Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 284 of 316
Found at i:94125299 original size:8 final size:8
Alignment explanation
Indices: 94125280--94125337 Score: 55
Period size: 8 Copynumber: 7.2 Consensus size: 8
94125270 TTGTGGAAGG
*
94125280 TATGTATA
1 TATGTGTA
*
94125288 TATGTGTT
1 TATGTGTA
94125296 TATGTGTA
1 TATGTGTA
* *
94125304 TAAGTATA
1 TATGTGTA
94125312 TATGTGT-
1 TATGTGTA
94125319 TCATGTGTA
1 T-ATGTGTA
*
94125328 TATGTATA
1 TATGTGTA
94125336 TA
1 TA
94125338 AAGGTGTATG
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
7 1 0.03
8 38 0.95
9 1 0.03
ACGTcount: A:0.29, C:0.02, G:0.19, T:0.50
Consensus pattern (8 bp):
TATGTGTA
Found at i:94125315 original size:24 final size:24
Alignment explanation
Indices: 94125283--94125337 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
94125273 TGGAAGGTAT
*
94125283 GTATATATGTGTTTATGTGTATAA
1 GTATATATGTGTTCATGTGTATAA
*
94125307 GTATATATGTGTTCATGTGTATAT
1 GTATATATGTGTTCATGTGTATAA
94125331 GTATATA
1 GTATATA
94125338 AAGGTGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (24 bp):
GTATATATGTGTTCATGTGTATAA
Found at i:94128730 original size:14 final size:14
Alignment explanation
Indices: 94128711--94128739 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
94128701 CTACTCTCAA
94128711 GTGTGATTTAGATG
1 GTGTGATTTAGATG
94128725 GTGTGATTTAGATG
1 GTGTGATTTAGATG
94128739 G
1 G
94128740 ATTGTGCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (14 bp):
GTGTGATTTAGATG
Found at i:94129661 original size:5 final size:5
Alignment explanation
Indices: 94129651--94129682 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
94129641 TATATTGTGA
94129651 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
94129683 GAACACGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:94141441 original size:12 final size:12
Alignment explanation
Indices: 94141412--94141451 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
94141402 ATTTGCCTAC
94141412 TTATTT-TTTTA
1 TTATTTATTTTA
*
94141423 TCA-TTATTTTA
1 TTATTTATTTTA
94141434 TTATTTATTTTA
1 TTATTTATTTTA
94141446 TTATTT
1 TTATTT
94141452 TCGACAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 2 0.08
11 9 0.36
12 14 0.56
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.75
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:94141559 original size:3 final size:3
Alignment explanation
Indices: 94141553--94141624 Score: 51
Period size: 3 Copynumber: 24.0 Consensus size: 3
94141543 TAGTAGTATG
* **
94141553 ATT ATT ATT GTT ATT ATT ATT ACC ATT GATT AATT -TT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT -ATT ATT ATT ATT ATT
* *
94141599 ATC ATT A-T AGTT A-T ATT ATT AAT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT
94141625 GTACTATCAT
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
2 6 0.11
3 39 0.74
4 8 0.15
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:94163165 original size:12 final size:12
Alignment explanation
Indices: 94163135--94163167 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
94163125 TATATTTTTT
94163135 AAAATT-ATATA
1 AAAATTAATATA
94163146 AAAA-TAATATA
1 AAAATTAATATA
94163157 AAAATTAATAT
1 AAAATTAATAT
94163168 GGGCGGGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:94163809 original size:46 final size:46
Alignment explanation
Indices: 94163756--94163849 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
94163746 TGATACGATC
94163756 ATTGTTGTCAATATAGGACATAAAAGAACATATATGATCAAAACCT
1 ATTGTTGTCAATATAGGACATAAAAGAACATATATGATCAAAACCT
*
94163802 ATTGTTGTCAATATAGGACATAAAAGAATATATATGATCAAAACCT
1 ATTGTTGTCAATATAGGACATAAAAGAACATATATGATCAAAACCT
94163848 AT
1 AT
94163850 ATTGATATTA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.30
Consensus pattern (46 bp):
ATTGTTGTCAATATAGGACATAAAAGAACATATATGATCAAAACCT
Found at i:94167985 original size:31 final size:30
Alignment explanation
Indices: 94167921--94167986 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
94167911 AAATTAATAT
* *
94167921 TTCATGTATAAAATTATACAAAACTGAAAA
1 TTCATGTATAAAATTACACAAAACTAAAAA
*
94167951 TTCATGTATAAATTTACACATTAAAC-AAAAA
1 TTCATGTATAAAATTACACA--AAACTAAAAA
94167982 TTCAT
1 TTCAT
94167987 AAATAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 18 0.58
31 9 0.29
32 4 0.13
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (30 bp):
TTCATGTATAAAATTACACAAAACTAAAAA
Found at i:94168100 original size:15 final size:15
Alignment explanation
Indices: 94168074--94168111 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
94168064 CCTCATGATT
94168074 TTAATG-AAATATGA
1 TTAATGTAAATATGA
94168088 TTAATGTAAATATGA
1 TTAATGTAAATATGA
94168103 TTAATGTAA
1 TTAATGTAA
94168112 CAATTTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.39
Consensus pattern (15 bp):
TTAATGTAAATATGA
Found at i:94169146 original size:25 final size:27
Alignment explanation
Indices: 94169091--94169142 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 27
94169081 TTATTATAGT
*
94169091 ATTTTTAATATAAATATAGATTTAATT
1 ATTTTTAATATAAATATAGATTTAATA
*
94169118 ATTTTTAA-AT-AAT-TAGATTTTATA
1 ATTTTTAATATAAATATAGATTTAATA
94169142 A
1 A
94169143 ATTTGGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 10 0.43
25 3 0.13
26 2 0.09
27 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (27 bp):
ATTTTTAATATAAATATAGATTTAATA
Found at i:94170944 original size:16 final size:17
Alignment explanation
Indices: 94170923--94170956 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
94170913 ATTCCATGTT
94170923 GAATTAAATTG-AATGA
1 GAATTAAATTGAAATGA
*
94170939 GAATTATATTGAAATGA
1 GAATTAAATTGAAATGA
94170956 G
1 G
94170957 TTAAATTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (17 bp):
GAATTAAATTGAAATGA
Found at i:94172034 original size:29 final size:30
Alignment explanation
Indices: 94171975--94172032 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
94171965 TCCGAGCCTT
*
94171975 GGGGCAAAAATGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
94172005 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
94172033 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:94172262 original size:13 final size:13
Alignment explanation
Indices: 94172244--94172275 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
94172234 TTTCCAGCAA
94172244 TTATGAATTTATT
1 TTATGAATTTATT
94172257 TTATGAATTTATT
1 TTATGAATTTATT
*
94172270 TGATGA
1 TTATGA
94172276 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:94172482 original size:50 final size:51
Alignment explanation
Indices: 94172370--94172611 Score: 301
Period size: 50 Copynumber: 4.7 Consensus size: 51
94172360 ATTTGGGTAA
* *
94172370 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC----GATCACG
* *
94172426 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATCACG
* * * *
94172476 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-GATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATCACG
* *
94172526 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATCACG
