Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2250
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: 55043
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Found at i:869 original size:26 final size:28
Alignment explanation
Indices: 821--872 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
811 TAAGTTATTG
*
821 ATTATGAATGTTGCCAAATGGATATGAT
1 ATTATGAATGTTGCCAAAAGGATATGAT
*
849 ATTATGAA-G-TGCTAAAAGGATATG
1 ATTATGAATGTTGCCAAAAGGATATG
873 TCAGAAGAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 13 0.59
27 1 0.05
28 8 0.36
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (28 bp):
ATTATGAATGTTGCCAAAAGGATATGAT
Found at i:1726 original size:67 final size:65
Alignment explanation
Indices: 1597--1726 Score: 167
Period size: 67 Copynumber: 2.0 Consensus size: 65
1587 ATAAGGCATA
* *
1597 ATAGCCATGTATGATGTAAGTTGTATATATGTGATAAGCCTAAGCCGATGTATGATATAATGTAC
1 ATAGCCATGTATGAAGTAAGTTGTATATATGTGATAAGCCTAAGCCGATG-ATGATAGAATGTAC
1662 T
65 T
1663 ATAGCCGATGTGATGAAGTAAG-TGTATATATGTGATAAGGCCTAATAGCCGATG-TGAT-GAAT
1 ATAGCC-ATGT-ATGAAGTAAGTTGTATATATGTGATAA-GCCT-A-AGCCGATGATGATAGAAT
1725 GT
61 GT
1727 GAAAGTGTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
66 6 0.11
67 25 0.44
68 17 0.30
69 1 0.02
70 8 0.14
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (65 bp):
ATAGCCATGTATGAAGTAAGTTGTATATATGTGATAAGCCTAAGCCGATGATGATAGAATGTACT
Found at i:1996 original size:186 final size:187
Alignment explanation
Indices: 1666--2118 Score: 667
Period size: 186 Copynumber: 2.4 Consensus size: 187
1656 ATGTACTATA
1666 GCCGATGTGATGAA-GT--AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
*
1728 AAAGTGTATATATGTGA-AAGGCCTAATGGCCGATGTGATGAAAGTGAAAGTGTATATATGTGAT
66 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAAGTGAAAGTGTATATATGTAAT
1792 AAGCCTAATGGCGATGTGA-TG-AATGTGAAAGTGTATATATATGTGATAAGGCCTAAT-
131 AAGCCTAATGGCGATGTGATTGAAATGTGAAAGTG--TATATATGTGATAAGGCC-AATG
*
1849 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAAT-GCCGATGTGATGAATGTG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
*
1913 AAAGTGTATATATGTGATAAGGCCTAAT-G-CGATGTGATGAATGTGAAAGTGTATATATGTAAT
66 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAAGTGAAAGTGTATATATGTAAT
1976 AAGGCCTAATGGCCGATGTGATTGAAATGTGAAAGTGTATATATGTGATAAGGCCAATG
131 AA-GCCTAATGG-CGATGTGATTGAAATGTGAAAGTGTATATATGTGATAAGGCCAATG
* * * * * * *
2035 GCCGATGTGATGAATGTGAAAGTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGTATGGATGT
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG-ATGAATGT
* *
2099 GAAAGTGCATAAATGTGATA
65 GAAAGTGTATATATGTGATA
2119 GTCCCGAAGG
Statistics
Matches: 247, Mismatches: 12, Indels: 18
0.89 0.04 0.06
Matches are distributed among these distances:
183 14 0.06
184 36 0.15
185 55 0.22
186 103 0.42
187 27 0.11
188 12 0.05
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (187 bp):
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAAGTGAAAGTGTATATATGTAAT
AAGCCTAATGGCGATGTGATTGAAATGTGAAAGTGTATATATGTGATAAGGCCAATG
Found at i:2051 original size:140 final size:138
Alignment explanation
Indices: 1668--2069 Score: 665
Period size: 140 Copynumber: 2.9 Consensus size: 138
1658 GTACTATAGC
1668 CGATGTGATGAA-GT--AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
*
1730 AGTGTATATATGTGA-AAGGCCTAATGGCCGATGTGATGAAAGTGAAAGTGTATATATGTGATAA
65 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1794 GCCTAATGG
130 GCCTAATGG
1803 CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGA
1 CGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGA
*
1868 AAGTGTATATGTGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
64 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1932 AGGCCTAAT-G
129 A-GCCTAATGG
*
1942 CGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATTGAAATGTG
1 CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGA-TG-AATGTG
2007 AAAGTGTATATATGTGATAAGGCC-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
