Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold94
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: 2274668
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Warning! 33727 characters in sequence are not A, C, G, or T
File 13 of 13
Found at i:2246386 original size:3 final size:3
Alignment explanation
Indices: 2246374--2246413 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
2246364 AAAAGAAAGG
2246374 ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2246414 GAAGGAACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:2247188 original size:19 final size:18
Alignment explanation
Indices: 2247164--2247206 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
2247154 CAATTCTATC
* *
2247164 AAAATATAATTTTTTTAAA
1 AAAATAT-ATGTTTTAAAA
2247183 AAAATATATGTTTTAAAA
1 AAAATATATGTTTTAAAA
2247201 AAAATA
1 AAAATA
2247207 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AAAATATATGTTTTAAAA
Found at i:2249269 original size:19 final size:19
Alignment explanation
Indices: 2249245--2249300 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
2249235 ACAATTTTTT
2249245 TTTTCTTTTCTTTCTTTCA
1 TTTTCTTTTCTTTCTTTCA
* *
2249264 TTTTC-TTTCTTTAATTTCC
1 TTTTCTTTTCTTT-CTTTCA
*
2249283 CTTTCTTTCTCTTTCTTT
1 TTTTCTTT-TCTTTCTTT
2249301 TGTTCATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
18 7 0.23
19 13 0.43
20 5 0.17
21 5 0.17
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTCTTTTCTTTCTTTCA
Found at i:2249864 original size:2 final size:2
Alignment explanation
Indices: 2249857--2249886 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2249847 ATTTATAAAC
*
2249857 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2249887 GTTATGTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2251914 original size:114 final size:113
Alignment explanation
Indices: 2251600--2252288 Score: 564
Period size: 108 Copynumber: 6.2 Consensus size: 113
2251590 ATGATTGCAA
* * *
2251600 AATAGAAGCAGTCGAAACAGAATCTCATGCTATTGTGGATGGAGTTGAAATCCCGAGGATAAATT
1 AATAGAAGCAGTCGAAACAGAATCTCATGCTGTTG-GGATGGAGTTGAAATCTCGGGGATAAATT
* ** * *
2251665 TCGCGTCTGAGGGAGTTTTAAGTTCATCCACTACGGCATCCAGATCAAC
65 CCATGTCTGAGGGAGTTGTAAGTTCATCCACTACAGCATCCAGATCAAC
* * * * * *
2251714 AATAGAAGCAGTCGATAGAGAATCTAATG--G-T--GATGGAGTTGAAATCTCAGAGACAAATTC
1 AATAGAAGCAGTCGAAACAGAATCTCATGCTGTTGGGATGGAGTTGAAATCTCGGGGATAAATTC
* * * ** *
2251774 TATGTCT-AGAGGAGTAGTAAGTTCATCTACTACAGCATCTGGATTAAC
66 CATGTCTGAG-GGAGTTGTAAGTTCATCCACTACAGCATCCAGATCAAC
*
2251822 AACT-GAAGCAGTCGAAACAGAATCTCATGCTGTTAGGGATGGAGTTGAAATCTTGGGGATAAAT
1 AA-TAGAAGCAGTCGAAACAGAATCTCATGCTGTT-GGGATGGAGTTGAAATCTCGGGGATAAAT
** * * * *
2251886 TCCATGTCTGAGGGAGTTGTAAAATCATCCACCATACCATCCAGATCAAA
64 TCCATGTCTGAGGGAGTTGTAAGTTCATCCACTACAGCATCCAGATCAAC
* * *
2251936 AATAGAAGCAAG-CGAAACAGAATCTCATACTGAT-GG--GGA--TGAAATCTCGGAGATAAATT
1 AATAGAAGC-AGTCGAAACAGAATCTCATGCTGTTGGGATGGAGTTGAAATCTCGGGGATAAATT
* ** * * * *
2251995 TCACATCTG-GGGTTGTTGTAAGTTCATCCACCATAGCATCCAGTTCAAC
65 CCATGTCTGAGGG-AGTTGTAAGTTCATCCACTACAGCATCCAGATCAAC
* * * * ** * *
2252044 AACAGAAGCAGTCAAAATAGAATCTCA-G--GCT--GACAGAGTTGAAATCTCGAGAATAAATT-
1 AATAGAAGCAGTCGAAACAGAATCTCATGCTGTTGGGATGGAGTTGAAATCTCGGGGATAAATTC
* * * *
2252103 C-TGCATCT-AGGGGAGTTGTAAGTTCATCTACCATAGCATCCAAATCAAC
66 CATG--TCTGA-GGGAGTTGTAAGTTCATCCACTACAGCATCCAGATCAAC
* * * * *
2252152 AACA-AAGCAGTCGAAACAGAATTTCATGTTGTTAGGGATGGAGCTGAAATCTCAGGGATAAATT
1 AATAGAAGCAGTCGAAACAGAATCTCATGCTGTT-GGGATGGAGTTGAAATCTCGGGGATAAATT