**
94172576 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
94172612 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 93 0.56
51 31 0.19
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.25, G:0.29, T:0.19
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATCACG
Found at i:94172561 original size:100 final size:103
Alignment explanation
Indices: 94172370--94172619 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
94172360 ATTTGGGTAA
94172370 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCACGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TAAGAT--CGAGAGGTCCC
* *
94172435 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
94172476 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGAT-GAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATCGAGAGGTCCCCTA
94172538 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
94172576 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
94172620 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 49 0.37
101 37 0.28
103 4 0.03
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATCGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:94179627 original size:29 final size:30
Alignment explanation
Indices: 94179568--94179625 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
94179558 TCCGAGCCTT
*
94179568 GGGGCAAAAATGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
94179598 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
94179626 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:94179855 original size:13 final size:13
Alignment explanation
Indices: 94179837--94179868 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
94179827 TTTCCAGCAA
94179837 TTATGAATTTATT
1 TTATGAATTTATT
94179850 TTATGAATTTATT
1 TTATGAATTTATT
*
94179863 TGATGA
1 TTATGA
94179869 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:94180075 original size:50 final size:51
Alignment explanation
Indices: 94179963--94180204 Score: 292
Period size: 50 Copynumber: 4.7 Consensus size: 51
94179953 ATTTGGGTAA
* *
94179963 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC----GATCACG
* *
94180019 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATCACG
* * * *
94180069 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-GATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATCACG
* * *
94180119 AGAGGTCCCCTATAAGGCCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATCACG
**
94180169 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
94180205 TTTGGCATGT
Statistics
Matches: 164, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.56
51 30 0.18
55 2 0.01
56 39 0.24
ACGTcount: A:0.26, C:0.25, G:0.30, T:0.19
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATCACG
Found at i:94180159 original size:100 final size:103
Alignment explanation
Indices: 94179963--94180212 Score: 355
Period size: 100 Copynumber: 2.4 Consensus size: 103
94179953 ATTTGGGTAA
94179963 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCACGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TAAGAT--CGAGAGGTCCC
* *
94180028 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
94180069 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAGAT-GAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATCGAGAGGTCCCCTA
*
94180131 TAAGGCCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
94180169 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
94180213 GTTATTATCA
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 48 0.36
101 37 0.28
103 4 0.03
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.30, T:0.20
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTAAGATCGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:94181732 original size:25 final size:25
Alignment explanation
Indices: 94181632--94181747 Score: 101
Period size: 25 Copynumber: 4.6 Consensus size: 25
94181622 GCAGACACAC
*
94181632 CACAGCTCGTATGAGCTTACCGATT
1 CACAGCTCATATGAGCTTACCGATT
** * *
94181657 TGCATCTCATGA-GAGCTTACCAATT
1 CACAGCTCAT-ATGAGCTTACCGATT
* *
94181682 CTCAGCTTATATGAGCTTACCGATT
1 CACAGCTCATATGAGCTTACCGATT
* *
94181707 CACAGCTCGTGA-GAGCATACCGATT
1 CACAGCTCAT-ATGAGCTTACCGATT
* *
94181732 CATAGCTCTTATGAGC
1 CACAGCTCATATGAGC
94181748 ATACATATAC
Statistics
Matches: 71, Mismatches: 16, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
24 2 0.03
25 67 0.94
26 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (25 bp):
CACAGCTCATATGAGCTTACCGATT
Found at i:94181745 original size:50 final size:50
Alignment explanation
Indices: 94181634--94181747 Score: 133
Period size: 50 Copynumber: 2.3 Consensus size: 50
94181624 AGACACACCA
* ** * *
94181634 CAGCTCGTATGAGCTTACCGATTTGCATCTCATGAGAGCTTACCAATTCT
1 CAGCTCTTATGAGCTTACCGATTCACAGCTCATGAGAGCATACCAATTCT
* *
94181684 CAGCT-TATATGAGCTTACCGATTCACAGCTCGTGAGAGCATACCGATTCAT
1 CAGCTCT-TATGAGCTTACCGATTCACAGCTCATGAGAGCATACCAATTC-T
94181735 -AGCTCTTATGAGC
1 CAGCTCTTATGAGC
94181748 ATACATATAC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
50 52 0.96
51 2 0.04
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (50 bp):
CAGCTCTTATGAGCTTACCGATTCACAGCTCATGAGAGCATACCAATTCT
Found at i:94187790 original size:168 final size:168
Alignment explanation
Indices: 94187506--94187823 Score: 519
Period size: 168 Copynumber: 1.9 Consensus size: 168
94187496 ACGTGCACAA
* * *
94187506 AATAAATAAAATATATAGGATGTGACATTGGACACACGACTATGTACCTCCAACTTACACGACTC
1 AATAAATAAAATATATAGGAAGTGACACTGGACACACGACCATGTACCTCCAACTTACACGACTC
* * * *
94187571 TAGTTTGTTATACAGTCTAGGACATGACCGTGTCACTTATGTTACGAATTTTACATTTAGGTCCA
66 CAGTTAGTTACACAGTCTAGGACATGACCGTGTAACTTATGTTACGAATTTTACATTTAGGTCCA
*
94187636 CACATCTACAGTCTATTACATAACCGTGTAACTCTTTT
131 CACAGCTACAGTCTATTACATAACCGTGTAACTCTTTT
* *
94187674 AATAAATAAAATATATGGGAAGTGACACTGGACACACGACCATGTACCTCCAACTTATACGACTC
1 AATAAATAAAATATATAGGAAGTGACACTGGACACACGACCATGTACCTCCAACTTACACGACTC
* *
94187739 CAGTTAGTTACACAGTTTAGGACATGACCGTGTAACTTATGTTAGGAATTTTACATTTAGGTCCA
66 CAGTTAGTTACACAGTCTAGGACATGACCGTGTAACTTATGTTACGAATTTTACATTTAGGTCCA
*
94187804 CACAGCTACAGTCTGTTACA
131 CACAGCTACAGTCTATTACA
94187824 CAGCTATGTA
Statistics
Matches: 137, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
168 137 1.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.31
Consensus pattern (168 bp):
AATAAATAAAATATATAGGAAGTGACACTGGACACACGACCATGTACCTCCAACTTACACGACTC
CAGTTAGTTACACAGTCTAGGACATGACCGTGTAACTTATGTTACGAATTTTACATTTAGGTCCA
CACAGCTACAGTCTATTACATAACCGTGTAACTCTTTT
Found at i:94189424 original size:36 final size:36
Alignment explanation
Indices: 94189352--94189430 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
94189342 AGCACCAGTT
* * *
94189352 AGTATATCAGTGGATAACTCTCATTTGAGCTTATTC
1 AGTATATCAGTGGATAACGCTCATCTGAACTTATTC
* *
94189388 AGTATATCGGTGGATATCGCTC-TCTGAACTTCATTC
1 AGTATATCAGTGGATAACGCTCATCTGAACTT-ATTC
*
94189424 ATTATAT
1 AGTATAT