63 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
2070 CAGGCCGAGT
Statistics
Matches: 252, Mismatches: 4, Indels: 17
0.92 0.01 0.06
Matches are distributed among these distances:
135 12 0.05
136 2 0.01
137 21 0.08
138 15 0.06
139 99 0.39
140 103 0.41
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (138 bp):
CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAA
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
CCTAATGG
Found at i:2083 original size:46 final size:47
Alignment explanation
Indices: 1666--2118 Score: 669
Period size: 46 Copynumber: 9.8 Consensus size: 47
1656 ATGTACTATA
*
1666 GCCGATGTGATGAA-GT--AAGTGTATATATGTGATAAGGCCTAATA
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1710 GCCGATGTGATGAATGTGAAAGTGTATATATGTGA-AAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
*
1756 GCCGATGTGATGAAAGTGAAAGTGTATATATGTGATAA-GCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1802 G-CGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT-
1 GCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATG
*
1849 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAAT-
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1895 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
*
1941 G-CGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1987 GCCGATGTGATTGAAATGTGAAAGTGTATATATGTGATAAGGCC-AATG
1 GCCGATGTGA-TG-AATGTGAAAGTGTATATATGTGATAAGGCCTAATG
* * *
2035 GCCGATGTGATGAATGTGAAAGTGTATATATGTGA-CAGGCCGAGTG
1 GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
* * * * *
2081 GCCAACGTGTATGGATGTGAAAGTGCATAAATGTGATA
1 GCCGATGTG-ATGAATGTGAAAGTGTATATATGTGATA
2119 GTCCCGAAGG
Statistics
Matches: 379, Mismatches: 15, Indels: 26
0.90 0.04 0.06
Matches are distributed among these distances:
44 14 0.04
45 71 0.19
46 154 0.41
47 66 0.17
48 45 0.12
49 29 0.08
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
Found at i:4282 original size:41 final size:40
Alignment explanation
Indices: 4141--4532 Score: 545
Period size: 40 Copynumber: 9.4 Consensus size: 40
4131 GAATTGAGAG
*
4141 GTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCTA
1 GTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTA
*
4181 GTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCTA
1 GTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTA
4221 GTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTA
1 GTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTA
*
4261 GTGATTATATCCGGGCTAAGTCCCGAGAGAGCATTTGTGCTA
1 GTGA-TATATCCGGGCTAAGTCCCGAG-GAGCATTCGTGCTA
4303 GTGATATATCCGGGCTATAGTCCCGAGGAGCATTCCGGCATTCGTGCTA
1 GTGATATATCCGGGCTA-AGTCCCGA-G-G-A-----GCATTCGTGCTA
*
4352 GTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTA
1 GTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTA
4392 GTGATA-ATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTA
1 GTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTA
4431 GTGATATAATCCGGGCTAAGTCCCGAGGAGCATTCGTTGCTA
1 GTGATAT-ATCCGGGCTAAGTCCCGAGGAGCATTCG-TGCTA
* * *
4473 GTGATGTA-CCGGGCTAGAGTTCCGAAGAGCATTCGTGCTA
1 GTGATATATCCGGGCTA-AGTCCCGAGGAGCATTCGTGCTA
* *
4513 GTAATAATAATCCGTGCTAA
1 GTGAT-AT-ATCCGGGCTAA
4533 CCTCGAAGAG
Statistics
Matches: 322, Mismatches: 13, Indels: 32
0.88 0.04 0.09
Matches are distributed among these distances:
39 39 0.12
40 115 0.36
41 81 0.25
42 38 0.12
43 10 0.03
44 1 0.00
45 1 0.00
46 1 0.00
47 1 0.00
48 8 0.02
49 27 0.08
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
GTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTA
Found at i:4413 original size:39 final size:39
Alignment explanation
Indices: 4340--4520 Score: 256
Period size: 41 Copynumber: 4.5 Consensus size: 39
4330 GAGCATTCCG
*
4340 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGA
1 GCATTCGTGCTAGTGAT-AATCCGGGCTAAGTCCCGAGGA
4380 GCATTCGTGCTAGTGATAATCCGGGCTAAGTCCCGAGGA
1 GCATTCGTGCTAGTGATAATCCGGGCTAAGTCCCGAGGA
4419 GCATTCGTGCTAGTGATATAATCCGGGCTAAGTCCCGAGGA
