Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009648.1 Kokia drynarioides strain JFW-HI SEQ_124366, 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: 13465
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:3887 original size:39 final size:39
Alignment explanation
Indices: 3843--3919 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
3833 TAAATAGGGC
3843 TTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGTT
1 TTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGTT
*
3882 TTTAATGTGTCTTATTTTGATACATATTTAATAGTTGT
1 TTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGT
3920 ACGTTTGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.05, G:0.14, T:0.55
Consensus pattern (39 bp):
TTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGTT
Found at i:4009 original size:32 final size:32
Alignment explanation
Indices: 3973--4035 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
3963 AGCCGAAATT
* *
3973 AATTAGTTGATTAATGTGTTTCAAGTACATGC
1 AATTAGTTGATTAATATATTTCAAGTACATGC
*
4005 AATTAGTTGATTAATATATTTCAGGTACATG
1 AATTAGTTGATTAATATATTTCAAGTACATG
4036 TATGGATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.41
Consensus pattern (32 bp):
AATTAGTTGATTAATATATTTCAAGTACATGC
Found at i:6747 original size:13 final size:14
Alignment explanation
Indices: 6728--6766 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
6718 GCAAAGAAAG
6728 TGAAAAGAAAGAGA
1 TGAAAAGAAAGAGA
*
6742 -GAAAAGAAAAAGA
1 TGAAAAGAAAGAGA
*
6755 TGAAAAGGAAGA
1 TGAAAAGAAAGA
6767 AAAAGAGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.05
Consensus pattern (14 bp):
TGAAAAGAAAGAGA
Found at i:6748 original size:31 final size:28
Alignment explanation
Indices: 6692--6748 Score: 69
Period size: 31 Copynumber: 1.9 Consensus size: 28
6682 AAATTGAAAA
* *
6692 AAAGAAAGGAAAAATGAGAGGAAAGAGC
1 AAAGAAAGGAAAAAAGAGAGAAAAGAGC
6720 AAAGAAAGTGAAAAGAAAGAGAGAAAAGA
1 AAAGAAAG-G-AAA-AAAGAGAGAAAAGA
6749 AAAAGATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
29 1 0.04
30 3 0.12
31 12 0.50
ACGTcount: A:0.65, C:0.02, G:0.30, T:0.04
Consensus pattern (28 bp):
AAAGAAAGGAAAAAAGAGAGAAAAGAGC
Found at i:8202 original size:32 final size:32
Alignment explanation
Indices: 8166--8227 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
8156 CCATCCGTAC
* *
8166 ATGTACCTGAAATATATTAATCAGCTAATTGT
1 ATGTACCTGAAACACATTAATCAGCTAATTGT
8198 ATGTACCTGAAACACATTAATCAGCTAATT
1 ATGTACCTGAAACACATTAATCAGCTAATT
8228 AATTTTGGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (32 bp):
ATGTACCTGAAACACATTAATCAGCTAATTGT
Found at i:8360 original size:38 final size:39
Alignment explanation
Indices: 8288--8370 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 39
8278 CTTTGATACC
*
8288 TTAAAAACAACTATTAAATATGTATCAAAATAAGACACA
1 TTAAAAACAACTAATAAATATGTATCAAAATAAGACACA
*
8327 TTAAAAACAACTAAT-AATATGTATCAAACTAAGACACA
1 TTAAAAACAACTAATAAATATGTATCAAAATAAGACACA
8365 TTAAAA
1 TTAAAA
8371 CCCTATTAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 28 0.67
39 14 0.33
ACGTcount: A:0.57, C:0.13, G:0.05, T:0.25
Consensus pattern (39 bp):
TTAAAAACAACTAATAAATATGTATCAAAATAAGACACA
Found at i:9212 original size:215 final size:216
Alignment explanation
Indices: 8732--12652 Score: 3586
Period size: 216 Copynumber: 18.4 Consensus size: 216
8722 TGCCGTATCA
* ** * * *
8732 TGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTACGACTTCGGGTACTTAAAGTTT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * * * * *
8797 TCAGGACGATCCATTCCTTCGAGAAATTTTTTGAACATTCAAAGCTCGGGAAATCTCATCATTTC
66 TCAAGACGATCCATTCTTTCGAGAAATTTTCTGAACATTCCATGCTCAGGAAATCGCATCATTTG
* * * * * **
8862 GTCTAAATAGTTTGTCATTTTTTAAACAATTTTTGGTTTTTGAA-T----A-TT-TGCACA--AG
131 GTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAG
*
8918 AATTG-TT-TCTCTTAGTTCT
196 AATTGTTTCTCTCTTGGTTCT
* *
8937 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTCATAACTTCAGTTCCTTAAAGTAT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * * *
9002 TCAAG-CTGATCCATTCTTTCGAGCAATATTCTGAACATTACATACTCAGGAAATCGTATAATTT
66 TCAAGAC-GATCCATTCTTTCGAGAAATTTTCTGAACATTCCATGCTCAGGAAATCGCATCATTT
* * * * * * * *
