Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01006591.1 Kokia drynarioides strain JFW-HI SEQ_121179, 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: 2995
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Found at i:240 original size:90 final size:91
Alignment explanation
Indices: 121--322 Score: 279
Period size: 90 Copynumber: 2.2 Consensus size: 91
111 TACCATGAAG
* *
121 ATTTGAAGGGAAAGGTTGAGGCTACAATGGCGAACACGGTACCATTAAG-ATGAAGGGAAAGGTT
1 ATTTGAAGGGAAAGGTTGAGGCTACAATGGCGAACACAGTACCATGAAGAATGAAGGGAAAGGTT
* *
185 GAGGCCGTAACGACGAATCC-GGTACC
66 GAGGCCGCAACGACGAA-CCTAGTACC
* *
211 ATTTGAAGGGAAAGGTTGAGG-TCGCAATGGCGAACATAGTACCATGAAGATATGAAGGGAAAGG
1 ATTTGAAGGGAAAGGTTGAGGCT-ACAATGGCGAACACAGTACCATGAAGA-ATGAAGGGAAAGG
*
275 TTGAGGTCGCAACGACGAACCTAGTACC
64 TTGAGGCCGCAACGACGAACCTAGTACC
303 A--TGAAGGGAAAGGTTGAGGC
1 ATTTGAAGGGAAAGGTTGAGGC
323 CGTAACGACA
Statistics
Matches: 100, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
89 1 0.01
90 61 0.61
91 2 0.02
92 36 0.36
ACGTcount: A:0.34, C:0.15, G:0.33, T:0.18
Consensus pattern (91 bp):
ATTTGAAGGGAAAGGTTGAGGCTACAATGGCGAACACAGTACCATGAAGAATGAAGGGAAAGGTT
GAGGCCGCAACGACGAACCTAGTACC
Found at i:286 original size:49 final size:49
Alignment explanation
Indices: 59--308 Score: 232
Period size: 49 Copynumber: 5.3 Consensus size: 49
49 ACGACGAATT
* * * ** *
59 CAGTACCATGAAGATATGACGAGAAAGGTTGAGGCCACAATGGAAAACC
1 CAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAATGGCGAACA
* **
108 CAGTACCATGAAGATTTGAAGGGAAAGGTTGAGGCTACAATGGCGAACA
1 CAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAATGGCGAACA
* * * * *
157 CGGTACCATTAAG--ATGAAGGGAAAGGTTGAGGCCGTAACGACGAATC-
1 CAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAATGGCGAA-CA
* *
204 CGGTACCAT-----T-TGAAGGGAAAGGTTGAGGTCGCAATGGCGAACA
1 CAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAATGGCGAACA
* * * *
247 TAGTACCATGAAGATATGAAGGGAAAGGTTGAGGTCGCAACGACGAAC-
1 CAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAATGGCGAACA
295 CTAGTACCATGAAG
1 C-AGTACCATGAAG
309 GGAAAGGTTG
Statistics
Matches: 167, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
42 1 0.01
43 34 0.20
47 35 0.21
48 2 0.01
49 95 0.57
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.17
Consensus pattern (49 bp):
CAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCCGCAATGGCGAACA
Found at i:294 original size:139 final size:135
Alignment explanation
Indices: 81--442 Score: 338
Period size: 140 Copynumber: 2.6 Consensus size: 135
71 GATATGACGA
* * ** * *