1 GCATTCGTGCTAGTG--ATAATCCGGGCTAAGTCCCGAGGA
* * *
4460 GCATTCGTTGCTAGTGAT-GTACCGGGCTAGAGTTCCGAAGA
1 GCATTCG-TGCTAGTGATAAT-CCGGGCTA-AGTCCCGAGGA
*
4501 GCATTCGTGCTAGTAATAAT
1 GCATTCGTGCTAGTGATAAT
4521 AATCCGTGCT
Statistics
Matches: 129, Mismatches: 6, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
39 37 0.29
40 36 0.28
41 48 0.37
42 8 0.06
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (39 bp):
GCATTCGTGCTAGTGATAATCCGGGCTAAGTCCCGAGGA
Found at i:4452 original size:170 final size:170
Alignment explanation
Indices: 4169--4506 Score: 565
Period size: 170 Copynumber: 2.0 Consensus size: 170
4159 GCCCCGAGGA
*
4169 GCATTCGTGCTAGTGATATATCTGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGG
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGG
*
4234 GCTAAGTCCCGAGGAGCATTCGTGCTAGTGATTATATCCGGGCTAAGTCCCGAGAGAGCATTTG-
66 GCTAAGTCCCGAGGAGCATTCGTGCTAGTGATTATATCCGGGCTAAGTCCCGAG-GAGCATTCGT
* *
4298 TGCTAGTGATATATCCGGGCTATAGTCCCGAGGAGCATTCCG
130 TGCTAGTGATATA-CCGGGCTAGAGTCCCGAAGAGCATTCCG
*
4340 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATA-ATCCGG
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGG
4404 GCTAAGTCCCGAGGAGCATTCGTGCTAGTGA-TATAATCCGGGCTAAGTCCCGAGGAGCATTCGT
66 GCTAAGTCCCGAGGAGCATTCGTGCTAGTGATTAT-ATCCGGGCTAAGTCCCGAGGAGCATTCGT
* *
4468 TGCTAGTGATGTACCGGGCTAGAGTTCCGAAGAGCATTC
130 TGCTAGTGATATACCGGGCTAGAGTCCCGAAGAGCATTC
4507 GTGCTAGTAA
Statistics
Matches: 158, Mismatches: 7, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
169 34 0.22
170 68 0.43
171 56 0.35
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (170 bp):
GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGG
GCTAAGTCCCGAGGAGCATTCGTGCTAGTGATTATATCCGGGCTAAGTCCCGAGGAGCATTCGTT
GCTAGTGATATACCGGGCTAGAGTCCCGAAGAGCATTCCG
Found at i:8539 original size:92 final size:94
Alignment explanation
Indices: 8321--8662 Score: 586
Period size: 92 Copynumber: 3.7 Consensus size: 94
8311 CAGCCAAGAC
8321 AGTGTATATATTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
1 AGTGTATATA-TGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
*
8386 AGGCCTAATGGCCGATGTGATGAAAGTGAA
65 AGGCCTAATGGCCGATGTGATGAATGTGAA
8416 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT-TGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
8480 GGCCTAATGGCCGATGTGATGAATGTG-A
66 GGCCTAATGGCCGATGTGATGAATGTGAA
* *
8508 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAAT-A
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
8572 -GCCTAATGGCCGATGTGATGAATGTGAA
66 GGCCTAATGGCCGATGTGATGAATGTGAA
*
8600 AGTGTATATATGTGATAA-GCCTAATGGCCGATGCTGATGAATGTGAACAGTGTATATATGTGA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATG-TGATGAATGTGAA-AGTGTATATATGTGA
8663 CACAGCCGAG
Statistics
Matches: 239, Mismatches: 4, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
91 41 0.17
92 89 0.37
93 53 0.22
94 46 0.19
95 10 0.04
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.30
Consensus pattern (94 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:8685 original size:47 final size:47
Alignment explanation
Indices: 8321--8662 Score: 586
Period size: 47 Copynumber: 7.3 Consensus size: 47
8311 CAGCCAAGAC
*
8321 AGTGTATATATTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATA-TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
8369 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAAGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
8416 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
8463 AGTGTATAT-TGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-A
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
8508 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
8555 AGTGTATATATGTAAT-A-GCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
8600 AGTGTATATATGTGATAA-GCCTAATGGCCGATGCTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATG-TGATGAATGTGAA
8647 CAGTGTATATATGTGA
1 -AGTGTATATATGTGA
8663 CACAGCCGAG
Statistics
Matches: 282, Mismatches: 7, Indels: 10