* * * * *
2252216 -CAGCGTCTGGGGGAATTATAAGTTCATCCACTATC-GCGTCCAGATCAAC
65 CCA-TGTCTGAGGGAGTTGTAAGTTCATCCACTA-CAGCATCCAGATCAAC
2252265 AATAGAAGCAGTCGAAACAGAATC
1 AATAGAAGCAGTCGAAACAGAATC
2252289 GCATACTGAT
Statistics
Matches: 455, Mismatches: 88, Indels: 64
0.75 0.14 0.11
Matches are distributed among these distances:
104 1 0.00
105 2 0.00
106 2 0.00
107 27 0.06
108 214 0.47
109 4 0.01
110 6 0.01
111 2 0.00
112 2 0.00
113 61 0.13
114 129 0.28
115 5 0.01
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (113 bp):
AATAGAAGCAGTCGAAACAGAATCTCATGCTGTTGGGATGGAGTTGAAATCTCGGGGATAAATTC
CATGTCTGAGGGAGTTGTAAGTTCATCCACTACAGCATCCAGATCAAC
Found at i:2252018 original size:222 final size:221
Alignment explanation
Indices: 2251603--2252075 Score: 526
Period size: 222 Copynumber: 2.1 Consensus size: 221
2251593 ATTGCAAAAT
* * *
2251603 AGAAGCAGTCGAAACAGAATCTCATGCTATTGTGGATGGAGTTGAAATCCCGAGGATAAATTTCG
1 AGAAGCAGTCGAAACAGAATCTCATGCTGTTGTGGATGGAGTTGAAATCCCGAGGATAAATTCCA
* ** * * *
2251668 CGTCTGAGGGAGTTTTAAGTTCATCCACTACGGCATCCAGATCAACAATAGAAGCAGTCGATAGA
66 CGTCTGAGGGAGTTGTAAAATCATCCACTAC-GCATCCAGATCAAAAATAGAAGCAGTCGAAACA
** * **
2251733 GAATCTAATGGTGATGGAGTTGAAATCTCAGAGACAAATTCTATGTCTAGAGGAGTAGTAAGTTC
130 GAATCTAATACTGATGGAGATGAAATCTCAGAGACAAATTCTACATCTAGAGGAGTAGTAAGTTC
* * **
2251798 ATCTACTACAGCATCTGGATT-AACAAC
195 ATCCACCACAGCATCCAG-TTCAACAAC
* ** *
2251825 TGAAGCAGTCGAAACAGAATCTCATGCTGTTAG-GGATGGAGTTGAAATCTTGGGGATAAATTCC
1 AGAAGCAGTCGAAACAGAATCTCATGCTGTT-GTGGATGGAGTTGAAATCCCGAGGATAAATTCC
*
2251889 ATGTCTGAGGGAGTTGTAAAATCATCCACCATAC-CATCCAGATCAAAAATAGAAGCAAG-CGAA
65 ACGTCTGAGGGAGTTGTAAAATCATCCA-C-TACGCATCCAGATCAAAAATAGAAGC-AGTCGAA
* * * * * * *
2251952 ACAGAATCTCATACTGATGGGGATGAAATCTCGGAGATAAATT-TCACATCT-GGGGTTGTTGTA
127 ACAGAATCTAATACTGATGGAGATGAAATCTCAGAGACAAATTCT-ACATCTAGAGG-AGTAGTA
*
2252015 AGTTCATCCACCATAGCATCCAGTTCAACAAC
190 AGTTCATCCACCACAGCATCCAGTTCAACAAC
* * *
2252047 AGAAGCAGTCAAAATAGAATCTCAGGCTG
1 AGAAGCAGTCGAAACAGAATCTCATGCTG
2252076 ACAGAGTTGA
Statistics
Matches: 209, Mismatches: 35, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
221 6 0.03
222 196 0.94
223 4 0.02
224 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (221 bp):
AGAAGCAGTCGAAACAGAATCTCATGCTGTTGTGGATGGAGTTGAAATCCCGAGGATAAATTCCA
CGTCTGAGGGAGTTGTAAAATCATCCACTACGCATCCAGATCAAAAATAGAAGCAGTCGAAACAG
AATCTAATACTGATGGAGATGAAATCTCAGAGACAAATTCTACATCTAGAGGAGTAGTAAGTTCA
TCCACCACAGCATCCAGTTCAACAAC
Found at i:2252557 original size:19 final size:18
Alignment explanation
Indices: 2252525--2252561 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
2252515 AAAATTATTT
*
2252525 TTATATTAATATTTAATA
1 TTATATTAAAATTTAATA
2252543 TTATAATTAAAATTTAATA
1 TTAT-ATTAAAATTTAATA
2252562 ATATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATATTAAAATTTAATA
Found at i:2252571 original size:19 final size:19
Alignment explanation
Indices: 2252529--2252565 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
2252519 TTATTTTTAT
* *
2252529 ATTAATATTTAATATTATA
1 ATTAAAATTTAATAATATA
2252548 ATTAAAATTTAATAATAT
1 ATTAAAATTTAATAATAT
2252566 TTTTAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTAAAATTTAATAATATA
Found at i:2254206 original size:19 final size:20
Alignment explanation
Indices: 2254166--2254206 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
2254156 AAAATATAAT
2254166 AATCAAATTAAATAAATATA
1 AATCAAATTAAATAAATATA
*
2254186 AATCAAA-TAAATAACTATA
1 AATCAAATTAAATAAATATA
2254205 AA
1 AA