94189431 GTAGTATAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
35 7 0.19
36 29 0.81
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.39
Consensus pattern (36 bp):
AGTATATCAGTGGATAACGCTCATCTGAACTTATTC
Found at i:94192132 original size:20 final size:20
Alignment explanation
Indices: 94192104--94192141 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
94192094 GGTGATTTAA
94192104 ACGGAAAATCCAAAATTACT
1 ACGGAAAATCCAAAATTACT
* *
94192124 ACGGTAAATCTAAAATTA
1 ACGGAAAATCCAAAATTA
94192142 TGTAATATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.24
Consensus pattern (20 bp):
ACGGAAAATCCAAAATTACT
Found at i:94193206 original size:30 final size:30
Alignment explanation
Indices: 94193140--94193219 Score: 83
Period size: 30 Copynumber: 2.6 Consensus size: 30
94193130 AAATTAAGAT
*
94193140 ATATAAAATTATTTAAATAATTATGTTGTA
1 ATATAAAATTATATAAATAATTATGTTGTA
* *
94193170 ATATAAAATTATATAATTATGTTATGATT-TA
1 ATATAAAATTATATAAATA-ATTATG-TTGTA
94193201 A-ATAAAATTACTTATAAAT
1 ATATAAAATTA--TATAAAT
94193220 TCGTGTTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
30 26 0.62
31 8 0.19
32 8 0.19
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (30 bp):
ATATAAAATTATATAAATAATTATGTTGTA
Found at i:94210474 original size:21 final size:21
Alignment explanation
Indices: 94210448--94210488 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94210438 AGACGAGCAA
* *
94210448 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
94210469 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
94210489 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:94217821 original size:23 final size:23
Alignment explanation
Indices: 94217770--94217821 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
94217760 TTAGATTATT
94217770 AAAT-TTTAAAATAAAATAATAA
1 AAATATTTAAAATAAAATAATAA
* *
94217792 AATTATTTAAAAT-TAATAATAA
1 AAATATTTAAAATAAAATAATAA
94217814 ATAATATT
1 A-AATATT
94217822 GCAGATTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 12 0.48
23 13 0.52
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
AAATATTTAAAATAAAATAATAA
Found at i:94225860 original size:45 final size:45
Alignment explanation
Indices: 94225775--94225861 Score: 120
Period size: 45 Copynumber: 1.9 Consensus size: 45
94225765 AATTGCATCC
* * * *
94225775 CTATTAAATGGTTGATTTTCAGTATCTGTAATGAATTGCAGTGTT
1 CTATTAAATGGTTGATCTTCAGTATCAGTAACGAAATGCAGTGTT
* *
94225820 CTATTAAATGGTTGGTCTTCAGTATGAGTAACGAAATGCAGT
1 CTATTAAATGGTTGATCTTCAGTATCAGTAACGAAATGCAGT
94225862 TGTCAATAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (45 bp):
CTATTAAATGGTTGATCTTCAGTATCAGTAACGAAATGCAGTGTT
Found at i:94236707 original size:23 final size:23
Alignment explanation
Indices: 94236679--94236736 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
94236669 TTCATGTGCA
94236679 CAAGTGATAGTGGCACTTCGATG
1 CAAGTGATAGTGGCACTTCGATG
* **
94236702 CAAGTGATAGGGGCACTTCTTTG
1 CAAGTGATAGTGGCACTTCGATG
*
94236725 CAAGTGACAGTG
1 CAAGTGATAGTG
94236737 ACACCTTGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (23 bp):
CAAGTGATAGTGGCACTTCGATG
Found at i:94236749 original size:23 final size:23
Alignment explanation
Indices: 94236723--94236773 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
94236713 GGCACTTCTT
*
94236723 TGCAAGTGACAGTGACACCTTGG
1 TGCAAGTGACAATGACACCTTGG
* *
94236746 TGCATGTGACAATGACACTTTGG
1 TGCAAGTGACAATGACACCTTGG
94236769 TGCAA
1 TGCAA
94236774 ATTATTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.25
Consensus pattern (23 bp):
TGCAAGTGACAATGACACCTTGG
Found at i:94244652 original size:24 final size:24
Alignment explanation
Indices: 94244625--94244674 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
94244615 CTATCTTCTC
*
94244625 ACTATATCAATAACAATTTCATGA
1 ACTATATCAATAACAATTCCATGA
*
94244649 ACTATATCAATAACCATTCCATGA
1 ACTATATCAATAACAATTCCATGA
94244673 AC
1 AC
94244675 CCATTGGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.30
Consensus pattern (24 bp):
ACTATATCAATAACAATTCCATGA
Found at i:94245429 original size:17 final size:17
Alignment explanation
Indices: 94245409--94245464 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
94245399 TGCCTCAAAT
94245409 CCAATTTTAATCCCTAA
1 CCAATTTTAATCCCTAA
* *
94245426 CCAACTTT--TGCCTAAAA
1 CCAATTTTAATCCCT--AA
94245443 TCCAATTTTAATCCCTAA
1 -CCAATTTTAATCCCTAA
94245461 CCAA
1 CCAA
94245465 AACTAACTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
15 4 0.13
17 13 0.43
18 9 0.30
20 4 0.13
ACGTcount: A:0.36, C:0.30, G:0.02, T:0.32
Consensus pattern (17 bp):
CCAATTTTAATCCCTAA
Found at i:94245444 original size:35 final size:35
Alignment explanation
Indices: 94245393--94245464 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
94245383 ATTTATACTT
*
94245393 AACTTTTGCCTCAAATCCAATTTTAATCCCTAACC
1 AACTTTTGCCTAAAATCCAATTTTAATCCCTAACC
94245428 AACTTTTGCCTAAAATCCAATTTTAATCCCTAACC
1 AACTTTTGCCTAAAATCCAATTTTAATCCCTAACC
94245463 AA
1 AA
94245465 AACTAACTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (35 bp):
AACTTTTGCCTAAAATCCAATTTTAATCCCTAACC
Found at i:94249668 original size:35 final size:35
Alignment explanation
Indices: 94249617--94249704 Score: 122
Period size: 35 Copynumber: 2.5 Consensus size: 35
94249607 TACACAGTTA
* * *
94249617 ACCATCCAGCACACCAGATGTTCATAAGAGCTAGT
1 ACCACCCAGCACACCAGATGCTCATAAGAGCCAGT
*
94249652 GCCACCCAGCACACCAGATGCTCATAAGAGCCAGT
1 ACCACCCAGCACACCAGATGCTCATAAGAGCCAGT
* *
94249687 ACCATCCAGTACACCAGA
1 ACCACCCAGCACACCAGA
94249705 AACACTGTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 46 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (35 bp):
ACCACCCAGCACACCAGATGCTCATAAGAGCCAGT
Found at i:94251989 original size:51 final size:50
Alignment explanation
Indices: 94251929--94252032 Score: 172
Period size: 51 Copynumber: 2.1 Consensus size: 50
94251919 TTCTGGCACT
*
94251929 CAAGCAACATGCTTCGGAATTAGGCCTTATTTCTGTTGAAACTAAAAAAGG
1 CAAGCAACATGCTTCCGAATTAGGCCTTATTTCTGTTGAAACT-AAAAAGG
* *
94251980 CAAGCAACATGCTTCCGAATTAGGCCTTATTTCTGTTGGAACTAAGAAGG
1 CAAGCAACATGCTTCCGAATTAGGCCTTATTTCTGTTGAAACTAAAAAGG
94252030 CAA
1 CAA
94252033 ATTAAGGACT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
50 9 0.18
51 41 0.82
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (50 bp):
CAAGCAACATGCTTCCGAATTAGGCCTTATTTCTGTTGAAACTAAAAAGG
Found at i:94258294 original size:53 final size:53
Alignment explanation
Indices: 94258231--94258336 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
94258221 TGCGTTGCGC
*
94258231 TATCATTCTATTGAGTAACGATAATTAATTGATAAGTGATCAAAATATTATAA
1 TATCATTCTATTGAATAACGATAATTAATTGATAAGTGATCAAAATATTATAA
94258284 TATCATTCTATTGAATAACGATAATTAATTGATAAGTGATCAAAATATTATAA
1 TATCATTCTATTGAATAACGATAATTAATTGATAAGTGATCAAAATATTATAA
94258337 CATGATAATT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (53 bp):
TATCATTCTATTGAATAACGATAATTAATTGATAAGTGATCAAAATATTATAA
Found at i:94258913 original size:20 final size:22
Alignment explanation