0.94 0.02 0.03
Matches are distributed among these distances:
45 53 0.19
46 86 0.30
47 118 0.42
48 25 0.09
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.30
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:8691 original size:47 final size:45
Alignment explanation
Indices: 8321--8705 Score: 501
Period size: 47 Copynumber: 8.3 Consensus size: 45
8311 CAGCCAAGAC
*
8321 AGTGTATATATTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATA-TGTGA-AA-GCCTAATGGCCGATGTGATGAATGTGAA
*
8369 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAAGTGAA
1 AGTGTATATATGTGA-AA-GCCTAATGGCCGATGTGATGAATGTGAA
*
8416 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGA-AA-GCCTAATGGCCGATGTGATGAATGTGAA
8463 AGTGTATAT-TGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-A
1 AGTGTATATATGTGA-AA-GCCTAATGGCCGATGTGATGAATGTGAA
8508 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGA-AA-GCCTAATGGCCGATGTGATGAATGTGAA
8555 AGTGTATATATGT-AATAGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGAA-AGCCTAATGGCCGATGTGATGAATGTGAA
8600 AGTGTATATATGTGATAAGCCTAATGGCCGATGCTGATGAATGTGAA
1 AGTGTATATATGTGA-AAGCCTAATGGCCGATG-TGATGAATGTGAA
* * * * *
8647 CAGTGTATATATGTGACACAGCCGAGTGG-CAACGTGATGGATGTGAA
1 -AGTGTATATATGTGA-A-AGCCTAATGGCCGATGTGATGAATGTGAA
*
8694 AGTGCATA-ATGT
1 AGTGTATATATGT
8706 ATGAGTCCCG
Statistics
Matches: 317, Mismatches: 12, Indels: 19
0.91 0.03 0.05
Matches are distributed among these distances:
45 56 0.18
46 95 0.30
47 129 0.41
48 29 0.09
49 8 0.03
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (45 bp):
AGTGTATATATGTGAAAGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:8885 original size:37 final size:36
Alignment explanation
Indices: 8830--8903 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
8820 CGAGCTCTAA
* *
8830 AGACCCGATGACTACGTGTGG-GAATTTTGGTCCGGGT
1 AGACCCGATAACTACGTGTGGAG-ATTAT-GTCCGGGT
*
8867 AGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
8903 A
1 A
8904 AGACTTCGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 9 0.27
37 23 0.70
38 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (36 bp):
AGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:13176 original size:7 final size:7
Alignment explanation
Indices: 13166--13258 Score: 60
Period size: 7 Copynumber: 12.9 Consensus size: 7
13156 CCATAAACTT
13166 TAAACCC
1 TAAACCC
13173 TAAACCC
1 TAAACCC
*
13180 TAAACCA
1 TAAACCC
*
13187 TATACCC
1 TAAACCC
*
13194 TTAACCC
1 TAAACCC
*
13201 TTAACTCC
1 TAAAC-CC
*
13209 TAGACCC
1 TAAACCC
* *
13216 TTAACCTT
1 TAAACC-C
13224 TAAACCC
1 TAAACCC
***
13231 TAAATAA
1 TAAACCC
13238 TAAACCC
1 TAAACCC
*
13245 TAAATCTC
1 TAAA-CCC
13253 TAAACC
1 TAAACC
13259 TCAACCCTTG
Statistics
Matches: 63, Mismatches: 20, Indels: 6
0.71 0.22 0.07
Matches are distributed among these distances:
7 47 0.75
8 16 0.25
ACGTcount: A:0.40, C:0.34, G:0.01, T:0.25
Consensus pattern (7 bp):
TAAACCC
Found at i:13176 original size:14 final size:14
Alignment explanation
Indices: 13147--13258 Score: 64
Period size: 14 Copynumber: 7.7 Consensus size: 14
13137 TAGCCCTTAG
*
13147 ACTCTTAACCCATAA
1 ACTCTAAACCC-TAA
*
13162 ACTTTAAACCCTAA
1 ACTCTAAACCCTAA
* * *
13176 ACCCTAAACCATAT
1 ACTCTAAACCCTAA
* * *
13190 ACCCTTAACCCTTA
1 ACTCTAAACCCTAA
*
13204 ACTCCTAGACCCTTAA
1 ACT-CTAAACCC-TAA
* *
13220 CCTTTAAACCCTAA
1 ACTCTAAACCCTAA
*
13234 A-TAATAAACCCTAA
1 ACT-CTAAACCCTAA
13248 ATCTCTAAACC
1 A-CTCTAAACC
13259 TCAACCCTTG
Statistics
Matches: 72, Mismatches: 20, Indels: 10
0.71 0.20 0.10
Matches are distributed among these distances:
13 1 0.01
14 39 0.54
15 27 0.38
16 5 0.07
ACGTcount: A:0.39, C:0.34, G:0.01, T:0.26
Consensus pattern (14 bp):
ACTCTAAACCCTAA
Found at i:13299 original size:15 final size:14
Alignment explanation
Indices: 13279--13312 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
13269 AACCATAAAT
*
13279 CATAATCCCTAAGTC
1 CATAATCCATAA-TC
13294 CATAATCCATAATC
1 CATAATCCATAATC
13308 CATAA
1 CATAA
