA
1 AAAAACTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGAAGAACATCTGAACTTGTCAAA
1551 AACTTATTAA
Statistics
Matches: 244, Mismatches: 32, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
214 2 0.01
215 78 0.32
216 155 0.64
217 9 0.04
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (215 bp):
AAAAACTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGAAGAACATCTGAACTTGTCAAA
CTTTTACGATTTATTTTATAACTTCGATTCCCGAAAGTATTCAAGACGATCCATTCCTTCGAGCA
ATTTTCCAAACATCCCATGCTCGGGAAATCGCATAATTTGGTCTAAATAGTTTGACATTTTGAAA
AATATTTTGGTCGCTGAATT
Found at i:1851 original size:62 final size:62
Alignment explanation
Indices: 1767--1952 Score: 266
Period size: 62 Copynumber: 3.0 Consensus size: 62
1757 GTTAATTAAT
* *
1767 AACTTAGTTACGTAAGACTTGTTTCTCTCTTGGTT-TTGGGACGAACTTCCAAACTTATCAAA
1 AACTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTT-GGACGAACTTCCAAACTTATCAAA
* * * *
1829 AACTTATTTACGTGAGAATTGTTTCTCTCTCGGTTCTTGGACGAACTTCCAAACTTGTTAAA
1 AACTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTATCAAA
* * * *
1891 AACTTATTTACGTTAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCCGAACTTTTCAAA
1 AACTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTATCAAA
1953 CTTTTACGAT
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
62 109 0.98
63 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (62 bp):
AACTTATTTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCAAACTTATCAAA
Found at i:1886 original size:278 final size:277
Alignment explanation
Indices: 1271--1886 Score: 805
Period size: 277 Copynumber: 2.2 Consensus size: 277
1261 TCGCTGAATT
* * * *
1271 AAAAACTTATTTACGTAAGAATTGTTTGTCTCTTGGTTCTTGGACGAACATCTGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
* * * *
1336 CTTTTACGATTACTTTTATAACTTCGATTCCTGAAAGTATTCATGACGATCCATTCCTTCGAGAT
66 CTTTCACGATTACTTTTATAACTTAGATTCCTGAAAGTATACAAGACGATCCATTCCTTCGAGAT
* * * * * *
1401 ATTTTCCAAACATTCATTGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGACATTTTGAAA
131 AATTTCCAAACATTCATTGCTCGAGAAATCACACCATTTGGTCAAAATAGATTGACATTTTGAAA
* * *
1466 AATATTTTGGTCTTTGAATTAAAAACAAATTTACGTGAGAACTATTTCTCTCTTGGTTCTTGGAA
196 AATATTTTGGACTTTGAATTAAAAACAAAGTTACGTAAGAACTATTTCTCTCTTGGTTCTTGGAA
*
1531 GAACTTCCGAACTTATC
261 GAACTTCCAAACTTATC
* * *
1548 AAAAACTTATTAACGTGAGAATTGTTTCTCTTTTGGTTCTTGGACGAACTTTCGAACTTGTCAAA
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
* * * *
1613 CTTTCACTAGTT-CTTTTATAACTTAGGTTCCTTAAAGTATACAAGACGATCCATTCCTTTGAGC
66 CTTTCACGA-TTACTTTTATAACTTAGATTCCTGAAAGTATACAAGACGATCCATTCCTTCGAG-
*
1677 A-AATTTCCAAACATTCCA-TGCTCGAGAAATCACACCATTTGGTCAAAATAGATTGTCATTTTG
129 ATAATTTCCAAACATT-CATTGCTCGAGAAATCACACCATTTGGTCAAAATAGATTGACATTTTG