Indices: 94258888--94258928 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
94258878 TAATATAAAA
94258888 AATTA-TT-TAATTTTTATAAC
1 AATTATTTGTAATTTTTATAAC
94258908 AATTATTTGTAATTTTTATAA
1 AATTATTTGTAATTTTTATAA
94258929 TACATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 12 0.63
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
AATTATTTGTAATTTTTATAAC
Found at i:94262996 original size:27 final size:28
Alignment explanation
Indices: 94262966--94263024 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
94262956 TGACAAATCT
*
94262966 AATA-TTTTTTAATATG-TTTATAAAGGA
1 AATATTTTTTTAA-ATGTTTTATAAAGAA
*
94262993 AATATTTTTTTGAATGTTTTATAAAGAA
1 AATATTTTTTTAAATGTTTTATAAAGAA
94263021 AATA
1 AATA
94263025 ATTACTTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 7 0.25
28 21 0.75
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.47
Consensus pattern (28 bp):
AATATTTTTTTAAATGTTTTATAAAGAA
Found at i:94263620 original size:36 final size:34
Alignment explanation
Indices: 94263570--94263648 Score: 88
Period size: 36 Copynumber: 2.3 Consensus size: 34
94263560 AATGGTAAGA
* * *
94263570 ATATTTCTTATTATATTTTAATGTTGTATAATTTT-T
1 ATATTTTTTATTATATTTAAAT-TT-AAT-ATTTTGT
*
94263606 ATATTTTTTGTTATATTTAAATTTAATATTTTGT
1 ATATTTTTTATTATATTTAAATTTAATATTTTGT
94263640 ATATTTTTT
1 ATATTTTTT
94263649 CCTTGAATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 5 0.13
34 12 0.32
35 2 0.05
36 19 0.50
ACGTcount: A:0.28, C:0.01, G:0.05, T:0.66
Consensus pattern (34 bp):
ATATTTTTTATTATATTTAAATTTAATATTTTGT
Found at i:94265593 original size:23 final size:23
Alignment explanation
Indices: 94265563--94265608 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
94265553 ACCGTCGACC
* *
94265563 ACCCTAATGTGGGCACATTCTAA
1 ACCCTAATGTAGACACATTCTAA
94265586 ACCCTAATGTAGACACATTCTAA
1 ACCCTAATGTAGACACATTCTAA
94265609 CATATGATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (23 bp):
ACCCTAATGTAGACACATTCTAA
Found at i:94278013 original size:99 final size:99
Alignment explanation
Indices: 94277842--94278040 Score: 380
Period size: 99 Copynumber: 2.0 Consensus size: 99
94277832 CCCTGTTGGA
* *
94277842 ACTTCATATGACGGTCCATTTGCCTATATGCCATATATACATAGAAGCAATCATTAAATGTTGAG
1 ACTTCATATGACGGTCCATTTGCCTACATGCCATACATACATAGAAGCAATCATTAAATGTTGAG
94277907 AGAAGAAAACAATTTATACCCACAAATGAAATAT
66 AGAAGAAAACAATTTATACCCACAAATGAAATAT
94277941 ACTTCATATGACGGTCCATTTGCCTACATGCCATACATACATAGAAGCAATCATTAAATGTTGAG
1 ACTTCATATGACGGTCCATTTGCCTACATGCCATACATACATAGAAGCAATCATTAAATGTTGAG
94278006 AGAAGAAAACAATTTATACCCACAAATGAAATAT
66 AGAAGAAAACAATTTATACCCACAAATGAAATAT
94278040 A
1 A
94278041 TTAATATACC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.27
Consensus pattern (99 bp):
ACTTCATATGACGGTCCATTTGCCTACATGCCATACATACATAGAAGCAATCATTAAATGTTGAG
AGAAGAAAACAATTTATACCCACAAATGAAATAT
Found at i:94286604 original size:67 final size:67
Alignment explanation
Indices: 94286496--94286634 Score: 271
Period size: 67 Copynumber: 2.1 Consensus size: 67
94286486 AAGCCAGTCG
94286496 CACATTGCCTTTTGTATCCACAATAGCTCATCGTGGTTAAGTACATTTTCCAACTCATTATGAAT
1 CACATTGCCTTTTGTATCCACAATAGCTCATCGTGGTTAAGTACATTTTCCAACTCATTATGAAT
94286561 GT
66 GT
94286563 CACATTGCCTTTTGTATCCACAATAGCTCATCGTGGTTAAGTACATTTTCCAACTCATTATGAAT
1 CACATTGCCTTTTGTATCCACAATAGCTCATCGTGGTTAAGTACATTTTCCAACTCATTATGAAT
94286628 GT
66 GT
94286630 C-CATT
1 CACATT
94286635 TCTTGTTTGA
Statistics
Matches: 72, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 4 0.06
67 68 0.94
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (67 bp):
CACATTGCCTTTTGTATCCACAATAGCTCATCGTGGTTAAGTACATTTTCCAACTCATTATGAAT
GT
Found at i:94287957 original size:41 final size:41
Alignment explanation
Indices: 94287912--94287998 Score: 108
Period size: 41 Copynumber: 2.1 Consensus size: 41
94287902 ACTTAGAAAC
*
94287912 AATAATATTA-ATAATAATGATGATAATAATAAT-AT-AAATAA
1 AATAATATTATATAA-AAAGAT-ATAA-AATAATGATAAAATAA
*
94287953 AATAATATTATATAAAAAGATATAAATTAATGATAAAATAA
1 AATAATATTATATAAAAAGATATAAAATAATGATAAAATAA
94287994 AATAA
1 AATAA
94287999 ATGTGTATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
39 5 0.12
40 6 0.15
41 26 0.63
42 4 0.10
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (41 bp):
AATAATATTATATAAAAAGATATAAAATAATGATAAAATAA
Found at i:94287998 original size:21 final size:20
Alignment explanation
Indices: 94287941--94288000 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
94287931 ATGATAATAA
94287941 TAATAT-AAATAAAATAATAT
1 TAATATAAAATAAAATAA-AT
*
94287961 T-ATATAAAA-AGATATAAAT
1 TAATATAAAATA-AAATAAAT
94287980 TAATGATAAAATAAAATAAAT
1 TAAT-ATAAAATAAAATAAAT
94288001 GTGTATAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
19 8 0.24
20 11 0.33
21 13 0.39
22 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
TAATATAAAATAAAATAAAT
Found at i:94290148 original size:2 final size:2
Alignment explanation
Indices: 94290141--94290173 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
94290131 TTTAAGAATG
*
94290141 TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
94290174 CTTATTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:94291065 original size:132 final size:131
Alignment explanation
Indices: 94290886--94291393 Score: 453
Period size: 132 Copynumber: 3.8 Consensus size: 131
94290876 AACGAAGGTG
** * * * * * * *
94290886 ATATTCGATACTTGGTAATTCGAGGAATCGTGCCCTAACATGTTGGGTTGCAATTTCTCGTTCGC
1 ATATTCGATGTTTGGCAATTCG-GGAATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGT
** ** *
94290951 TCAAAGTAATCGAAGGTCCCTTCAAAATTTCACTCATGTCTTCTAAAAAACCCTTTAAAACAAAG
65 TCAAAACAATCGAAAATCCCTTCAAAATTTCACTCATGTTTTCTAAAAAACCCTTTAAAACAAA-
94291016 GCA
129 GCA
* * * **
94291019 ATACTCGGTGTTTGACAATTCGGGAATCATGCCCTATCGTGCTGGGTTGTGATTTCTCGTTTGTT
1 ATATTCGATGTTTGGCAATTCGGGAATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTT
* * * *** * *
94291084 CAAAACAATCGAATATTCCTTTATGTTTTCACTCATGTTTTTTTAGAAAACCCTTTAAAACAAAA
66 CAAAACAATCGAAAATCCCTTCAAAATTTCACTCATG-TTTTCTAAAAAACCCTTTAAAAC-AAA
*
94291149 GCG
129 GCA
* * * ** * *
94291152 ATATTCGATGTTTGGCAATTCGAGAATCGTGTCCTATCGTGCTGGGTTGCGCTTTTTCATTTGTT
1 ATATTCGATGTTTGGCAATTCGGGAATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTT
* ** * * *
94291217 CAAAACGATCGAAAATCCCTTCGGAATTTCACTCACGTTTTCT-AAAAACTCTTTAAAATGAAAG
66 CAAAACAATCGAAAATCCCTTCAAAATTTCACTCATGTTTTCTAAAAAACCCTTTAAAA-CAAAG
*
94291281 AA
130 CA
* * *
94291283 ATGTTCGATGTTTGGCAATTCGGGGAAT-AGTGTCCTATCGTGCTGGGTTGCAATTTCCCGTTTG
1 ATATTCGATGTTTGGCAATTC-GGGAATCA-TGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTG
* * * * ** * * *
94291347 TTTAAAATAATCGAATATCTCTTCGGAATTTTACTCGTATTTTCTAA
64 TTCAAAACAATCGAAAATCCCTTCAAAATTTCACTCATGTTTTCTAA
94291394 GGTGAGGCAA
Statistics
Matches: 300, Mismatches: 69, Indels: 12
0.79 0.18 0.03
Matches are distributed among these distances:
131 37 0.12
132 138 0.46
133 122 0.41
134 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (131 bp):
ATATTCGATGTTTGGCAATTCGGGAATCATGCCCTATCGTGCTGGGTTGCAATTTCTCGTTTGTT