2254207 GATATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (20 bp):
AATCAAATTAAATAAATATA
Found at i:2254948 original size:17 final size:17
Alignment explanation
Indices: 2254898--2254950 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
2254888 GAAAGTTTAT
*
2254898 AAATCTATAT-AATAT-
1 AAATTTATATAAATATA
2254913 AAA-TTAT-TAACATATTA
1 AAATTTATATAA-ATA-TA
2254930 AAATTTATATAAATATA
1 AAATTTATATAAATATA
2254947 AAAT
1 AAAT
2254951 ACTGTAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 10
0.74 0.02 0.24
Matches are distributed among these distances:
13 1 0.03
14 4 0.13
15 6 0.19
16 1 0.03
17 9 0.29
18 7 0.23
19 3 0.10
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATTTATATAAATATA
Found at i:2254983 original size:2 final size:2
Alignment explanation
Indices: 2254976--2255016 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2254966 ATGACGCAAA
2254976 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2255017 ACATGAAGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2256101 original size:39 final size:42
Alignment explanation
Indices: 2256058--2256138 Score: 105
Period size: 39 Copynumber: 2.0 Consensus size: 42
2256048 AGGTTCGATC
2256058 ATTTTGGATTCAAATCATTTTG-ATTT-AATTA-TTTGAGTT
1 ATTTTGGATTCAAATCATTTTGAATTTGAATTATTTTGAGTT
* * * *
2256097 ATTTTTGATTTAAATTATTTTGAATTTGAGTTATTTTGAGTT
1 ATTTTGGATTCAAATCATTTTGAATTTGAATTATTTTGAGTT
2256139 TGATTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 19 0.54
40 4 0.11
41 4 0.11
42 8 0.23
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (42 bp):
ATTTTGGATTCAAATCATTTTGAATTTGAATTATTTTGAGTT
Found at i:2256114 original size:16 final size:15
Alignment explanation
Indices: 2256058--2256165 Score: 68
Period size: 16 Copynumber: 7.4 Consensus size: 15
2256048 AGGTTCGATC
* *
2256058 ATTTTGGATTCAAATC
1 ATTTT-GATTTAAATT
2256074 ATTTTGATTT-AATT
1 ATTTTGATTTAAATT
*
2256088 A-TTTGAGTT--A-T
1 ATTTTGATTTAAATT
2256099 -TTTTGATTTAAATT
1 ATTTTGATTTAAATT
* *
2256113 ATTTTGAATTTGAGTT
1 ATTTTG-ATTTAAATT
*
2256129 ATTTTGAGTTT-GATT
1 ATTTTGA-TTTAAATT
*
2256144 ATTTTGAATTTAAATA
1 ATTTTG-ATTTAAATT
2256160 ATTTTG
1 ATTTTG
2256166 GATTCAGTTC
Statistics
Matches: 73, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
11 8 0.11
12 1 0.01
13 8 0.11
14 5 0.07
15 21 0.29
16 30 0.41
ACGTcount: A:0.29, C:0.02, G:0.13, T:0.56
Consensus pattern (15 bp):
ATTTTGATTTAAATT
Found at i:2256119 original size:15 final size:14
Alignment explanation
Indices: 2256074--2256156 Score: 66
Period size: 15 Copynumber: 5.9 Consensus size: 14
2256064 GATTCAAATC
2256074 ATTTTGATTTAATT
1 ATTTTGATTTAATT
*
2256088 A-TTTGAGTT-A-T
1 ATTTTGATTTAATT
2256099 -TTTTGATTTAAATT
1 ATTTTGATTT-AATT
*
2256113 ATTTTGAATTTGAGTT
1 ATTTTG-ATTT-AATT
*
2256129 ATTTTGAGTTTGATT
1 ATTTTGA-TTTAATT
2256144 ATTTTGAATTTAA
1 ATTTTG-ATTTAA
2256157 ATAATTTTGG
Statistics
Matches: 54, Mismatches: 7, Indels: 15
0.71 0.09 0.20
Matches are distributed among these distances:
11 8 0.15
12 1 0.02
13 8 0.15
14 2 0.04
15 18 0.33
16 17 0.31
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (14 bp):
ATTTTGATTTAATT
Found at i:2256145 original size:31 final size:32
Alignment explanation
Indices: 2256088--2256154 Score: 102
Period size: 31 Copynumber: 2.1 Consensus size: 32
2256078 TGATTTAATT
2256088 ATTTGAGTTATTTTTGATTTAAATTATTTTGA
1 ATTTGAGTTATTTTTGATTTAAATTATTTTGA
*
2256120 ATTTGAGTTA-TTTTGAGTTT-GATTATTTTGA
1 ATTTGAGTTATTTTTGA-TTTAAATTATTTTGA
2256151 ATTT
1 ATTT