9066 GGTTTATATATTTTCTTATTTTTTAAACAAGTTTTGTTCTTTGAATTAAAAACTTAATTACGTTA
130 GGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGA
*
9131 GAATT-TTTCTCTTTTGGTTCT
195 GAATTGTTTCTCTCTTGGTTCT
* * * * * * * *
9152 TGCACGAACTTCCAAACTAGTCAAACTTTTACGAGTACCTTCATAACTTCTGTCCCTTAAAGTAT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * *
9217 TCAAGACAATCCATTCCTTT-AAGCAATTTTCCGAACATTTCATGCTC-GAGAAATCGCATCATT
66 TCAAGACGATCCATT-CTTTCGAGAAATTTTCTGAACATTCCATGCTCAG-GAAATCGCATCATT
* * ** ** * *
9280 TGGTCTAAATAGTTTACCATTTTGTAAATGAGTTTTAGTCTTTGAATTAAAAACTTATTTACCTG
129 TGGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATG
* *
9345 AGAATTGTCTCTCTCTTGGTTCA
194 AGAATTGTTTCTCTCTTGGTTCT
** * * ** * * * *
9368 TGGATAAACTTCCGCACTTGTCAAACTTTTACGAGTTTTTTTACGACTTCGGGTACTTAAAATTT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * *
9433 TCAGGACGATCCATTCTTTCGAGAAATTTTCAGAACACGT-CATGCTC-GAGAAATTGCATCATT
66 TCAAGACGATCCATTCTTTCGAGAAATTTTCTGAACA-TTCCATGCTCAG-GAAATCGCATCATT
* * * * * * * *
9496 TGGTCTAAA-ATTTTGTCATTTTTTAAAAAACTTTTGGTTTTTGAATTATAAATTTATTTGCATG
129 TGGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATG
*
9560 AGAA-T-TTT-TCTCTTAGTTCT
194 AGAATTGTTTCTCTCTTGGTTCT
* * *
9580 TGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAGCTTCGATTCCTTAAAGTAT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * *
9645 TCAAG-CTGATCCATTCTTTTGAGCAATATTT-TGAACATTCCATACTCAGGAAATCGTATAATT
66 TCAAGAC-GATCCATTCTTTCGAGAAAT-TTTCTGAACATTCCATGCTCAGGAAATCGCATCATT
* * * * * * * *
9708 TGGTCTATATATTTTCTTATTTTTTAAACAAGTTTTGGTCTTTGAATTAAAAACTTAATTACGTT
129 TGGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATG
* *
9773 AGAACTGTTTCCCTCTTGGTTCT
194 AGAATTGTTTCTCTCTTGGTTCT
* * * * * * * *
9796 AGCACGAACTTCC-AAATTAGTCAAACTTTTACGAGTTCCTTCACAACTTCGGTCCCATAAAGTA
1 TGGACGAACTTCCGAACTT-GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * * *
9860 TTCATGACAATCCATTCCTTT-GAGCAATTTTCTGAACATTTCATGCTC-GAGAAATCGCATCAT
65 TTCAAGACGATCCATT-CTTTCGAGAAATTTTCTGAACATTCCATGCTCAG-GAAATCGCATCAT
* * ** * * * *
9923 TTGGTCTAAATAGTTAATCATTTTGTAGACGAGTTTTGGTCTTTGAAATAAAAACTTAGTTACAT
128 TTGGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACAT
*
9988 GAGAATTGTTTCTCTCTTGGCTC-
193 GAGAATTGTTTCTCTCTTGGTTCT
* ** * *
10011 TGCACGAACTTCAAAACATGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT-TTGTAAAGTA
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCT-TAAAGTA
* * * *
10075 TTCAAGACGATCCATTCCTTCGAGAAATTTTCTTAACATACCATGCTCAGGAAATTGCATCATTT
65 TTCAAGACGATCCATTCTTTCGAGAAATTTTCTGAACATTCCATGCTCAGGAAATCGCATCATTT
* ** *
10140 AGTTTAAATAGTTTT-TCATTTTGT-AACAAGTTTTAAT-TTTGAATAAAAAAACTTATTTACAT
130 GGTTTAAATA-TTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAAT-TAAAAACTTATTTACAT
10202 GAGAATTGTTTCTCTCTTGGTTCT
193 GAGAATTGTTTCTCTCTTGGTTCT
* * * * * * *
10226 TAGATGTACTTCC--ACATTGGTGAAACTTTTACGAGATGTTTTAAAACTTCGGTTCCTTAAAGT
1 TGGACGAACTTCCGAAC-TT-GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGT
* * * * * * * * *
10289 GTTTAAGACGATCCATTCCTTAGAGAAATTTTCCGAACATTCCTTACCCAGTAAATCGCATCATT
64 ATTCAAGACGATCCATTCTTTCGAGAAATTTTCTGAACATTCCATGCTCAGGAAATCGCATCATT
* * * * * *
10354 TGGTTTAAATAGTTTGTCAGTTTGTAAATAAGTTTTAGTCTTTGAATTAAAATCTTATTTACCTG
129 TGGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATG
* * *
10419 AGAATTGTCTCTCTTTTGGTTCA
194 AGAATTGTTTCTCTCTTGGTTCT
* * * * * * * *
10442 TGGACGAACTTCTGCACTTGTCAAACTTTTACGAGTTCTTTTACAACTTTGGGTACATAAAGTTT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * *
10507 TCAGGAGGATCCATTCTTTCGAGAAATTTTCTGAACGTTTCATGCTC-GAGAAATCACATCATTT
66 TCAAGACGATCCATTCTTTCGAGAAATTTTCTGAACATTCCATGCTCAG-GAAATCGCATCATTT
* * * * * * * * *
10571 AGTCTAAA-A-TTTGCCATTTTTTAAAAAAATTTTGGTTTTTGAATTATAAACTTATTTGCATGA
130 GGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGA
* *
10634 GAA-T-TTT-TATCTTAGTTCT
195 GAATTGTTTCTCTCTTGGTTCT
* * * *
10653 TGGACGAACTTCCGAACTTGTCCAACTTTTACGAGTTATTTTATAGCTTCGATTCCTTAAAGTAT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * *
10718 TCAAG-CTGATCCATTCTTTCGAGCAATATTCTGAACATTCCATACTCAGGAAATCGTATAATTT
66 TCAAGAC-GATCCATTCTTTCGAGAAATTTTCTGAACATTCCATGCTCAGGAAATCGCATCATTT