CAAAACAATCGAAAATCCCTTCAAAATTTCACTCATGTTTTCTAAAAAACCCTTTAAAACAAAGC
A
Found at i:94324637 original size:63 final size:64
Alignment explanation
Indices: 94324524--94324651 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 64
94324514 CTCGTACTCT
94324524 GTTACGGTCATATGACTCTGTTTCAAATTCTAAAATTCTTTTCATTTCTGGTCGATAAATCTCG
1 GTTACGGTCATATGACTCTGTTTCAAATTCTAAAATTCTTTTCATTTCTGGTCGATAAATCTCG
94324588 GTTACGGTCATATGACTCTGTTTC-AATTCTAAAATTCTTTTCATTTCTGGTCGATAAATCTCG
1 GTTACGGTCATATGACTCTGTTTCAAATTCTAAAATTCTTTTCATTTCTGGTCGATAAATCTCG
94324651 G
1 G
94324652 GCTGATGTAT
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
63 40 0.62
64 24 0.38
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (64 bp):
GTTACGGTCATATGACTCTGTTTCAAATTCTAAAATTCTTTTCATTTCTGGTCGATAAATCTCG
Found at i:94326848 original size:16 final size:16
Alignment explanation
Indices: 94326807--94326849 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
94326797 TTTATTCACC
94326807 GGTACTAAGCCTGCTA
1 GGTACTAAGCCTGCTA
*
94326823 GGCACTAAGCCTGCTA
1 GGTACTAAGCCTGCTA
*
94326839 GGTACAAAGCC
1 GGTACTAAGCC
94326850 CGATCAAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (16 bp):
GGTACTAAGCCTGCTA
Found at i:94328706 original size:39 final size:39
Alignment explanation
Indices: 94328652--94328847 Score: 329
Period size: 39 Copynumber: 5.0 Consensus size: 39
94328642 CAAGACACTA
*
94328652 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
94328691 GAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
94328730 AAAATGTATCCGGGCTAAAGTCCCGCATGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
94328769 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * *
94328808 GAAATGTATCCGGGCTAAAGTCCCGTAGGTTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
94328847 G
1 G
94328848 TAATATAATT
Statistics
Matches: 147, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 147 1.00
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:94334875 original size:19 final size:20
Alignment explanation
Indices: 94334840--94334877 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
94334830 TAATTTAATA
94334840 ATAATTAAATTAAATTTTTT
1 ATAATTAAATTAAATTTTTT
*
94334860 ATAATT-AATTAGATTTTT
1 ATAATTAAATTAAATTTTT
94334878 ATTATTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATAATTAAATTAAATTTTTT
Found at i:94336022 original size:33 final size:33
Alignment explanation
Indices: 94335985--94336056 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
94335975 TGAACCAATT
* *
94335985 AAAAAATCAATTGAATTGGCAGTTGAATCGACCA
1 AAAAAAT-AATTGAACTGGCAGTTGAACCGACCA
* * *
94336019 AAAAAATGATTGAACTGGCGGTTGAACCGACTA
1 AAAAAATAATTGAACTGGCAGTTGAACCGACCA
94336052 AAAAA
1 AAAAA
94336057 TGATTAAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
33 26 0.79
34 7 0.21
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (33 bp):
AAAAAATAATTGAACTGGCAGTTGAACCGACCA
Found at i:94340166 original size:12 final size:12
Alignment explanation
Indices: 94340144--94340182 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
94340134 CCATACAGAT
*
94340144 AATATAAAATTA
1 AATAAAAAATTA
* *
94340156 TATGAAAAATTA
1 AATAAAAAATTA
94340168 AATAAAAAATTA
1 AATAAAAAATTA
94340180 AAT
1 AAT
94340183 TAAATTAAAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (12 bp):
AATAAAAAATTA
Found at i:94347912 original size:12 final size:12
Alignment explanation
Indices: 94347895--94347927 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
94347885 CGTCCCGTCG
94347895 ATATTAATTTTT
1 ATATTAATTTTT
94347907 ATATT-ATTTTT
1 ATATTAATTTTT
94347918 ATA-TAATTTT
1 ATATTAATTTT
94347928 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:94349435 original size:32 final size:32
Alignment explanation
Indices: 94349399--94349462 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
94349389 GATCGTGCAA
*
94349399 AATCTTATAAATATGTCAGTATGAGATCAAAT
1 AATCTTATAAATATGTCAATATGAGATCAAAT
94349431 AATCTTATAAATATGTCAATATGAGATCAAAT
1 AATCTTATAAATATGTCAATATGAGATCAAAT
94349463 TTAACTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (32 bp):
AATCTTATAAATATGTCAATATGAGATCAAAT
Found at i:94353126 original size:35 final size:35
Alignment explanation
Indices: 94353070--94353206 Score: 204
Period size: 35 Copynumber: 3.9 Consensus size: 35
94353060 ACGATTCACC
* *
94353070 ACTCGGTATGGGA-AATGCCATACCTACATTTCTTA
1 ACTCGGTAT-GGATAATACCATACCTACATTTCTCA
* *
94353105 ACTCAGTATGGATAATACCATACCTATATTTCTCA
1 ACTCGGTATGGATAATACCATACCTACATTTCTCA
* *
94353140 ACTCGGTATGGATGATACCATACCTACATTTCACA
1 ACTCGGTATGGATAATACCATACCTACATTTCTCA
94353175 ACTCGGTATGGATAATACCATACCTACATTTC
1 ACTCGGTATGGATAATACCATACCTACATTTC
94353207 GCACTTTGCC
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
34 3 0.03
35 89 0.97
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (35 bp):
ACTCGGTATGGATAATACCATACCTACATTTCTCA
Found at i:94353221 original size:70 final size:70
Alignment explanation
Indices: 94353087--94353222 Score: 184
Period size: 70 Copynumber: 1.9 Consensus size: 70
94353077 ATGGGAAATG
** * * **
94353087 CCATACCTACATTTCTTAACTCAGTATGGATAATACCATACCTATATTTCTCAACTCGGTATGGA
1 CCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCGCAACTCGCCATGGA
94353152 TGATA
66 TGATA
* *
94353157 CCATACCTACATTTCACAACTCGGTATGGATAATACCATACCTACATTTCGC-ACTTTGCCATGG
1 CCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCGCAAC-TCGCCATGG
94353221 AT
65 AT
94353223 CAACCATTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
69 2 0.04
70 55 0.96
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (70 bp):
CCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCGCAACTCGCCATGGA
TGATA
Found at i:94355974 original size:14 final size:15
Alignment explanation
Indices: 94355955--94355991 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
94355945 ATAATTTAAA
94355955 ATATAATAATAAT-G
1 ATATAATAATAATAG
94355969 ATATAAT-ATAATAG
1 ATATAATAATAATAG
*
94355983 TTATAATAA
1 ATATAATAA
94355992 AAAAAGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 14 0.70
15 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
ATATAATAATAATAG
Found at i:94356936 original size:6 final size:6
Alignment explanation
Indices: 94356927--94356952 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
94356917 CTTGACTATG
94356927 ACTGTT ACTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT AC
94356953 CCTACGGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (6 bp):
ACTGTT
Found at i:94361631 original size:111 final size:111
Alignment explanation
Indices: 94361437--94361669 Score: 396
Period size: 111 Copynumber: 2.1 Consensus size: 111
94361427 TAAAGTCTTA
*
94361437 AAAATGTTTAATGAGATTTTCAATAAAATTTCTACAAAATAACTTAAAGGTAAACATATAAAATT
1 AAAATGTTTAATGAGATTTTCAATAAAATTTCTACAAAATAACTTAAAAGTAAACATATAAAATT
* *
94361502 TATCTTAAATATTGTTATACTTTAATAAATTAAAATTAATAATATC
66 TATCTTAAATATCGTTATACTTTAATAAATTAAAACTAATAATATC
* * *
94361548 AAAATGTTTAATGAGATTTTCAATAAAATTTCTGCAAAATGACTTAAAAGTAACCATATAAAATT