13313 ACCTTGAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.26
Consensus pattern (14 bp):
CATAATCCATAATC
Found at i:13302 original size:7 final size:7
Alignment explanation
Indices: 13279--13312 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
13269 AACCATAAAT
13279 CATAATC
1 CATAATC
*
13286 CCTAAGTC
1 CATAA-TC
13294 CATAATC
1 CATAATC
13301 CATAATC
1 CATAATC
13308 CATAA
1 CATAA
13313 ACCTTGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.26
Consensus pattern (7 bp):
CATAATC
Found at i:13342 original size:7 final size:7
Alignment explanation
Indices: 13330--13452 Score: 57
Period size: 7 Copynumber: 16.7 Consensus size: 7
13320 GATATTAACT
13330 CATAAAC
1 CATAAAC
13337 CATAAACC
1 CATAAA-C
*
13345 CCTAAAC
1 CATAAAC
*
13352 CTTAAAC
1 CATAAAC
*
13359 CCTAAACC
1 CATAAA-C
**
13367 CATAATT
1 CATAAAC
13374 CATAAAC
1 CATAAAC
* *
13381 CTTAAAA
1 CATAAAC
* *
13388 TATTAACTCAT
1 CA-TAA---AC
13399 CATAAAC
1 CATAAAC
13406 CATAAAC
1 CATAAAC
*
13413 CCTAAAC
1 CATAAAC
* *
13420 TATATAC
1 CATAAAC
*
13427 CCTAAAC
1 CATAAAC
13434 CATAAAC
1 CATAAAC
*
13441 CTTAAAC
1 CATAAAC
*
13448 TATAA
1 CATAA
13453 TGATAAGTAA
Statistics
Matches: 84, Mismatches: 26, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
7 65 0.77
8 14 0.17
10 3 0.04
11 2 0.02
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (7 bp):
CATAAAC
Found at i:13352 original size:15 final size:14
Alignment explanation
Indices: 13332--13371 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
13322 TATTAACTCA
13332 TAAACCATAAACCCC
1 TAAACCATAAA-CCC
*
13347 TAAACCTTAAACCC
1 TAAACCATAAACCC
13361 TAAACCCATAA
1 TAAA-CCATAA
13372 TTCATAAACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:13379 original size:22 final size:22
Alignment explanation
Indices: 13329--13386 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
13319 AGATATTAAC
*
13329 TCATAAACCATAAACCCCTAAA
1 TCATAAACCATAAACCCATAAA
* * * *
13351 CCTTAAACCCTAAACCCATAAT
1 TCATAAACCATAAACCCATAAA
*
13373 TCATAAACCTTAAA
1 TCATAAACCATAAA
13387 ATATTAACTC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (22 bp):
TCATAAACCATAAACCCATAAA
Found at i:13428 original size:14 final size:14
Alignment explanation
Indices: 13401--13452 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
13391 TAACTCATCA
13401 TAAACCATAAACCC
1 TAAACCATAAACCC
* *
13415 TAAACTATATACCC
1 TAAACCATAAACCC
*
13429 TAAACCATAAACCT
1 TAAACCATAAACCC
*
13443 TAAACTATAA
1 TAAACCATAA
13453 TGATAAGTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:13962 original size:122 final size:122
Alignment explanation
Indices: 13744--14056 Score: 414
Period size: 122 Copynumber: 2.6 Consensus size: 122
13734 TTTGAAAAAA
* * *
13744 CGCCGCTATAAATAGAGCAATAGCGGTGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
1 CGCCGCTATAAATTGAGCAATAGCGGCGTTTTTCAAAAAGCGCCGCTATAGATTTGAGCATTAGC
*
13809 GGCGTTTTTCAAAAAACACCGATATAGATCTGAGCATTAGCGGCGTTTTTCA-ATAAG
66 GGCGTTTTGCAAAAAACACCGATATAGATCTGAGCATTAGCGGCGTTTTTCATA-AAG
* * *
13866 CGCCGCTATATATCTGAGCATTAGCGGCGTTTTTCAAAAAGCGCC-CTATAGATTTGAGCATTAA
1 CGCCGCTATAAAT-TGAGCAATAGCGGCGTTTTTCAAAAAGCGCCGCTATAGATTTGAGCATTAG
** * * * * * *
13930 CGGCGTTTTGCTTAAAGCGCCGCTATATATCTGAGCATTAGCGGTGTTTTTCGTAAAG
65 CGGCGTTTTGCAAAAAACACCGATATAGATCTGAGCATTAGCGGCGTTTTTCATAAAG
* * * *
13988 CGCCGCTATAGATGTGAGCACTAGCGGCATTTTTCATAAAGCGCCGCTATAGATTTGAGCATTAG
1 CGCCGCTATAAAT-TGAGCAATAGCGGCGTTTTTCAAAAAGCGCCGCTATAGATTTGAGCATTAG
14053 CGGC
65 CGGC
14057 ACTTTTGGCA
Statistics
Matches: 167, Mismatches: 21, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
122 116 0.69
123 51 0.31
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (122 bp):
CGCCGCTATAAATTGAGCAATAGCGGCGTTTTTCAAAAAGCGCCGCTATAGATTTGAGCATTAGC
GGCGTTTTGCAAAAAACACCGATATAGATCTGAGCATTAGCGGCGTTTTTCATAAAG
Found at i:14057 original size:41 final size:41
Alignment explanation
Indices: 13727--14056 Score: 412
Period size: 41 Copynumber: 8.1 Consensus size: 41
13717 ATGTTTTTGT