81 GAAAGGTTGAGGCCACAATGGAAAACCCAGTACCATGAAGATTTGAAGGGAAAGGTTGAGGCTAC
1 GAAAGGTTGAGGTCGCAATGGCGAACCTAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCTAC
* * * * *
146 AATGGCGAACAC-GGTACCATTAAGATGAAGGGAAAGGTTGAGGCCGTAACGACGAATCCGGTAC
66 AACGACGAAC-CTAGTACC------ATGAAGGGAAAGGTTGAGGCCGTAACGACAAATCCAGTAC
210 CATT-TG-AA-GG
124 C-TTATGTAATGG
* *
220 GAAAGGTTGAGGTCGCAATGGCGAACATAGTACCATGAAGATATGAAGGGAAAGGTTGAGG-TCG
1 GAAAGGTTGAGGTCGCAATGGCGAACCTAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCT-A
**
284 CAACGACGAACCTAGTACCATGAAGGGAAAGGTTGAGGCCGTAACGACAAATTTAGTACCTTAAA
65 CAACGACGAACCTAGTACCATGAAGGGAAAGGTTGAGGCCGTAACGACAAATCCAGTACCTT---
349 AGATGTAATGG
127 --ATGTAATGG
* * * * * * * *
360 GAAAGGTTGAGGTTGTAACGGCGAACCTGGTACCATGAAGATGTAAAGGGAAAGGTTGAGGCCAT
1 GAAAGGTTGAGGTCGCAATGGCGAACCTAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCTAC
* *
425 AACGGCGAACCTGGTACC
66 AACGACGAACCTAGTACC
443 TTAGAAGATG
Statistics
Matches: 185, Mismatches: 27, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
132 2 0.01
133 37 0.20
138 4 0.02
139 70 0.38
140 72 0.39
ACGTcount: A:0.35, C:0.16, G:0.31, T:0.18
Consensus pattern (135 bp):
GAAAGGTTGAGGTCGCAATGGCGAACCTAGTACCATGAAGATATGAAGGGAAAGGTTGAGGCTAC
AACGACGAACCTAGTACCATGAAGGGAAAGGTTGAGGCCGTAACGACAAATCCAGTACCTTATGT
AATGG
Found at i:341 original size:41 final size:41
Alignment explanation
Indices: 262--343 Score: 119
Period size: 41 Copynumber: 2.0 Consensus size: 41
252 CCATGAAGAT
* *
262 ATGAAGGGAAAGGTTGAGGTCGCAACGACGAACCTAGTACC
1 ATGAAGGGAAAGGTTGAGGCCGCAACGACAAACCTAGTACC
* **
303 ATGAAGGGAAAGGTTGAGGCCGTAACGACAAATTTAGTACC
1 ATGAAGGGAAAGGTTGAGGCCGCAACGACAAACCTAGTACC
344 TTAAAAGATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (41 bp):
ATGAAGGGAAAGGTTGAGGCCGCAACGACAAACCTAGTACC
Found at i:385 original size:91 final size:89
Alignment explanation
Indices: 124--399 Score: 277
Period size: 90 Copynumber: 3.1 Consensus size: 89
114 CATGAAGATT
** * * * ** *
124 TGAAGGGAAAGGTTGAGGCTACAATGGCGAACACGGTACCATTAAGATG-AAGGGAAAGGTTGAG
1 TGAAGGGAAAGGTTGAGGCCGCAACGACAAACATAGTACCATAAAGATGTAAGGGAAAGGTTGAG
*
188 GCCGTAACGACGAATCC-GGTACCA
66 GTCGTAACGACGAA-CCTGGTACCA
* * * * * *
212 TTTGAAGGGAAAGGTTGAGGTCGCAATGGCGAACATAGTACCATGAAGATATGAAGGGAAAGGTT
1 --TGAAGGGAAAGGTTGAGGCCGCAACGACAAACATAGTACCATAAAGATGT-AAGGGAAAGGTT
* *
277 GAGGTCGCAACGACGAACCTAGTACCA
63 GAGGTCGTAACGACGAACCTGGTACCA
* ** *
304 TGAAGGGAAAGGTTGAGGCCGTAACGACAAATTTAGTACCTTAAAAGATGTAATGGGAAAGGTTG
1 TGAAGGGAAAGGTTGAGGCCGCAACGACAAACATAGTACCAT-AAAGATGTAA-GGGAAAGGTTG
* *
369 AGGTTGTAACGGCGAACCTGGTACCA