* * ** *
1740 TAAACAA-GTTTTGGACTGTT-AATTAATAACTTAGTTACGTAAG-ACTTGTTTCTCTCTTGGTT
193 -AAA-AATATTTTGGACT-TTGAATTAAAAACAAAGTTACGTAAGAAC-TATTTCTCTCTTGGTT
*
1802 -TTGGGACGAACTTCCAAACTTATC
254 CTT-GGAAGAACTTCCAAACTTATC
* *
1826 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTCGGTTCTTGGACGAACTTCCAAACTTGT
1 AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGT
1887 TAAAAACTTA
Statistics
Matches: 294, Mismatches: 37, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
277 166 0.56
278 124 0.42
279 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (277 bp):
AAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAA
CTTTCACGATTACTTTTATAACTTAGATTCCTGAAAGTATACAAGACGATCCATTCCTTCGAGAT
AATTTCCAAACATTCATTGCTCGAGAAATCACACCATTTGGTCAAAATAGATTGACATTTTGAAA
AATATTTTGGACTTTGAATTAAAAACAAAGTTACGTAAGAACTATTTCTCTCTTGGTTCTTGGAA
GAACTTCCAAACTTATC
Found at i:2135 original size:340 final size:339
Alignment explanation
Indices: 1494--2348 Score: 1081
Period size: 340 Copynumber: 2.5 Consensus size: 339
1484 TTAAAAACAA
* * * *
1494 ATTTACGTGAGAACTATTTCTCTCTTGGTTCTTGGAAGAACTTCCGAACTTATCAAAAACTTATT
1 ATTTACGTGAGAATTGTTTCTCTC-TGGTTCTTGGACGAACTTCCGAACTTGTCAAAAACTTATT
* * * * * * * *
1559 AACGTGAGAATTGTTTCTCTTTTGGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTCACTAGT
65 TACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCCGAACTTGTCAAACTTTTACGATT
* * *
1624 TCTTTTATAAC-TTAGGTTCCTTAAAGTATACAAGACGATCCATTCCTTTGAGCAAATTTCCAAA
130 TCTTTTATAACTTTA-GTTCCTGAAAGTATTCAAGACGATCCATTCCTTTAAGCAAATTTCCAAA
*
1688 CATTCCATGCTCGAGAAATCACACCATTTGGTCAAAATAGATTGTCATTTTGTAAACAAGTTTTG
194 CATTCCATGCTCGAGAAATCACACAATTTGGTCAAAATAGATTGTCATTTTGTAAACAAGTTTTG
* * * *
1753 GACTGTTAATTAATAACTTAGTTACGTAAGACTTGTTTCTCTCTTGGTT-TTGGGACGAACTTCC
259 GACTGTGAATTAAAAACTTAGTTACGTAAGAATTGGTTCTCTCTTGGTTGTT-GGACGAACTTCC
1817 AAACTTATCAAAAACTT
323 AAACTTATCAAAAACTT
* *
1834 ATTTACGTGAGAATTGTTTCTCTCTCGGTTCTTGGACGAACTTCCAAACTTGTTAAAAACTTATT
1 ATTTACGTGAGAATTGTTTCTCTCT-GGTTCTTGGACGAACTTCCGAACTTGTCAAAAACTTATT
* *
1899 TACGTTAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCCGAACTTTTCAAACTTTTACGATT
65 TACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCCGAACTTGTCAAACTTTTACGATT
* * * ***
1964 TTTTTTATAACTTTAGTTCCTGAAAGTATTCAAGAGGATCCATTCCTTTAAGCAATTTTTTGAAC
130 TCTTTTATAACTTTAGTTCCTGAAAGTATTCAAGACGATCCATTCCTTTAAGCAAATTTCCAAAC
* * * * *
2029 ATTCCATGCTCGGGAAATCGCATAATTTGGTCTAAATAGTTTGTC-TTTCTGTAAACAAGTTTTG
195 ATTCCATGCTCGAGAAATCACACAATTTGGTCAAAATAGATTGTCATTT-TGTAAACAAGTTTTG
* * * * * *
2093 GTC-GATGAATTAAAAATTTATTTACGTGAA-AATTGGTTCTCTCTTGGTTGTTGGCCGAAGTTT
259 GACTG-TGAATTAAAAACTTAGTTACGT-AAGAATTGGTTCTCTCTTGGTTGTTGGACGAACTTC