* ** ** * * *
10782 GGTCTAAATATTTTGTTTTTTTGTAAACAAGTTTTGGGGTTTGAATTAAAAACTTAATTACGTTA
130 GGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGA
10847 GAATTGTTTCTCTCTTGGTTCT
195 GAATTGTTTCTCTCTTGGTTCT
* * * * * * * * *
10869 TGCACGAACTTCCAAACTAGTCAAACTTTTACGAATACCTTCACAACTTCGGTCCCTTAAAGTAT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * *
10934 TCAAGACAATCCATTCCTTT-AAGCAATTTTTTGAACATTTCATGCTC-GAGAAATCGCATCATT
66 TCAAGACGATCCATT-CTTTCGAGAAATTTTCTGAACATTCCATGCTCAG-GAAATCGCATCATT
* ** * *
10997 TGGTCTT-AATAGTTTACCATTTTGTAAACAAGTTTTGGTCTTTGAAATAAAAACTTACTTACAT
129 TGGT-TTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACAT
11061 GAGAATTGTTTCTCTCTTGGTTC-
193 GAGAATTGTTTCTCTCTTGGTTCT
** * * ** * *
11084 TACATGGACTTCAAAACATGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT-TTGTAAAGTA
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCT-TAAAGTA
* * * * * **
11148 TTCAAGACGATCCATTCCTTCAAGAAATTTTTTGAACATACCGTGCTTTGGAAATCGCATCATTT
65 TTCAAGACGATCCATTCTTTCGAGAAATTTTCTGAACATTCCATGCTCAGGAAATCGCATCATTT
* * **
11213 AGTTTAAATAGTTTGTCATTTTGT-AACAAGTTTTAAT-TTTGAATTAAAAACTTATTTACATGA
130 GGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGA
**
11276 GAATTGTTTCTCTCTTTATTCT
195 GAATTGTTTCTCTCTTGGTTCT
* * * * * * * * * * *
11298 TAGATGTACTTCCGCATTTGTGAAACTTTAACGAGATGTTTTAAAACTTCGGTTCCTTAAAGTTT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * *
11363 TCAAGACGATCCATTCCTTCGAGAAATTTTTCT-AACATTCCTTACTCAGTAAATCGCATCATTT
66 TCAAGACGATCCATTCTTTCGAGAAA-TTTTCTGAACATTCCATGCTCAGGAAATCGCATCATTT
* * * *
11427 GGTTTAAATAGTTTGTCAGTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACTTGA
130 GGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGA
* *
11492 GAATTGTCTCTCTCTTGGTTCA
195 GAATTGTTTCTCTCTTGGTTCT
* * * * * *
11514 CGGATGAACTTCCGCACTTGTCAAACTTTTAC--G----------ACTTCGGGTACTTAAAGTTT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * *
11567 TCAGGACGATCCATTCTTTCGAGAAATTTTCAGAACATGT-CATGCTC-GAGAAATTGCATCATT
66 TCAAGACGATCCATTCTTTCGAGAAATTTTCTGAACAT-TCCATGCTCAG-GAAATCGCATCATT
* * * ** * * * *
11630 TGGTCTAAA-ATTTTGTCATTTTTTAAAAAACATTGGGTTTTTGAATTATAAACTTATTTGCATG
129 TGGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATG
*
11694 AGAA-T-TTT-TCTCTTAGTTCT
194 AGAATTGTTTCTCTCTTGGTTCT
* * * *
11714 TGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAGCTTTGATTCCTTAAAGTAT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * ** *
11779 TCAAG-CTGATTCATTCTTTCGAGCAATATTCTGAACATTCCATACTCAGGAAATCATATAATTT
66 TCAAGAC-GATCCATTCTTTCGAGAAATTTTCTGAACATTCCATGCTCAGGAAATCGCATCATTT
* * ** * * * *
11843 GGTCTAAATATTTTGTTATTTTGTAAACAAGTTTTGGGGTTTGAATTGAAAACTTAATTACGTTA
130 GGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGA
11908 GAATTGTTTCTCTCTTGGTTCT
195 GAATTGTTTCTCTCTTGGTTCT
* * * * * * * * * * * *
11930 TGCACGAACTTCCAAACTAGTCAAACTTTTACGACTACCTTAACAACTTGGGTCCCTTAAGGTGT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* * * * * * *
11995 TCAAGACAATCCATTCCTTT-AAGCAATTTTCCGAACATTTCATTCTC-GAGAAATCGTATCATT
66 TCAAGACGATCCATT-CTTTCGAGAAATTTTCTGAACATTCCATGCTCAG-GAAATCGCATCATT
* * ** * * * *
12058 TGGCCTT-AATAGTTTACCATTTTGTCAACAAGTTTTGGTTTTTGAAATAAAAACTTACTTACAT
129 TGG-TTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACAT
12122 GAGAATTGTTTCTCTCTTGGTTC-
193 GAGAATTGTTTCTCTCTTGGTTCT
** * ** *
12145 TACATGAACTTCAAAACATGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT--TTGAAAAGT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTT--AAAGT
* ** * *
12208 ATTCAAGACGATCCATTCCTTCGAGAAATTTTCTGAACATAGCGTGCTCTGGAAATCGCATCATT
64 ATTCAAGACGATCCATTCTTTCGAGAAATTTTCTGAACATTCCATGCTCAGGAAATCGCATCATT
* * ** *
12273 TAGTTTAAATAGTTTGTCATTTTGT-AACAAGTTTTAAT-TTTGAATTAAAAACTTATTTACATA
129 TGGTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATG
12336 AGAATTGTTTCTCTCTTGGTTCT
194 AGAATTGTTTCTCTCTTGGTTCT
* * * * * * * * * * *
12359 TAGATGTACTTCCGCA-TTGGTGAAACTTTTATGAGATGTTTTAAAACATCGGTTCCTTAAAGTG
1 TGGACGAACTTCCGAACTT-GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTA
* * * * * * * *
12423 TTTAAGACGATCCATTCCTTCGAGAAATTCTCCGAACATTCCTTAC-CAGTAAATCGCATCATTC