64 AGGTCGTAACGACGAACCTGGTACCA
395 TGAAG
1 TGAAG
400 ATGTAAAGGG
Statistics
Matches: 157, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
90 78 0.50
91 46 0.29
92 33 0.21
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.19
Consensus pattern (89 bp):
TGAAGGGAAAGGTTGAGGCCGCAACGACAAACATAGTACCATAAAGATGTAAGGGAAAGGTTGAG
GTCGTAACGACGAACCTGGTACCA
Found at i:393 original size:50 final size:50
Alignment explanation
Indices: 308--478 Score: 202
Period size: 50 Copynumber: 3.4 Consensus size: 50
298 GTACCATGAA
* * * ** * *
308 GGGAAAGGTTGAGGCCGTAACGACAAATTTAGTACCTTAAAAGATGTAAT
1 GGGAAAGGTTGAGGCCATAACGGCGAACCTGGTACCTTAGAAGATGTAAT
*** * *
358 GGGAAAGGTTGAGGTTGTAACGGCGAACCTGGTACCAT-GAAGATGTAAA
1 GGGAAAGGTTGAGGCCATAACGGCGAACCTGGTACCTTAGAAGATGTAAT
*
407 GGGAAAGGTTGAGGCCATAACGGCGAACCTGGTACCTTAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCATAACGGCGAACCTGGTACCTTAGAAGATGTAAT
457 GGG-AAGGATTGAGGCCATAACG
1 GGGAAAGG-TTGAGGCCATAACG
479 ATGAATCCAA
Statistics
Matches: 103, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 47 0.46
50 56 0.54
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (50 bp):
GGGAAAGGTTGAGGCCATAACGGCGAACCTGGTACCTTAGAAGATGTAAT
Found at i:493 original size:99 final size:99
Alignment explanation
Indices: 306--548 Score: 258
Period size: 99 Copynumber: 2.5 Consensus size: 99
296 TAGTACCATG
* *
306 AAGGGAAAGGTTGAGGCCGTAACGACAAATTTAGTACCTTAAAAGATGTAATGGGAAAGGTTGAG
1 AAGGGAAAGGTTGAGGCCGTAACGACAAACTTAGTACCTTAGAAGATGTAATGGGAAAGGTTGAG
*** * ** *
371 GTTGTAACGGCGAACCTGGTACCAT-GAAGATGTA
66 GCCATAACGACGAACCTAATACCATGGAA-ATATA
* * * * * *
405 AAGGGAAAGGTTGAGGCCATAACGGCGAACCTGGTACCTTAGAAGATGTGATGGG-AAGGATTGA
1 AAGGGAAAGGTTGAGGCCGTAACGACAAACTTAGTACCTTAGAAGATGTAATGGGAAAGG-TTGA
*
469 GGCCATAACGATGAATCC-AATACCATGGAAATATA
65 GGCCATAACGACGAA-CCTAATACCATGGAAATATA
** * *
504 AAAAGAAAGGTTGAGGCCGCAACGTCAAACTTAGTACCTTAGAAG
1 AAGGGAAAGGTTGAGGCCGTAACGACAAACTTAGTACCTTAGAAG
549 CATGACGTGA
Statistics
Matches: 117, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
98 4 0.03
99 108 0.92
100 5 0.04
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.20
Consensus pattern (99 bp):
AAGGGAAAGGTTGAGGCCGTAACGACAAACTTAGTACCTTAGAAGATGTAATGGGAAAGGTTGAG
GCCATAACGACGAACCTAATACCATGGAAATATA
Found at i:1033 original size:123 final size:123
Alignment explanation
Indices: 809--1146 Score: 480
Period size: 123 Copynumber: 2.7 Consensus size: 123
799 CAGTGGAGTG
* * *
809 GAGTGAAACTTCAAACCCTATCTTCCTAGTGAGGTACTGAGAAGTAGGTCAGACAACGAAGCGGT