1 AAAATGTTTAATGAGATTTTCAATAAAATTTCTACAAAATAACTTAAAAGTAAACATATAAAATT
*
94361613 TATCTTAAATATCGTTATACTTTTATAAATTAAAACTAATAATATC
66 TATCTTAAATATCGTTATACTTTAATAAATTAAAACTAATAATATC
94361659 AAAAT-TTTAAT
1 AAAATGTTTAAT
94361670 AAATCTAATT
Statistics
Matches: 115, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 6 0.05
111 109 0.95
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.39
Consensus pattern (111 bp):
AAAATGTTTAATGAGATTTTCAATAAAATTTCTACAAAATAACTTAAAAGTAAACATATAAAATT
TATCTTAAATATCGTTATACTTTAATAAATTAAAACTAATAATATC
Found at i:94362375 original size:41 final size:41
Alignment explanation
Indices: 94362302--94362509 Score: 158
Period size: 41 Copynumber: 5.1 Consensus size: 41
94362292 GCAAAAATTG
* *
94362302 TAAAACACAGAATAATAGCGGCGTTTCA-CAAAAAACGCCGC
1 TAAAA-ACAGAACAATAGCGGCGTTTTACCAAAAAACGCCGC
* * *
94362343 TAAAAACAGAACAACAGCGGTGTTTTACCAAAAAA-GACGC
1 TAAAAACAGAACAATAGCGGCGTTTTACCAAAAAACGCCGC
* * *
94362383 TAAAAAACAGAGCAATAGCGGCGTTTTACC-GAAAGCGCCGC
1 T-AAAAACAGAACAATAGCGGCGTTTTACCAAAAAACGCCGC
* * * * ***
94362424 TAAAAACTA-AGCATTAACGGCGCTTT-CGGTAAAACGCCGC
1 TAAAAAC-AGAACAATAGCGGCGTTTTACCAAAAAACGCCGC
* * * * *
94362464 TAAAAACCAGAGCATTAGCGGCGCTTT-CGATAAAACGCCGC
1 TAAAAA-CAGAACAATAGCGGCGTTTTACCAAAAAACGCCGC
94362505 TAAAA
1 TAAAA
94362510 TTCATATAAC
Statistics
Matches: 141, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
39 1 0.01
40 62 0.44
41 78 0.55
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (41 bp):
TAAAAACAGAACAATAGCGGCGTTTTACCAAAAAACGCCGC
Found at i:94362634 original size:54 final size:54
Alignment explanation
Indices: 94362520--94362637 Score: 146
Period size: 54 Copynumber: 2.2 Consensus size: 54
94362510 TTCATATAAC
** * * * *
94362520 CCCTAAAATCCTAAACCCCAAAAAATCATAAACACTAATCTATAGCCCCTAAAA
1 CCCTAAACCCCTAAAACCCAAAAAACCATAAACACTAAACTATAACCCCTAAAA
** * *
94362574 TACTAAACCCCTAAAACCCTAAAAACCCTAAACACTAAACTATAACCCCTAAAA
1 CCCTAAACCCCTAAAACCCAAAAAACCATAAACACTAAACTATAACCCCTAAAA
94362628 CCCTAAACCC
1 CCCTAAACCC
94362638 TCAAAAACAT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.17
Consensus pattern (54 bp):
CCCTAAACCCCTAAAACCCAAAAAACCATAAACACTAAACTATAACCCCTAAAA
Found at i:94362775 original size:7 final size:7
Alignment explanation
Indices: 94362749--94362797 Score: 53
Period size: 7 Copynumber: 7.0 Consensus size: 7
94362739 TTTATTTTTG
*
94362749 GGTTTAG
1 GGTTTAA
94362756 GGTTTAA
1 GGTTTAA
**
94362763 TATTTAA
1 GGTTTAA
94362770 GGTTTAA
1 GGTTTAA
* *
94362777 GGTCTAT
1 GGTTTAA
94362784 GGTTTAA
1 GGTTTAA
94362791 GGTTTAA
1 GGTTTAA
94362798 TGGCCATGGG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.45
Consensus pattern (7 bp):
GGTTTAA
Found at i:94362806 original size:21 final size:21
Alignment explanation
Indices: 94362765--94362806 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
94362755 GGGTTTAATA
*
94362765 TTTAAGGTTTAAGGTCTATGG
1 TTTAAGGTTTAAGGTCCATGG
94362786 TTTAAGGTTTAATGG-CCATGG
1 TTTAAGGTTTAA-GGTCCATGG
94362807 GTATATAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.40
Consensus pattern (21 bp):
TTTAAGGTTTAAGGTCCATGG
Found at i:94372480 original size:19 final size:19
Alignment explanation
Indices: 94372457--94372503 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
94372447 ATTTAATCTA
*
94372457 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
94372475 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
94372495 ATTTTTATT
1 ATTTTTATT
94372504 TTAATTTGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:94372697 original size:43 final size:43
Alignment explanation
Indices: 94372635--94372865 Score: 326
Period size: 43 Copynumber: 5.4 Consensus size: 43
94372625 TATTTAAATT
*
94372635 TCATGACCTTTAGCGGCGTTTGTGG-GAAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTGGAG-AAAGCGCCGCTAAAGG
*
94372678 CCATGATCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGG
94372721 TCATGATCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGG
* *
94372764 TCATGATATTTAGCGGCGTTTGT-GAGAGAAGTGCCGCTAAAGG
1 TCATGATCTTTAGCGGCGTTTGTGGAGA-AAGCGCCGCTAAAGG
* * * *
94372807 CCATGA-CTTTTAGTGGCGTTTATGAAGAAAGCGCCGCTAAAGG
1 TCATGATC-TTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGG
94372850 TCATGA-CTTTTAGCGG
1 TCATGATC-TTTAGCGG
94372866 TATTTTTTCA
Statistics
Matches: 171, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
42 4 0.02
43 163 0.95
44 4 0.02
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (43 bp):
TCATGATCTTTAGCGGCGTTTGTGGAGAAAGCGCCGCTAAAGG
Found at i:94378055 original size:14 final size:14
Alignment explanation
Indices: 94378036--94378062 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
94378026 TAAATTATTT
94378036 ATTATTTTTAATAA
1 ATTATTTTTAATAA
94378050 ATTATTTTTAATA
1 ATTATTTTTAATA
94378063 GTAATCTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTATTTTTAATAA
Found at i:94378265 original size:16 final size:16
Alignment explanation
Indices: 94378244--94378298 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
94378234 TGAATTACTT
*
94378244 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
94378260 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
94378276 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
94378292 ATTACAG
1 ATTACAG
94378299 TGAACCAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:94382392 original size:9 final size:9
Alignment explanation
Indices: 94382363--94382392 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
94382353 TGAATTTTAC
94382363 AATTCGAAT
1 AATTCGAAT
*
94382372 AACTCGAAT
1 AATTCGAAT
94382381 AATTCGAAT
1 AATTCGAAT
94382390 AAT
1 AAT
94382393 AGATTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.47, C:0.13, G:0.10, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:94383298 original size:19 final size:20
Alignment explanation
Indices: 94383274--94383324 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
94383264 ATAAATTTTG
94383274 GAATTTTTATAAA-TAGTTT
1 GAATTTTTATAAATTAGTTT
* *
94383293 GAA-TTTTAAAAATTATTTT
1 GAATTTTTATAAATTAGTTT
94383312 GAATCTTTTATAA
1 GAAT-TTTTATAA
94383325 TTTTTTTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.31
19 11 0.42
21 7 0.27
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (20 bp):
GAATTTTTATAAATTAGTTT
Found at i:94383330 original size:19 final size:18
Alignment explanation
Indices: 94383263--94383330 Score: 55
Period size: 19 Copynumber: 3.6 Consensus size: 18
94383253 TTAAAAAATA
* *
94383263 TATAAATTTTGGAATTTT
1 TATAATTTTTTGAATTTT
**
94383281 TATAAATAGTTTGAATTTT
1 TAT-AATTTTTTGAATTTT
* *
94383300 AAAAATTATTTTGAATCTTT
1 TATAATT-TTTTGAAT-TTT
94383320 TATAATTTTTT
1 TATAATTTTTT
94383331 TAGAGAGATC
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
18 6 0.16
19 23 0.62
20 8 0.22
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.56
Consensus pattern (18 bp):
TATAATTTTTTGAATTTT
Found at i:94387819 original size:12 final size:12
Alignment explanation