65 TTCAAGACGATCCATTCTTTCGAGAAATTTTCTGAACATTCCATGCTCAGGAAATCGCATCATTT
* * * * *
12487 GGTTTAAATAGTTTGTCAGTTTGTAAAAAAAGTTTTAGACTTTGAATTAAAAACTTATTTACATG
130 GGTTTAAATATTTTGTCATTTTGT-AAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATG
* * *
12552 AGAATTGTCTCTCTTTTGGTTCA
194 AGAATTGTTTCTCTCTTGGTTCT
* * ** * * *
12575 TGGACGAACTTTCGCACTTGTCAAACTTTTACGAGTTCTTTTACGACTTCGGGTACTTAAAGTTT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
* *
12640 TTAGGACGATCCA
66 TCAAGACGATCCA
12653 AACTAGTCAA
Statistics
Matches: 3012, Mismatches: 598, Indels: 201
0.79 0.16 0.05
Matches are distributed among these distances:
200 38 0.01
201 2 0.00
202 2 0.00
203 53 0.02
204 73 0.02
205 143 0.05
206 1 0.00
210 1 0.00
211 125 0.04
212 190 0.06
213 280 0.09
214 351 0.12
215 735 0.24
216 987 0.33
217 29 0.01
218 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (216 bp):
TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTAT
TCAAGACGATCCATTCTTTCGAGAAATTTTCTGAACATTCCATGCTCAGGAAATCGCATCATTTG
GTTTAAATATTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACATGAG
AATTGTTTCTCTCTTGGTTCT
Found at i:10035 original size:643 final size:646
Alignment explanation
Indices: 8732--13465 Score: 3673
Period size: 643 Copynumber: 7.3 Consensus size: 646
8722 TGCCGTATCA
*
8732 TGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTACGACTTCGGGTACTTAAAGTTT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTACGACTTCGGGTACTTAAAGTTT
* * * * * *
8797 TCAGGACGATCCATTCCTTCGAGAAATTTTTTGAACATTCAAAGCTCGGGAAATCTCATCATTTC
66 TCAAGACGATCCATTCCTTCGAGAAATTTTCTGAACATTC-ATGCTC-AGAAATCGCATCATTTG
* * **
8862 GTCTAAATAGTTTGTCATTTTTTAAACAATTTTTGGTTTTTGAA-T----A-TT-TGCACA--AG
129 GTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTTTTTGAATTAAAAACTTATTTACATGAG
* *
8918 AATTG-TT-TCTCTTAGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTCAT
194 AATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTAT
* * * *
8981 AACTTCAGTTCCTTAAAGTATTCAAG-CTGATCCATTCTTTCGAGCAATATTCTGAACATTACAT
259 AACTTCGGTTCCTTAAAGTATTCAAGAC-GATCCATTCCTTCGAGCAATATTTTGAACATTCCAT
* * * * * *
9045 ACTCAGGAAATCGTATAATTTGGTTTATATATTTTCTTATTTTTTAAACAAGTTTTGTTCTTTGA
323 ACTCAGGAAATCGCATCATTTGGTCTATATATTTTCTCATTTTGTAAACAAGTTTTGGTCTTTGA
* * * * * *
9110 ATTAAAAACTTAATTACGTTAGAATT-TTTCTCTTTTGGTTCTTGCACGAACTTCCAAACTAGTC
388 ATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTAGCACGAACTTCCAAATTAGTC
* * * * * * *
9174 AAACTTTTACGAGTACCTTCATAACTTCTGTCCCTTAAAGTATTCAAGACAATCCATTCCTTTAA
453 AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGA
* * * **
9239 GCAATTTTCCGAACATTTCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTACCATTTTG
518 GAAATTTTCTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
** * * *
9304 TAAATGAGTTTTAGTCTTTGAATTAAAAACTTATTTACCTGAGAATTGTCTCTCTCTTGGTTCA
583 TAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCT
** * * *
9368 TGGATAAACTTCCGCACTTGTCAAACTTTTACGAGTTTTTTTACGACTTCGGGTACTTAAAATTT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTACGACTTCGGGTACTTAAAGTTT
* * * * *
9433 TCAGGACGATCCATTCTTTCGAGAAATTTTCAGAACACGTCATGCTCGAGAAATTGCATCATTTG
66 TCAAGACGATCCATTCCTTCGAGAAATTTTCTGAACA-TTCATGCTC-AGAAATCGCATCATTTG
* * * * * * *
9498 GTCTAAA-ATTTTGTCATTTTTTAAAAAACTTTTGGTTTTTGAATTATAAATTTATTTGCATGAG
129 GTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTTTTTGAATTAAAAACTTATTTACATGAG
* *
9562 AA-T-TTT-TCTCTTAGTTCTTGGACGAACTTTCGAACTTGTCAAACTTTTACGAGTTCTTTTAT
194 AATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTAT
* * * *
9624 AGCTTCGATTCCTTAAAGTATTCAAG-CTGATCCATTCTTTTGAGCAATATTTTGAACATTCCAT
259 AACTTCGGTTCCTTAAAGTATTCAAGAC-GATCCATTCCTTCGAGCAATATTTTGAACATTCCAT
* * * *
9688 ACTCAGGAAATCGTATAATTTGGTCTATATATTTTCTTATTTTTTAAACAAGTTTTGGTCTTTGA
323 ACTCAGGAAATCGCATCATTTGGTCTATATATTTTCTCATTTTGTAAACAAGTTTTGGTCTTTGA
* * * * *
9753 ATTAAAAACTTAATTACGTTAGAACTGTTTCCCTCTTGGTTCTAGCACGAACTTCCAAATTAGTC
388 ATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTAGCACGAACTTCCAAATTAGTC
* * * * * * *
9818 AAACTTTTACGAGTTCCTTCACAACTTCGGTCCCATAAAGTATTCATGACAATCCATTCCTTTGA