2256155 AAATAATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 20 0.61
32 13 0.39
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (32 bp):
ATTTGAGTTATTTTTGATTTAAATTATTTTGA
Found at i:2262042 original size:29 final size:28
Alignment explanation
Indices: 2261980--2262034 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 28
2261970 AATAATTATA
2261980 ATTTCTTTAAAAATAATTTAGATTATTTT
1 ATTTCTTTAAAAATAA-TTAGATTATTTT
*
2262009 ATTTCTTTAAATATAA-TA-ATTATTTT
1 ATTTCTTTAAAAATAATTAGATTATTTT
2262035 TCATTTTCCT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 8 0.32
27 2 0.08
29 15 0.60
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (28 bp):
ATTTCTTTAAAAATAATTAGATTATTTT
Found at i:2264063 original size:25 final size:25
Alignment explanation
Indices: 2264034--2264083 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
2264024 ATATATTGAG
2264034 TTACACAATTCTCTTTGGTTTATAA
1 TTACACAATTCTCTTTGGTTTATAA
2264059 TTACACAATTCTCTTTGGTTTATAA
1 TTACACAATTCTCTTTGGTTTATAA
2264084 ATGTGACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.16, G:0.08, T:0.48
Consensus pattern (25 bp):
TTACACAATTCTCTTTGGTTTATAA
Found at i:2264277 original size:17 final size:18
Alignment explanation
Indices: 2264251--2264288 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
2264241 TAAATTGATT
2264251 AAATAATTATAA-AAATA
1 AAATAATTATAATAAATA
*
2264268 AAATATTTATAATAAATA
1 AAATAATTATAATAAATA
2264286 AAA
1 AAA
2264289 ATAAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAATTATAATAAATA
Found at i:2267052 original size:50 final size:50
Alignment explanation
Indices: 2266997--2267205 Score: 330
Period size: 50 Copynumber: 4.2 Consensus size: 50
2266987 TATACTTAGA
* * *
2266997 GTCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTGATAAAGAATT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
* *
2267047 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGATTGGTGAAGAATT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
*
2267097 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
* *
2267147 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAATG-ATA
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAA-GAATT
2267197 GTCAACAAT
1 GTCAACAAT
2267206 GACAACAACT
Statistics
Matches: 148, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 147 0.99
51 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATT
Found at i:2271656 original size:50 final size:50
Alignment explanation
Indices: 2271597--2271805 Score: 330
Period size: 50 Copynumber: 4.2 Consensus size: 50
2271587 TATACTTAGA
* *
2271597 GTCAACAATTATGACCACCTCCCTCTATTGTCAAAGGTTGGTAAAGAATT
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTAAAGAATC
* *
2271647 GTCAACAATTATGGCCACCTCCTTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTAAAGAATC
*
2271697 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTAAAGAATC
* * *
2271747 GTCAACAATTATGGCCACCTCTCTCTATTGTCAAAGGTTGGTGAATG-ATA
1 GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGT-AAAGAATC
2271797 GTCAACAAT
1 GTCAACAAT
2271806 GACAACAACT
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 147 0.99
51 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTCCCTCTATTGTCAAAGGTTGGTAAAGAATC
Found at i:2273280 original size:2 final size:2
Alignment explanation
Indices: 2273231--2273267 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2273221 GTTGTTGTAC
2273231 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2273268 CACAAATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Done.