Indices: 94387802--94387827 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
94387792 AGGTGAAATT
94387802 ATCTTTTACTAC
1 ATCTTTTACTAC
94387814 ATCTTTTACTAC
1 ATCTTTTACTAC
94387826 AT
1 AT
94387828 GTTTCTAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (12 bp):
ATCTTTTACTAC
Found at i:94392415 original size:4 final size:4
Alignment explanation
Indices: 94392406--94392439 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
94392396 AAGTTTTATT
94392406 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
94392440 AATGTTTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:94392447 original size:22 final size:21
Alignment explanation
Indices: 94392400--94392448 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
94392390 GTTGTAAAGT
**
94392400 TTTATTTTTATTTATTTATTTA
1 TTTA-TTTTATTTATTTAAATA
*
94392422 TTTATTTTATTTAGTTTAAATG
1 TTTATTTTATTTA-TTTAAATA
94392444 TTTAT
1 TTTAT
94392449 CCAAGAGTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (21 bp):
TTTATTTTATTTATTTAAATA
Found at i:94400675 original size:63 final size:63
Alignment explanation
Indices: 94400601--94400778 Score: 243
Period size: 63 Copynumber: 2.8 Consensus size: 63
94400591 TCACAATACG
** * *
94400601 CACCAATTTATTTTACATTTGCACCACAACACGCGCAATCATTCAT-TGCACCAACATAGTCAT
1 CACCAATTTATTTTACATAAGCACCACAACATGCGCAATCATTC-TCTGCACCAACACAGTCAT
* * *
94400664 CACCATTTTATTTTACATAAGCACCACGACATGCACAATCATTCTCTGCACCAACACAGTCAT
1 CACCAATTTATTTTACATAAGCACCACAACATGCGCAATCATTCTCTGCACCAACACAGTCAT
* *
94400727 CACCAATTTATTTTACACAAGCACCACAACATGCGCAGTCATT-TCCTGCACC
1 CACCAATTTATTTTACATAAGCACCACAACATGCGCAATCATTCT-CTGCACC
94400779 GATACCTTCT
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
62 2 0.02
63 99 0.98
ACGTcount: A:0.33, C:0.32, G:0.08, T:0.27
Consensus pattern (63 bp):
CACCAATTTATTTTACATAAGCACCACAACATGCGCAATCATTCTCTGCACCAACACAGTCAT
Found at i:94402045 original size:29 final size:30
Alignment explanation
Indices: 94401994--94402066 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
94401984 ATGAAATTAG
* * * *
94401994 AATAATTTAGTGATTAAATTGTAACTTT-T
1 AATAATTGAGTGATCAAAATGTAAATTTAT
*
94402023 TATAATTGAGTGATCAAAATGTAAATTTACT
1 AATAATTGAGTGATCAAAATGTAAATTTA-T
94402054 AATAATTGAGTGA
1 AATAATTGAGTGA
94402067 CTATAGGTGC
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
29 23 0.64
31 13 0.36
ACGTcount: A:0.41, C:0.04, G:0.14, T:0.41
Consensus pattern (30 bp):
AATAATTGAGTGATCAAAATGTAAATTTAT
Found at i:94402230 original size:18 final size:19
Alignment explanation
Indices: 94402192--94402231 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
94402182 GATTTGTTTT
*
94402192 ATGAAAAATAACTTAATTA
1 ATGAAAAATAACTTAACTA
*
94402211 ATGAAAAATAA-TTTACTA
1 ATGAAAAATAACTTAACTA
94402229 ATG
1 ATG
94402232 CATAAAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (19 bp):
ATGAAAAATAACTTAACTA
Found at i:94405341 original size:28 final size:28
Alignment explanation
Indices: 94405301--94405356 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
94405291 ACACAACTCA
94405301 AAGATTTGCTTCAATAAATTAC-CAATCT
1 AAGATTTGCTTCAATAAATT-CTCAATCT
*
94405329 AAGATTTGTTTCAATAAATTCTCAATCT
1 AAGATTTGCTTCAATAAATTCTCAATCT
94405357 TTCAAATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (28 bp):
AAGATTTGCTTCAATAAATTCTCAATCT
Found at i:94405594 original size:30 final size:31
Alignment explanation
Indices: 94405540--94405600 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
94405530 TTTGTTACTG
**
94405540 AACTATTTGAAAGTTTTCATTTAAGTCACTA
1 AACTATTCCAAAGTTTTCATTTAAGTCACTA
94405571 AACTATTCCAAAGTTTT-ATTTAAGTCACTA
1 AACTATTCCAAAGTTTTCATTTAAGTCACTA
94405601 GATTGTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 13 0.46
31 15 0.54
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (31 bp):
AACTATTCCAAAGTTTTCATTTAAGTCACTA
Found at i:94419242 original size:28 final size:28
Alignment explanation
Indices: 94419209--94419263 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
94419199 TAATATTTTA
94419209 AACTTATTCAACTAATACATATTTACAC
1 AACTTATTCAACTAATACATATTTACAC
*
94419237 AACTTATTTAACTAATACATATTTACA
1 AACTTATTCAACTAATACATATTTACA
94419264 TACAAACAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (28 bp):
AACTTATTCAACTAATACATATTTACAC
Found at i:94419261 original size:15 final size:15
Alignment explanation
Indices: 94419213--94419261 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
94419203 ATTTTAAACT
*
94419213 TATTCAACTAATACA
1 TATTTAACTAATACA
*
94419228 TATTT-AC-ACA-ACT
1 TATTTAACTA-ATACA
94419241 TATTTAACTAATACA
1 TATTTAACTAATACA
94419256 TATTTA
1 TATTTA
94419262 CATACAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
13 8 0.30
14 6 0.22
15 13 0.48
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (15 bp):
TATTTAACTAATACA
Found at i:94420325 original size:23 final size:22
Alignment explanation
Indices: 94420280--94420323 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
94420270 TGATTTTTAC
94420280 TAAGGAAATTTCAAAAAAAAAA
1 TAAGGAAATTTCAAAAAAAAAA
94420302 TAAGGAAATTTCAAAAAAAAAA
1 TAAGGAAATTTCAAAAAAAAAA
94420324 ATGAAGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.68, C:0.05, G:0.09, T:0.18
Consensus pattern (22 bp):
TAAGGAAATTTCAAAAAAAAAA
Found at i:94422123 original size:20 final size:20
Alignment explanation
Indices: 94422066--94422125 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
94422056 GCAAATATAT
94422066 TATAT-TTCAAAATTATATTTA
1 TATATATTC-AAATT-TATTTA
**
94422087 TATATATTTTAATTTATTTA
1 TATATATTCAAATTTATTTA
94422107 TAT-TATTCAAATATTATTT
1 TATATATTCAAAT-TTATTT
94422126 CATCAATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 7 0.21
20 15 0.45
21 9 0.27
22 2 0.06
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
TATATATTCAAATTTATTTA
Found at i:94435166 original size:94 final size:94
Alignment explanation
Indices: 94435054--94435259 Score: 326
Period size: 94 Copynumber: 2.2 Consensus size: 94
94435044 CGCACACAAA
*
94435054 AGAAAAAAAG--AGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGGCAAAGTCCATAA
1 AGAAAAAAAGAAAGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGGCAAAGCCCATAA
*
94435117 AAACAAACATTGAAAGCAAGGAAATAAGT
66 AAACAAACATGGAAAGCAAGGAAATAAGT
* * * **
94435146 TGAAAAAAAGAAAGCAAGAATGGCATTGCAACATTAAAGAAGTAAAAATGAGGCAAAGCCCATAA
1 AGAAAAAAAGAAAGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGGCAAAGCCCATAA
*
94435211 AAACAAACATGGAAAGCAAGGGAATAAGT
66 AAACAAACATGGAAAGCAAGGAAATAAGT
94435240 AGAAAAAAAGAAAGCAAGAA
1 AGAAAAAAAGAAAGCAAGAA
94435260 AATCTAAAAC
Statistics
Matches: 103, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
92 9 0.09
94 94 0.91
ACGTcount: A:0.57, C:0.12, G:0.19, T:0.11
Consensus pattern (94 bp):
AGAAAAAAAGAAAGCAAGAATGCCATTGCAACACTAAAGAAGTAAAAACAAGGCAAAGCCCATAA
AAACAAACATGGAAAGCAAGGAAATAAGT
Found at i:94435988 original size:21 final size:22
Alignment explanation
Indices: 94435964--94436007 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