* * * * *
13727 GGCGCTTTTTGAAAAAACGCCGCTATAAAT-AGAGCAATAGC
1 GGCG-TTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
*
13768 GGTGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* * *
13809 GGCGTTTTTCAAAAAACACCGATATAGATCTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* *
13850 GGCGTTTTTCAATAAGCGCCGCTATATATCTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* *
13891 GGCGTTTTTCAAAAAGCGCC-CTATAGATTTGAGCATTAAC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* ** *
13931 GGCGTTTTGCTTAAAGCGCCGCTATATATCTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* ** * *
13972 GGTGTTTTTCGTAAAGCGCCGCTATAGATGTGAGCACTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
* * *
14013 GGCATTTTTCATAAAGCGCCGCTATAGATTTGAGCATTAGC
1 GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
14054 GGC
1 GGC
14057 ACTTTTGGCA
Statistics
Matches: 251, Mismatches: 36, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
40 56 0.22
41 195 0.78
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (41 bp):
GGCGTTTTTCAAAAAGCGCCGCTATAGATCTGAGCATTAGC
Found at i:15852 original size:23 final size:21
Alignment explanation
Indices: 15813--15854 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
15803 GTACTTAAGT
15813 ACATTTTGTTGCATTTTTAGG
1 ACATTTTGTTGCATTTTTAGG
15834 ACATTTTAGTTAGCATTTTTA
1 ACATTTT-GTT-GCATTTTTA
15855 AAATTGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
ACATTTTGTTGCATTTTTAGG
Found at i:23471 original size:22 final size:22
Alignment explanation
Indices: 23445--23489 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
23435 TATAAAAGTG
23445 TAAATTTAGAGTAAGTTAATGA
1 TAAATTTAGAGTAAGTTAATGA
23467 TAAATTTAGAGTAAGTTAATGA
1 TAAATTTAGAGTAAGTTAATGA
23489 T
1 T
23490 GTTAATGAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (22 bp):
TAAATTTAGAGTAAGTTAATGA
Found at i:27001 original size:29 final size:27
Alignment explanation
Indices: 26983--27052 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
26973 ATATTAAGTC
26983 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
27010 CGCACACTTAGTGCTATATAATCACACT
1 CGCACACTCAGTGCTATATAATCA-ACT
*
27038 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
27053 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:27080 original size:29 final size:28
Alignment explanation
Indices: 26982--27080 Score: 110
Period size: 27 Copynumber: 3.5 Consensus size: 28
26972 TATATTAAGT
* *
26982 CCGCACACTCAGTGCTATATAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
27009 TCGCACACTTAGTGCTATATAATCACAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * *
27037 TCGCACACTTAGTGCTGTACAATTTAAAC
1 CCGCACACTTAGTGCTATACAA-TCAAAC
27066 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
27081 CAATCTCATG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
29 18 0.29
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.26
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:32505 original size:94 final size:93
Alignment explanation
Indices: 32333--32506 Score: 224
Period size: 94 Copynumber: 1.9 Consensus size: 93
32323 CAGCCACAGT
* **
32333 ATGAGAGCCAGTGTAAGACATGTCTGGACATGCAGTGGCCTCAAGATATTTAAGCCAGTGTAAGA
1 ATGAGAGCCAGTGTAAGACATGTCTGGACATGCAGTGACCTCAAGATATACAAGCCAGTGTAAGA
*
32398 CATGTCTGGGACATGCGTTGGTATTGAG
66 CATGTCTAGGACATGCGTTGGTATTGAG
* * *** *
32426 ATGAGAGCTAGTGTAAGACATGTCTAGGGCATGCA-TCGACCTTGCGATATACAAGCTAGTGTAA
1 ATGAGAGCCAGTGTAAGACATGTCT-GGACATGCAGT-GACCTCAAGATATACAAGCCAGTGTAA
*
32490 GACCTGTCTAGGACATG
64 GACATGTCTAGGACATG
32507 GCGTCATCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
93 25 0.37
94 43 0.63
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (93 bp):
ATGAGAGCCAGTGTAAGACATGTCTGGACATGCAGTGACCTCAAGATATACAAGCCAGTGTAAGA
CATGTCTAGGACATGCGTTGGTATTGAG
Found at i:34529 original size:56 final size:56
Alignment explanation
Indices: 34440--34559 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
34430 ACAAGGGATG