* *
2156 CGAACTTGTCAAAAACTT
322 CAAACTTATCAAAAACTT
* * **
2174 GTTTACGTGAGAATTGCTTCTCTCATTATTCTTGGACGAACTTCCGAACTTGTCAAAAACTTATT
1 ATTTACGTGAGAATTGTTTCTCTC-TGGTTCTTGGACGAACTTCCGAACTTGTCAAAAACTTA-T
** * * ** *
2239 TTATATAACAATGGTTTCTCTCTTAATTCTTGGACGAACATCTGAACTTGTCAAACTTTTACGAT
64 TTACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCCGAACTTGTCAAACTTTTACGAT
** *
2304 TTCTTTTATAACTTCGGTTCCTGAAAGTATTCATGACGATCCATT
129 TTCTTTTATAACTTTAGTTCCTGAAAGTATTCAAGACGATCCATT
Statistics
Matches: 445, Mismatches: 62, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
339 5 0.01
340 335 0.75
341 105 0.24
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (339 bp):
ATTTACGTGAGAATTGTTTCTCTCTGGTTCTTGGACGAACTTCCGAACTTGTCAAAAACTTATTT
ACGTAAGAATTGTTTCTCTCTTGGTTCTTGGACGAACATCCGAACTTGTCAAACTTTTACGATTT
CTTTTATAACTTTAGTTCCTGAAAGTATTCAAGACGATCCATTCCTTTAAGCAAATTTCCAAACA
TTCCATGCTCGAGAAATCACACAATTTGGTCAAAATAGATTGTCATTTTGTAAACAAGTTTTGGA
CTGTGAATTAAAAACTTAGTTACGTAAGAATTGGTTCTCTCTTGGTTGTTGGACGAACTTCCAAA
CTTATCAAAAACTT
Found at i:2189 original size:62 final size:62
Alignment explanation
Indices: 2104--2293 Score: 188
Period size: 62 Copynumber: 3.0 Consensus size: 62
2094 TCGATGAATT
* * * * * * *
2104 AAAAATTTATTTACGTGAAAATTGGTTCTCTC-TTGGTTGTTGGCCGAAGTTTCGAACTTGTC
1 AAAAACTTATTTACGTGAAAATTGCTTCTCTCATT-ATTCTTGGACGAACTTCCGAACTTGTC
* *
2166 AAAAACTTGTTTACGTGAGAATTGCTTCTCTCATTATTCTTGGACGAACTTCCGAACTTGTC
1 AAAAACTTATTTACGTGAAAATTGCTTCTCTCATTATTCTTGGACGAACTTCCGAACTTGTC
** * * * *
2228 AAAAACTTATTTTATAT-AACAATGGTTTCTCTC-TTAATTCTTGGACGAACATCTGAACTTGTC
1 AAAAACTTA-TTTACGTGAA-AATTGCTTCTCTCATT-ATTCTTGGACGAACTTCCGAACTTGTC
2291 AAA
1 AAA
2294 CTTTTACGAT
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
62 61 0.57
63 46 0.43
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (62 bp):
AAAAACTTATTTACGTGAAAATTGCTTCTCTCATTATTCTTGGACGAACTTCCGAACTTGTC
Found at i:2274 original size:63 final size:61
Alignment explanation
Indices: 2129--2293 Score: 168
Period size: 63 Copynumber: 2.6 Consensus size: 61
2119 TGAAAATTGG
* * * * * * * * *
2129 TTCTCTCTTGGTTGTTGGCCGAAGTTTCGAACTTGTCAAAAACTTGTTTACGTGAGAATTGC
1 TTCTCTCTT-ATTCTTGGACGAACTTCCGAACTTGTCAAAAACTTGTTTACATAACAATGGC
* * *
2191 TTCTCTCATTATTCTTGGACGAACTTCCGAACTTGTCAAAAACTTATTTTATATAACAATGGT
1 TTCTCTC-TTATTCTTGGACGAACTTCCGAACTTGTCAAAAACTT-GTTTACATAACAATGGC
* *
2254 TTCTCTCTTAATTCTTGGACGAACATCTGAACTTGTCAAA
1 TTCTCTCTT-ATTCTTGGACGAACTTCCGAACTTGTCAAA
2294 CTTTTACGAT
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
62 39 0.45
63 47 0.55
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (61 bp):
TTCTCTCTTATTCTTGGACGAACTTCCGAACTTGTCAAAAACTTGTTTACATAACAATGGC
Done.