453 AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGA
* * **
9883 GCAATTTTCTGAACATTTCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTAATCATTTTG
518 GAAATTTTCTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
* * * * * *
9948 TAGACGAGTTTTGGTCTTTGAAATAAAAACTTAGTTACATGAGAATTGTTTCTCTCTTGGCTC-
583 TAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCT
* ** * ** ** *
10011 TGCACGAACTTCAAAACATGTCAAACTTTTACGAGTTCTTTTATAACTTC-GGTTTTGTAAAGTA
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTACGACTTCGGGTACT-TAAAGTT
* * *
10075 TTCAAGACGATCCATTCCTTCGAGAAATTTTCTTAACATACCATGCTCAGGAAATTGCATCATTT
65 TTCAAGACGATCCATTCCTTCGAGAAATTTTCTGAACAT-TCATGCTCA-GAAATCGCATCATTT
* * * ** *
10140 AGTTTAAATAGTTTTTCATTTTGT-AACAAGTTTT-AATTTTGAATAAAAAAACTTATTTACATG
128 GGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTTTTTGAAT-TAAAAACTTATTTACATG
* * * * * *
10203 AGAATTGTTTCTCTCTTGGTTCTTAGATGTACTTCC--ACATTGGTGAAACTTTTACGAGATGTT
192 AGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAAC-TT-GTCAAACTTTTACGAGTTCTT
* * * *
10266 TTAAAACTTCGGTTCCTTAAAGTGTTTAAGACGATCCATTCCTTAGAG-AA-ATTTTCCGAACAT
255 TTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATATTTT--GAACAT
* * * * * * * * * *
10329 TCCTTACCCAGTAAATCGCATCATTTGGTTTAAATAGTTTGTCAGTTTGTAAATAAGTTTTAGTC
318 TCCATACTCAGGAAATCGCATCATTTGGTCTATATATTTTCTCATTTTGTAAACAAGTTTTGGTC
* * * * *
10394 TTTGAATTAAAATCTTATTTACCTGAGAATTGTCTCTCTTTTGGTTC-ATGGACGAACTTCTGC-
383 TTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTA-GCACGAACTTC--CA
* * * * * * * * *
10457 ACTT-GTCAAACTTTTACGAGTTCTTTTACAACTTTGGGTACATAAAGTTTTCAGGAGGATCCAT
445 AATTAGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCAT
* * * *
10521 T-CTTTCGAGAAATTTTCTGAACGTTTCATGCTCGAGAAATCACATCATTTAGTCTAAA-A-TTT
510 TCCTTT-GAGAAATTTTCTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTT
* * * * * * * * *
10583 GCCATTTTTTAAAAAAATTTTGGTTTTTGAATTATAAACTTATTTGCATGAGAA-T-TTT-TATC
574 GTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTC
*
10645 TTAGTTCT
639 TTGGTTCT
* * * ** * *
10653 TGGACGAACTTCCGAACTTGTCCAACTTTTACGAGTTATTTTA-TAGCTTCGATTCCTTAAAGTA
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTACGA-CTTCGGGTACTTAAAGTT
* * * * * *
10717 TTCAAG-CTGATCCATTCTTTCGAGCAATATTCTGAACATTCCATACTCAGGAAATCGTATAATT
65 TTCAAGAC-GATCCATTCCTTCGAGAAATTTTCTGAACATT-CATGCTCA-GAAATCGCATCATT
* ** ** * * *
10781 TGGTCTAAATATTTTGTTTTTTTGTAAACAAGTTTTGGGGTTTGAATTAAAAACTTAATTACGTT
127 TGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTTTTTGAATTAAAAACTTATTTACATG
* * * * * * *
10846 AGAATTGTTTCTCTCTTGGTTCTTGCACGAACTTCCAAACTAGTCAAACTTTTACGAATACCTTC
192 AGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTT
* * * ** * *
10911 ACAACTTCGGTCCCTTAAAGTATTCAAGACAATCCATTCCTTTAAGCAATTTTTTGAACATTTCA
257 ATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATATTTTGAACATTCCA
* *
10976 TGCTC-GAGAAATCGCATCATTTGGTCT-TAATAGTTTAC-CATTTTGTAAACAAGTTTTGGTCT
322 TACTCAG-GAAATCGCATCATTTGGTCTAT-ATA-TTTTCTCATTTTGTAAACAAGTTTTGGTCT
* * * * **
11038 TTGAAATAAAAACTTACTTACATGAGAATTGTTTCTCTCTTGGTTCTA-CATGGACTT-CAAAAC
384 TTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTAGCACGAACTTCCAAATT
*
11101 ATGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT-TTGTAAAGTATTCAAGACGATCCATTC
449 A-GTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCT-TAAAGTATTCAAGACGATCCATTC
** * * * * * *
11165 CTTCAAGAAATTTTTTGAACATACCGTGCTTTG-GAAATCGCATCATTTAGTTTAAATAGTTTGT
512 CTTTGAGAAATTTTCTGAACATTCCATGC-TCGAGAAATCGCATCATTTGGTCTAAATAGTTTGT
*
11229 CATTTTGT-AACAAGTTTTAAT-TTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTT
576 CATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTT
**
11292 TATTCT
641 GGTTCT
* * * * * * * * * ** * *
11298 TAGATGTACTTCCGCATTTGTGAAACTTTAACGAGATGTTTTAAAACTTCGGTTCCTTAAAGTTT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTACGACTTCGGGTACTTAAAGTTT
* *
11363 TCAAGACGATCCATTCCTTCGAGAAATTTTTCT-AACATTCCTTACTCAGTAAATCGCATCATTT
66 TCAAGACGATCCATTCCTTCGAGAAA-TTTTCTGAACATT-CATGCTCAG-AAATCGCATCATTT
* * * * *
11427 GGTTTAAATAGTTTGTCAGTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACTTGA
128 GGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTTTTTGAATTAAAAACTTATTTACATGA
* ** * *
11492 GAATTGTCTCTCTCTTGGTTCACGGATGAACTTCCGCACTTGTCAAACTTTTAC--G--------
193 GAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTA
* * * * *
11547 --ACTTCGGGTACTTAAAGTTTTCAGGACGATCCATTCTTTCGAG-AA-ATTTTCAGAACATGT-
258 TAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATATTTT--GAACAT-TC
* * * * * * ** * *
11607 CATGCTC-GAGAAATTGCATCATTTGGTCTA-AAATTTTGTCATTTTTTAAAAAACATTGGGTTT
320 CATACTCAG-GAAATCGCATCATTTGGTCTATATATTTTCTCATTTTGTAAACAAGTTTTGGTCT
* * * * * * *
11670 TTGAATTATAAACTTATTTGCATGAGAA-T-TTT-TCTCTTAGTTCTTGGACGAACTTTCGAACT
384 TTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTAGCACGAAC-TTCCAAAT
* * * *
11732 T-GTCAAACTTTTACGAGTTCTTTTATAGCTTTGATTCCTTAAAGTATTCAAG-CTGATTCATT-
448 TAGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGAC-GATCCATTC
* * * ** * *
11794 CTTTCGAGCAATATTCTGAACATTCCATACTC-AGGAAATCATATAATTTGGTCTAAATATTTTG
512 CTTT-GAGAAATTTTCTGAACATTCCATGCTCGA-GAAATCGCATCATTTGGTCTAAATAGTTTG
* * ** * * * *
11858 TTATTTTGTAAACAAGTTTTGGGGTTTGAATTGAAAACTTAATTACGTTAGAATTGTTTCTCTCT
575 TCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCT
11923 TGGTTCT
640 TGGTTCT
* * * * * * * * * * *
11930 TGCACGAACTTCCAAACTAGTCAAACTTTTACGACTACCTTAACAACTT-GGGTCCCTTAAGGTG
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTACGACTTCGGGT-ACTTAAAGTT
* ** * * * *
11994 TTCAAGACAATCCATTCCTTTAAGCAATTTTCCGAACATTTCATTCTCGAGAAATCGTATCATTT
65 TTCAAGACGATCCATTCCTTCGAGAAATTTTCTGAACA-TTCATGCTC-AGAAATCGCATCATTT
* * ** * * *
12059 GGCCTTAATAGTTTACCATTTTGTCAACAAGTTTTGGTTTTTGAAATAAAAACTTACTTACATGA
128 GGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTTTTTGAATTAAAAACTTATTTACATGA
** * ** *
12124 GAATTGTTTCTCTCTTGGTTC-TACATGAACTTCAAAACATGTCAAACTTTTACGAGTTCTTTTA
193 GAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTA
* **
12188 TAACTTCGGTT--TTGAAAAGTATTCAAGACGATCCATTCCTTCGAGAAAT-TTTCTGAACATAG
258 TAACTTCGGTTCCTT--AAAGTATTCAAGACGATCCATTCCTTCGAGCAATATTT-TGAACATTC
* * * * * * * * **
12250 CGTGCTCTGGAAATCGCATCATTTAGTTTAAATAGTTTGTCATTTTGT-AACAAGTTTTAAT-TT
320 CATACTCAGGAAATCGCATCATTTGGTCTATATATTTTCTCATTTTGTAAACAAGTTTTGGTCTT
* * * **
12313 TGAATTAAAAACTTATTTACATAAGAATTGTTTCTCTCTTGGTTCTTAG-ATGTACTTCCGCATT
385 TGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTC-TAGCACGAACTTCCAAATT
* * * * * * * * *
12377 GGTGAAACTTTTATGAGATGTTTTAAAACATCGGTTCCTTAAAGTGTTTAAGACGATCCATTCCT
449 AGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT
* * * * * * *
12442 TCGAGAAATTCTCCGAACATTCCTTAC-C-AGTAAATCGCATCATTCGGTTTAAATAGTTTGTCA
514 TTGAGAAATTTTCTGAACATTCCATGCTCGAG-AAATCGCATCATTTGGTCTAAATAGTTTGTCA
* * * * *
12505 GTTTGTAAAAAAAGTTTTAGACTTTGAATTAAAAACTTATTTACATGAGAATTGTCTCTCTTTTG
578 TTTTGT-AAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTG
*
12570 GTTCA
642 GTTCT
* *
12575 TGGACGAACTTTCGCACTTGTCAAACTTTTACGAGTTCTTTTACGACTTCGGGTACTTAAAGTTT
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTACGACTTCGGGTACTTAAAGTTT
* * * ** * * **
12640 TTAGGACGATCCAAACTAGTCAAGCTTTTACGAGTGCCTTCACAA-CTTCTGTCCCTTAAAGTAT
66 TCAAGACGATCC--A-T--TC---C--TT-CGA--G-----A-AATTTTCTGAACATT-CA-TGC
* * *
12704 TCAAGACAATC-CATTCCTTTGAGCAATTTTTCAAACATTTCATGCTCGAGAAATCGCATCATTT
110 TC-AGA-AATCGCA-TCATTTG-G-------TCTAA-A--T-A-G-T-------TTG--TCATTT
* * ** * ** **** * * * * *
12768 GGTCTAAA-TAGTTTACGATTTTGTAAACAAGTTTTGGTCTTTGAAATAAAAACTTACATGAGAA
149 --TGTAAACAAGTTTTGGTTTTTG-AATTAAAAACT--TATTT-ACATGAGAA--T---T--G-T
* * *
12832 TTGTTTCTCTCTTGGTTC-TGCACGAACTT-CGAAACATGTCAAACTTTTACGAGTTCTTTTATA
200 TTCT----CTCTTGGTTCTTGGACGAACTTCCG-AACTTGTCAAACTTTTACGAGTTCTTTTATA
* * *
12895 ACTTCGGTTCCTTAAAGTATCCAAG-CTGATCCATT-CTTCGAAGCAATATTCTGAACATACCAT
260 ACTTCGGTTCCTTAAAGTATTCAAGAC-GATCCATTCCTTCG-AGCAATATTTTGAACATTCCAT
* * * * * * ** *
12958 ATTCAGGAAATCGCATAATTTGGTCTAAATATTTTGTTATTTGGTAAACAAAATTTGGCCTTTGA
323 ACTCAGGAAATCGCATCATTTGGTCTATATATTTTCTCATTTTGTAAACAAGTTTTGGTCTTTGA
* * * * * * * * * * *
13023 ATTATAAACTTAATTACGTTAGAATTGTTTCTCTCTTGGTTCTTGTACGAGCTCCCGAACTAGTA
388 ATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTAGCACGAACTTCCAAATTAGTC
* * * ** * *
13088 AAACTTTTACGAGTTCCTTCACAACTTCTATTCCTTAAAATATTCAAGACAATCCATTCCTTTGA
453 AAACTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGA
* * ** **
13153 GCAATTTT-TCGAACATTTCATGCTCGAGAAATTTCATCATTTGGTCTAAATAGTTTACCATTTT
518 GAAATTTTCT-GAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTT
* * * * * * *
13217 GTAAATAAGTTTTGGTCTTTGAAATAGAAACTTACTTACGTCAGAATTGTTTCTCTCTTGGTTC-
582 GTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCT
* ** * * ** * *
13281 TGCACGAACTTCAAAACATGTCAAACTTTTACAAGTTCTTTTATAACCTT--GAT-TTTGAAAAG
1 TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTACGA-CTTCGGGTACTT--AAAG
* * * * *
13343 TATTGAAGACAATCCATTCCTTCGAGAAATTTTCTGAACATACCATGCTCTGGAAATCGCATCAT
63 TTTTCAAGACGATCCATTCCTTCGAGAAATTTTCTGAACAT-TCATGCTC-AGAAATCGCATCAT
* * ** *
13408 TTTGTTTAAATAGTTTGTCATTTTGT-AACAAGTTTT-AATTTTCAATTAAAAACTTATT
126 TTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTTTTTGAATTAAAAACTTATT
Statistics
Matches: 3262, Mismatches: 645, Indels: 361
0.76 0.15 0.08
Matches are distributed among these distances:
629 16 0.00
630 109 0.03
631 54 0.02
632 248 0.08
633 73 0.02
634 1 0.00
635 33 0.01
636 122 0.04
637 2 0.00
639 1 0.00
640 2 0.00
641 14 0.00
642 290 0.09
643 633 0.19
644 366 0.11
645 416 0.13
646 299 0.09
647 5 0.00
648 2 0.00
650 2 0.00
653 1 0.00
655 2 0.00
656 1 0.00
657 3 0.00
658 1 0.00
659 5 0.00
660 7 0.00
661 7 0.00
662 2 0.00
663 12 0.00
664 9 0.00
665 12 0.00
666 1 0.00
672 1 0.00
673 3 0.00
674 2 0.00
675 1 0.00
676 1 0.00
677 2 0.00
678 4 0.00
679 1 0.00
685 1 0.00
686 10 0.00
687 9 0.00
688 14 0.00
689 11 0.00
690 10 0.00
692 3 0.00
693 7 0.00
695 4 0.00
696 2 0.00
698 2 0.00
700 1 0.00
701 5 0.00
703 1 0.00
704 9 0.00
705 131 0.04
706 64 0.02
707 178 0.05
708 32 0.01
709 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (646 bp):
TGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTACGACTTCGGGTACTTAAAGTTT
TCAAGACGATCCATTCCTTCGAGAAATTTTCTGAACATTCATGCTCAGAAATCGCATCATTTGGT
CTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTTTTTGAATTAAAAACTTATTTACATGAGAA
TTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAA
CTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATATTTTGAACATTCCATACT
CAGGAAATCGCATCATTTGGTCTATATATTTTCTCATTTTGTAAACAAGTTTTGGTCTTTGAATT
AAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTAGCACGAACTTCCAAATTAGTCAAA
CTTTTACGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTTGAGAA
ATTTTCTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAA
ACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCT
Found at i:13095 original size:491 final size:489
Alignment explanation
Indices: 12203--13103 Score: 1065
Period size: 491 Copynumber: 1.8 Consensus size: 489
12193 TCGGTTTTGA
* * *
12203 AAAGTATTCAAGACGATCCATTCCTTCGAGAAATTTTCTGAACATAGCGTGCTCTGGAAATCGCA
1 AAAGTATTCAAGACAATCCATTCCTTCGAGAAATTTTCTAAACATAGCATGCTCTGGAAATCGCA
* * *
12268 TCATTTAGTTTAAATAGTTTGTCATTTTGTAACAAGTTTTAATTTTGAATTAAAAACTTATTTAC
66 TCATTTAGTCTAAATAGTTTGACATTTTGTAACAAGTTTTAATTTTGAAATAAAAAC---TTTAC
* * * * *
12333 ATAAGAATTGTTTCTCTCTTGGTTCTTAGATGTACTTCCGCATTGGTGAAACTTTTATGAGATGT
128 ATAAGAATTGTTTCTCTCTTGGTTCTTAGACGAACTTCCGCATTGGTCAAACTTTTACGAGATCT
* ** *
12398 TTTAAAACATCGGTTCCTTAAAGTGTTTAAGACGATCCATTCCTTCGAGAAATTCTCCGAACATT
193 TTTAAAACATCGGTTCCTTAAAGTATCCAAGACGATCCATTCCTTCGAGAAATTCT-CGAACATA
* * * *
12463 CCTTACCAGTAAATCGCATCATTCGGTTTAAATAGTTTGTCAGTTTGTAAAAAAAGTTTTAGACT
257 CCATACCAGGAAATCGCATAATTCGGTCTAAATAGTTTGTCAGTTTGTAAAAAAAG-TTTAGACT
* * ** *
12528 TTGAATTAAAAACTTATTTACATGAGAATTGTCTCTCTTTTGGTTCATGGACGAACTTTCGCACT
321 TTGAATTAAAAACTTAATTACATGAGAATTGTCTCTCTCTTGGTTCATGGACGAACTCCCGAACT
* *
12593 TGTCAAACTTTTACGAGTTCTTTTACGACTTCGGGTACTTAAAGTTTTTAGGACGATCCAAACTA
386 AGTAAAACTTTTACGAGTTCTTTTACGACTTCGGGTACTTAAAGTTTTTAGGACGATCCAAACTA
12658 GTCAAGCTTTTACGAGTGCCTTCACAACTTCTGTCCCTT
451 GTCAAGCTTTTACGAGTGCCTTCACAACTTCTGTCCCTT
* * **
12697 AAAGTATTCAAGACAATCCATTCCTTTGAGCAATTTT-TCAAACATTTCATGCTC-GAGAAATCG
1 AAAGTATTCAAGACAATCCATTCCTTCGAGAAATTTTCT-AAACATAGCATGCTCTG-GAAATCG
* **