1 GAGTGAAACTTCAGACCCTATCTTCCTAGTGAGGTACAGAGAAGTAGGTCAGACAATGAAGCGGT
* * *
874 CATATTCCTGGTGAGATACAGAGAAGTGTACTAAAATAATG-CGATAAAGCTCAAATAT
66 CATCTTCCTGGTGAGATACAGAGAAGTGTACCAAAATAATGACG-TAAAACTCAAATAT
* **
932 GAGTGAAACTTTAGACCCTATCTTCCTAGTGAGGTACAGAGAAGTAGGTCAGACAATGAAGCAAT
1 GAGTGAAACTTCAGACCCTATCTTCCTAGTGAGGTACAGAGAAGTAGGTCAGACAATGAAGCGGT
* * * *
997 CATCTTCCTGGTGAGATACAGAAAAGTGTACCAAAATAATGATGTAAAACTCGAATGT
66 CATCTTCCTGGTGAGATACAGAGAAGTGTACCAAAATAATGACGTAAAACTCAAATAT
* * * ** * *
1055 GAGTGAAACCTCAGACCCCATCTTCCTGGTGAGGTACAGAGAAGTACATCAAACAATGAAGTGGT
1 GAGTGAAACTTCAGACCCTATCTTCCTAGTGAGGTACAGAGAAGTAGGTCAGACAATGAAGCGGT
1120 CATCTTCCTGGTGAGATACAGAGAAGT
66 CATCTTCCTGGTGAGATACAGAGAAGT
1147 AGGTCAAACA
Statistics
Matches: 190, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
123 189 0.99
124 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (123 bp):
GAGTGAAACTTCAGACCCTATCTTCCTAGTGAGGTACAGAGAAGTAGGTCAGACAATGAAGCGGT
CATCTTCCTGGTGAGATACAGAGAAGTGTACCAAAATAATGACGTAAAACTCAAATAT
Found at i:1142 original size:47 final size:47
Alignment explanation
Indices: 1073--1193 Score: 197
Period size: 47 Copynumber: 2.6 Consensus size: 47
1063 CCTCAGACCC
*
1073 CATCTTCCTGGTGAGGTACAGAGAAGTACATCAAACAATGAAGTGGT
1 CATCTTCCTGGTGAGATACAGAGAAGTACATCAAACAATGAAGTGGT
**
1120 CATCTTCCTGGTGAGATACAGAGAAGTAGGTCAAACAATGAAGTGGT
1 CATCTTCCTGGTGAGATACAGAGAAGTACATCAAACAATGAAGTGGT
* *
1167 CATCTTCCTGGTGAGATATAAAGAAGT
1 CATCTTCCTGGTGAGATACAGAGAAGT
1194 GTACCAAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 69 1.00
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.25
Consensus pattern (47 bp):
CATCTTCCTGGTGAGATACAGAGAAGTACATCAAACAATGAAGTGGT
Found at i:1172 original size:170 final size:169
Alignment explanation
Indices: 951--1362 Score: 508
Period size: 170 Copynumber: 2.4 Consensus size: 169
941 TTTAGACCCT
* * *
951 ATCTTCCTAGTGAGGTACAGAGAAGTAGGTCAGACAATGAAGCAATCATCTTCCTGGTGAGATAC
1 ATCTTCCTGGTGAGATACAGAGAAGTAGGTCAAACAATGAAGCAATCATCTTCCTGGTGAGATAC
* * *
1016 AGAAAAGTGTACCAAAATAATGATGT-AAAACTCGAATGTGAGTGAAACCTCAGACCCCATCTTC
66 AGAAAAGTGTACCAAAATAATGAGGTGAAAA-TCAAATGTGAGTGAAACCTCAAACCCCATCTTC
* ** **
1080 CT-GGTGAGGTACAGAGAAGTACATCAAACAATGAAGTGGTC
130 CTAGGTGA--TACAGAGAAGTACATAAAACAACAAAGCAGTC
*** *
1121 ATCTTCCTGGTGAGATACAGAGAAGTAGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGATAT
1 ATCTTCCTGGTGAGATACAGAGAAGTAGGTCAAACAATGAAGCAATCATCTTCCTGGTGAGATAC
* * *
1186 A-AAGAAGTGTACCAAAATAATGAGGTGAAAATTAAATGTTAGTGAAACTTCAAACCCCATCTTC
66 AGAA-AAGTGTACCAAAATAATGAGGTGAAAATCAAATGTGAGTGAAACCTCAAACCCCATCTTC