34440 ATGGGCAAAACATGTCATGAAACATGTTCTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTCTGTTAATGGAAGAATAAAATAAGAAGC
*
34496 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTCTGTTAATGGAAGAATAAAATAAGAAGC
34552 ATGGGCAA
1 ATGGGCAA
34560 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTCTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:35823 original size:79 final size:81
Alignment explanation
Indices: 35687--35869 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
35677 TCGAATGATG
* *
35687 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
35751 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
35766 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
35828 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
35846 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
35870 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:35885 original size:40 final size:40
Alignment explanation
Indices: 35688--35871 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
35678 CGAATGATGT
* * * *
35688 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
35728 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
35768 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35806 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
35847 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
35872 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:35893 original size:79 final size:79
Alignment explanation
Indices: 35740--35904 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
35730 GGACTAAGAT
* **
35740 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
35805 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
35819 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
35882 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
35898 CCGAAGG
1 CCGAAGG
35905 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42434 original size:55 final size:56
Alignment explanation
Indices: 42350--42468 Score: 231
Period size: 55 Copynumber: 2.1 Consensus size: 56
42340 ACAAGGGATG
42350 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAA-AATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
42405 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
42461 ATGGGCAA
1 ATGGGCAA
42469 TAAACTAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 40 0.63
56 23 0.37
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:43731 original size:79 final size:81
Alignment explanation
Indices: 43595--43777 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
43585 TCGAATGATG
* *
43595 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
43659 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
43674 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
43736 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
43754 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
43778 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:43793 original size:40 final size:40
Alignment explanation
Indices: 43596--43779 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
43586 CGAATGATGT
* * * *
43596 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
43636 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
43676 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43714 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43755 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43780 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43801 original size:79 final size:79
Alignment explanation
Indices: 43648--43812 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
43638 GGACTAAGAT
* **
43648 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
43713 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
43727 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
43790 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43806 CCGAAGG
1 CCGAAGG
43813 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Done.