12760 CATCATTTGGTCTAAATAGTTT-ACGATTTTGTAAACAAGTTTTGGTCTTTGAAATAAAAAC-TT
64 CATCATTTAGTCTAAATAGTTTGAC-ATTTTGT-AACAAGTTTTAAT-TTTGAAATAAAAACTTT
*
12823 ACATGAGAATTGTTTCTCTCTTGGTTC-T-GCACGAACTT-CGAAACA-T-GTCAAACTTTTACG
126 ACATAAGAATTGTTTCTCTCTTGGTTCTTAG-ACGAACTTCCG---CATTGGTCAAACTTTTACG
* * *
12883 AGTTCTTTTATAACTTCGGTTCCTTAAAGTATCCAAG-CTGATCCATT-CTTCGAAGCAATATTC
187 AGATCTTTTAAAACATCGGTTCCTTAAAGTATCCAAGAC-GATCCATTCCTTCG-AG-AA-ATTC
* * * *
12946 T-GAACATACCATATTCAGGAAATCGCATAATTTGGTCTAAATATTTTGTTA-TTTGGTAAACAA
248 TCGAACATACCATA-CCAGGAAATCGCATAATTCGGTCTAAATAGTTTGTCAGTTT-GTAAA-AA
* * * * * * * *
13009 AA-TTTGGCCTTTGAATTATAAACTTAATTACGTTAGAATTGTTTCTCTCTTGGTTCTTGTACGA
310 AAGTTTAGACTTTGAATTAAAAACTTAATTACATGAGAATTGTCTCTCTCTTGGTTCATGGACGA
*
13073 GCTCCCGAACTAGTAAAACTTTTACGAGTTC
375 ACTCCCGAACTAGTAAAACTTTTACGAGTTC
13104 CTTCACAACT
Statistics
Matches: 341, Mismatches: 50, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
490 9 0.03
491 149 0.44
492 66 0.19
493 14 0.04
494 79 0.23
495 11 0.03
496 13 0.04
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.38
Consensus pattern (489 bp):
AAAGTATTCAAGACAATCCATTCCTTCGAGAAATTTTCTAAACATAGCATGCTCTGGAAATCGCA
TCATTTAGTCTAAATAGTTTGACATTTTGTAACAAGTTTTAATTTTGAAATAAAAACTTTACATA
AGAATTGTTTCTCTCTTGGTTCTTAGACGAACTTCCGCATTGGTCAAACTTTTACGAGATCTTTT
AAAACATCGGTTCCTTAAAGTATCCAAGACGATCCATTCCTTCGAGAAATTCTCGAACATACCAT
ACCAGGAAATCGCATAATTCGGTCTAAATAGTTTGTCAGTTTGTAAAAAAAGTTTAGACTTTGAA
TTAAAAACTTAATTACATGAGAATTGTCTCTCTCTTGGTTCATGGACGAACTCCCGAACTAGTAA
AACTTTTACGAGTTCTTTTACGACTTCGGGTACTTAAAGTTTTTAGGACGATCCAAACTAGTCAA
GCTTTTACGAGTGCCTTCACAACTTCTGTCCCTT
Found at i:13420 original size:215 final size:214
Alignment explanation
Indices: 12697--13443 Score: 822
Period size: 216 Copynumber: 3.5 Consensus size: 214
12687 TCTGTCCCTT
* * **
12697 AAAGTATTCAAGACAATCCATTCCTTTGAGCAATTTTTCAAACATTTCATGCTCGAGAAATCGCA
1 AAAGTATTCAAGACAATCCATTCCTTCGAGCAATTTTTCGAACATACCATGCTCGAGAAATCGCA
*
12762 TCATTTGGTCTAAATAGTTTACGATTTTGTAAACAAGTTTTGGTCTTTGAAATAAAA---ACTTA
66 TCATTTGGTCTAAATAGTTTACCATTTTGTAAACAAGTTTTGGTCTTTGAAATAAAACTTACTTA
* * *
12824 CATGAGAATTGTTTCTCTCTTGGTTCTGCACGAACTTCGAAACATGTCAAACTTTTACGAGTTCT
131 CGTCAGAATTGTTTCTCTCTTGGTTCTGCACGAACTTCAAAACATGTCAAACTTTTACGAGTTCT
*
12889 TTTATAACTTCGGTTCCTT-
196 TTTATAACTTCGATT-CTTA
* * * **
12908 AAAGTATCCAAG-CTGATCCATT-CTTCGAAGCAA-TATTCTGAACATACCATATTC-AGGAAAT
1 AAAGTATTCAAGAC-AATCCATTCCTTCG-AGCAATTTTTC-GAACATACCATGCTCGA-GAAAT
* * *** * ** * *
12969 CGCATAATTTGGTCTAAATATTTTGTTATTTGGTAAACAAAATTTGGCCTTTGAATTATAAACTT
62 CGCATCATTTGGTCTAAATAGTTTACCATTTTGTAAACAAGTTTTGGTCTTTGAAATA-AAACTT
* * * * * ** *
13034 AATTACGTTAGAATTGTTTCTCTCTTGGTTCTTGTACGAGCTCCCGAAC-TAGTAAAACTTTTAC
126 ACTTACGTCAGAATTGTTTCTCTCTTGGTTC-TGCACGAACTTCAAAACAT-GTCAAACTTTTAC
* * * *
13098 GAGTTCCTTCACAACTTCTATTCCTTA
189 GAGTTCTTTTATAACTTCGATT-CTTA
* ** **
13125 AAA-TATTCAAGACAATCCATTCCTTTGAGCAATTTTTCGAACATTTCATGCTCGAGAAATTTCA
1 AAAGTATTCAAGACAATCCATTCCTTCGAGCAATTTTTCGAACATACCATGCTCGAGAAATCGCA
*
13189 TCATTTGGTCTAAATAGTTTACCATTTTGTAAATAAGTTTTGGTCTTTGAAATAGAAACTTACTT
66 TCATTTGGTCTAAATAGTTTACCATTTTGTAAACAAGTTTTGGTCTTTGAAATA-AAACTTACTT
*
13254 ACGTCAGAATTGTTTCTCTCTTGGTTCTGCACGAACTTCAAAACATGTCAAACTTTTACAAGTTC
130 ACGTCAGAATTGTTTCTCTCTTGGTTCTGCACGAACTTCAAAACATGTCAAACTTTTACGAGTTC
13319 TTTTATAACCTT-GATT-TTGA
195 TTTTATAA-CTTCGATTCTT-A
* *
13339 AAAGTATTGAAGACAATCCATTCCTTCGAG-AAATTTTCTGAACATACCATGCTCTG-GAAATCG
1 AAAGTATTCAAGACAATCCATTCCTTCGAGCAATTTTTC-GAACATACCATGCTC-GAGAAATCG
* * **
13402 CATCATTTTGTTTAAATAGTTTGTCATTTTGT-AACAAGTTTT
64 CATCATTTGGTCTAAATAGTTTACCATTTTGTAAACAAGTTTT
13444 AATTTTCAAT
Statistics
Matches: 435, Mismatches: 80, Indels: 39
0.79 0.14 0.07
Matches are distributed among these distances:
210 10 0.02
211 86 0.20
212 3 0.01
213 2 0.00
214 20 0.05
215 136 0.31
216 165 0.38
217 13 0.03
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (214 bp):
AAAGTATTCAAGACAATCCATTCCTTCGAGCAATTTTTCGAACATACCATGCTCGAGAAATCGCA
TCATTTGGTCTAAATAGTTTACCATTTTGTAAACAAGTTTTGGTCTTTGAAATAAAACTTACTTA
CGTCAGAATTGTTTCTCTCTTGGTTCTGCACGAACTTCAAAACATGTCAAACTTTTACGAGTTCT
TTTATAACTTCGATTCTTA
Done.