* ***
1250 CTAGTTGATACAGAGAAGTGGGTAAAACAACAAAGCAGTC
130 CTAGGTGATACAGAGAAGTACATAAAACAACAAAGCAGTC
* * **
1290 ATCTTCTTGGTGAGATACAGAGAAGT-GGACAAAACAACAAAGCAATCATCTTCCTGGTGAGATA
1 ATCTTCCTGGTGAGATACAGAGAAGTAGGTC-AAACAATGAAGCAATCATCTTCCTGGTGAGATA
*
1354 CAGAGAAGT
65 CAGAAAAGT
1363 ACATCGAGCA
Statistics
Matches: 206, Mismatches: 31, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
168 3 0.01
169 84 0.41
170 111 0.54
171 8 0.04
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (169 bp):
ATCTTCCTGGTGAGATACAGAGAAGTAGGTCAAACAATGAAGCAATCATCTTCCTGGTGAGATAC
AGAAAAGTGTACCAAAATAATGAGGTGAAAATCAAATGTGAGTGAAACCTCAAACCCCATCTTCC
TAGGTGATACAGAGAAGTACATAAAACAACAAAGCAGTC
Found at i:1311 original size:47 final size:47
Alignment explanation
Indices: 1243--1362 Score: 179
Period size: 47 Copynumber: 2.6 Consensus size: 47
1233 CTTCAAACCC
* * ** *
1243 CATCTTCCTAGT-TGATACAGAGAAGTGGGTAAAACAACAAAGCAGT
1 CATCTTCCTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGCAAT
*
1289 CATCTTCTTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGCAAT
1 CATCTTCCTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGCAAT
1336 CATCTTCCTGGTGAGATACAGAGAAGT
1 CATCTTCCTGGTGAGATACAGAGAAGT
1363 ACATCGAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
46 10 0.15
47 56 0.85
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (47 bp):
CATCTTCCTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGCAAT
Found at i:1386 original size:47 final size:47
Alignment explanation
Indices: 1287--1456 Score: 164
Period size: 47 Copynumber: 3.6 Consensus size: 47
1277 CAACAAAGCA
* ** **
1287 GTCATCTTCTTGGTGAGATACAGAGAAGTGGACA--AAACAACAAAGCA
1 GTCATCTTCCTGGTGAGATACAGAGAAGT--ACATCAAACAATGAAGTG
* * *
1334 ATCATCTTCCTGGTGAGATACAGAGAAGTACATCGAGCAATGAAGTG
1 GTCATCTTCCTGGTGAGATACAGAGAAGTACATCAAACAATGAAGTG
* * ** *
1381 GTCATCTTCCTTGTGTGATACAGAGAAGTAGGTCAAACAATGAATTG
1 GTCATCTTCCTGGTGAGATACAGAGAAGTACATCAAACAATGAAGTG
* * *
1428 GTTATCTTCCTGGTGAGATATAAAGAAGT
1 GTCATCTTCCTGGTGAGATACAGAGAAGT
1457 GTACCAAAAT
Statistics
Matches: 100, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
45 3 0.03
47 97 0.97
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (47 bp):
GTCATCTTCCTGGTGAGATACAGAGAAGTACATCAAACAATGAAGTG
Found at i:1540 original size:263 final size:263
Alignment explanation
Indices: 1073--1641 Score: 1050
Period size: 263 Copynumber: 2.2 Consensus size: 263
1063 CCTCAGACCC
*
1073 CATCTTCCTGGTGAGGTACAGAGAAGTACATCAAACAATGAAGTGGTCATCTTCCTGGTGAGATA
1 CATCTTCCTGGTGAGATACAGAGAAGTACATCAAACAATGAAGTGGTCATCTTCCTGGTGAGATA
1138 CAGAGAAGTAGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGATATAAAGAAGTGTACCAAAA
66 CAGAGAAGTAGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGATATAAAGAAGTGTACCAAAA
1203 TAATGAGGTGAAAATTAAATGTTAGTGAAACTTCAAACCCCATCTTCCTAGTTGATACAGAGAAG
131 TAATGAGGTGAAAATTAAATGTTAGTGAAACTTCAAACCCCATCTTCCTAGTTGATACAGAGAAG
1268 TGGGTAAAACAACAAAGCAGTCATCTTCTTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGC
196 TGGGTAAAACAACAAAGCAGTCATCTTCTTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGC
1333 AAT
261 AAT
* * * *
1336 CATCTTCCTGGTGAGATACAGAGAAGTACATCGAGCAATGAAGTGGTCATCTTCCTTGTGTGATA
1 CATCTTCCTGGTGAGATACAGAGAAGTACATCAAACAATGAAGTGGTCATCTTCCTGGTGAGATA
* *
1401 CAGAGAAGTAGGTCAAACAATGAATTGGTTATCTTCCTGGTGAGATATAAAGAAGTGTACCAAAA
66 CAGAGAAGTAGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGATATAAAGAAGTGTACCAAAA
1466 TAATGAGGTGAAAATTAAATGTTAGTGAAACTTCAAACCCCATCTTCCTAGTTGATACAGAGAAG
131 TAATGAGGTGAAAATTAAATGTTAGTGAAACTTCAAACCCCATCTTCCTAGTTGATACAGAGAAG
1531 TGGGTAAAACAACAAAGCAGTCATCTTCTTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGC
196 TGGGTAAAACAACAAAGCAGTCATCTTCTTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGC
1596 AAT
261 AAT
*
1599 CATCTTCCTGGTGAGATACAGAGAAGTAGATCAAA-ATATGAAG
1 CATCTTCCTGGTGAGATACAGAGAAGTACATCAAACA-ATGAAG
1642 CTACGACACC
Statistics
Matches: 295, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
262 1 0.00
263 294 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (263 bp):
CATCTTCCTGGTGAGATACAGAGAAGTACATCAAACAATGAAGTGGTCATCTTCCTGGTGAGATA
CAGAGAAGTAGGTCAAACAATGAAGTGGTCATCTTCCTGGTGAGATATAAAGAAGTGTACCAAAA
TAATGAGGTGAAAATTAAATGTTAGTGAAACTTCAAACCCCATCTTCCTAGTTGATACAGAGAAG
TGGGTAAAACAACAAAGCAGTCATCTTCTTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGC
AAT
Found at i:1574 original size:47 final size:47
Alignment explanation
Indices: 1506--1634 Score: 179
Period size: 47 Copynumber: 2.7 Consensus size: 47
1496 CTTCAAACCC
* * ** *
1506 CATCTTCCTAGT-TGATACAGAGAAGTGGGTAAAACAACAAAGCAGT
1 CATCTTCCTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGCAAT
*
1552 CATCTTCTTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGCAAT
1 CATCTTCCTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGCAAT
*
1599 CATCTTCCTGGTGAGATACAGAGAAGTAGATCAAAA
1 CATCTTCCTGGTGAGATACAGAGAAGTGGA-CAAAA
1635 TATGAAGCTA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
46 10 0.14
47 58 0.79
48 5 0.07
ACGTcount: A:0.40, C:0.17, G:0.22, T:0.21
Consensus pattern (47 bp):
CATCTTCCTGGTGAGATACAGAGAAGTGGACAAAACAACAAAGCAAT
Done.