94435954 AAAAAGTCAA
*
94435964 TAAATAAAAATTAT-TAAATAT
1 TAAATAAAAATCATATAAATAT
*
94435985 TAAATTAAAATCATATAAATAT
1 TAAATAAAAATCATATAAATAT
94436007 T
1 T
94436008 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAATAAAAATCATATAAATAT
Found at i:94436051 original size:17 final size:17
Alignment explanation
Indices: 94436026--94436065 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
94436016 ATAAAAAATT
*
94436026 AATATGAGCATGCCTAA
1 AATAAGAGCATGCCTAA
94436043 AATAAGAGCATGCCTAA
1 AATAAGAGCATGCCTAA
94436060 AATAAG
1 AATAAG
94436066 CTTAGGTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (17 bp):
AATAAGAGCATGCCTAA
Found at i:94444503 original size:10 final size:11
Alignment explanation
Indices: 94444483--94444511 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
94444473 TTTTTCTTAT
94444483 TATTCTTTAGC
1 TATTCTTTAGC
94444494 TATT-TTTAGC
1 TATTCTTTAGC
94444504 TATTCTTT
1 TATTCTTT
94444512 TCGCCTCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.17, C:0.14, G:0.07, T:0.62
Consensus pattern (11 bp):
TATTCTTTAGC
Found at i:94445409 original size:56 final size:56
Alignment explanation
Indices: 94445340--94445451 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
94445330 AGGGAAAATC
*
94445340 CTATTTAATAAGCAAAAATATTATGCTTCAACTCTTGTAAAGAACGAACTAACAGG
1 CTATTTAAAAAGCAAAAATATTATGCTTCAACTCTTGTAAAGAACGAACTAACAGG
94445396 CTATTTAAAAAGCAAAAATATTATGCTTCAACTCTTGTAAAGAACGAACTAACAGG
1 CTATTTAAAAAGCAAAAATATTATGCTTCAACTCTTGTAAAGAACGAACTAACAGG
94445452 GTTAGTTGCC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (56 bp):
CTATTTAAAAAGCAAAAATATTATGCTTCAACTCTTGTAAAGAACGAACTAACAGG
Found at i:94446837 original size:2 final size:2
Alignment explanation
Indices: 94446830--94446868 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
94446820 TAAGGGCAAA
94446830 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
94446869 ATAAAAAGAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:94450074 original size:29 final size:29
Alignment explanation
Indices: 94450011--94450078 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
94450001 TAATCAACCG
94450011 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
94450040 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
94450069 CGCACACTTA
1 CGCACACTTA
94450079 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:94450191 original size:174 final size:174
Alignment explanation
Indices: 94449900--94450227 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
94449890 AACTCAAGGT
* *
94449900 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
94449965 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
94450030 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
94450074 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
94450139 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
94450204 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
94450228 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:94450219 original size:29 final size:30
Alignment explanation
Indices: 94450180--94450258 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
94450170 CTTAATAATC
94450180 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
94450210 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
94450239 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
94450259 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:94457163 original size:118 final size:119
Alignment explanation
Indices: 94456939--94457296 Score: 619
Period size: 119 Copynumber: 3.0 Consensus size: 119
94456929 AATAGGCTGC
94456939 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
1 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
* * *
94457004 TGTTTACAAGAAACAAATCGAGGACATAGAAAATTTGACTCTTAGATGTTCTCA
66 TGTTTACAAGAAACAAATCGAGGACATAGAAGATTTGACTCTCAAATGTTCTCA
* *
94457058 ACTATAGCAGATCTAGCTTTCAGATGTTTATACTGGAGCAGATCCAAGATGA-TTGGTATTCTTG
1 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
*
94457122 TGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCA
66 TGTTTACAAGAAACAAATCGAGGACATAGAAGATTTGACTCTCAAATGTTCTCA
*
94457176 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCTAAGATGATTTGGTATTCTTG
1 AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
* * *
94457241 TGTTTACAAGGAACAAATCGAGGACATAGTAGATTGGACTCTCAAATGTTCTCA
66 TGTTTACAAGAAACAAATCGAGGACATAGAAGATTTGACTCTCAAATGTTCTCA
94457295 AA
1 AA
94457297 CAAACTCAAG
Statistics
Matches: 226, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
118 111 0.49
119 115 0.51
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (119 bp):
AATATAGCAGATCTAGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG
TGTTTACAAGAAACAAATCGAGGACATAGAAGATTTGACTCTCAAATGTTCTCA
Found at i:94457529 original size:83 final size:84
Alignment explanation
Indices: 94457221--94457510 Score: 410
Period size: 83 Copynumber: 3.5 Consensus size: 84
94457211 AAGCAGATCT
* * *
94457221 AAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGTAGATTGGACTCTCAA
1 AAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAA
94457286 ATGTTCTCAAACA-AACTC
66 ATGTTCTCAAACAGAACTC
* *
94457304 AAGATGATTTGGCATTCTTGTATTTACAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAG
1 AAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAA
*
94457369 ATGTTCTCGAAC-GAACTC
66 ATGTTCTCAAACAGAACTC
* *
94457387 AAGATGATTTGGCATTCTTATGTTTACAAGAAACAAATCGAGGACGTAGCAGATTTGG-CTCTCA
1 AAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGA-TTGGACTCTCA
*
94457451 AATGTTCTCAAACAGACCT-
65 AATGTTCTCAAACAGAACTC
* * * *
94457470 AAGATGGTTTGGCA-TCTTTGTGCTTACAAGGAGCAAATCGA
1 AAGATGATTTGGCATTC-TTGTGTTTACAAGAAACAAATCGA
94457511 AGACGAAGCT
Statistics
Matches: 186, Mismatches: 17, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
82 2 0.01
83 176 0.95
84 8 0.04
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (84 bp):
AAGATGATTTGGCATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCAGATTGGACTCTCAA
ATGTTCTCAAACAGAACTC
Found at i:94459185 original size:19 final size:19
Alignment explanation
Indices: 94459161--94459210 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
94459151 AAATTTAGTC
94459161 CTATATTTATTTTATTATT
1 CTATATTTATTTTATTATT
*
94459180 CTATATATATTTTATTATT
1 CTATATTTATTTTATTATT
*
94459199 -TGT-TTTATTTTA
1 CTATATTTATTTTA
94459211 ATTTTACTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 8 0.29
18 2 0.07
19 18 0.64
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (19 bp):
CTATATTTATTTTATTATT
Found at i:94459251 original size:15 final size:15
Alignment explanation
Indices: 94459227--94459260 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
94459217 CTTCCATAAA
94459227 ATTA-TTTTATAAGT
1 ATTATTTTTATAAGT
*
94459241 ATTATTTTTATATGT
1 ATTATTTTTATAAGT
94459256 ATTAT
1 ATTAT
94459261 AATTGTTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
ATTATTTTTATAAGT
Found at i:94459311 original size:15 final size:16
Alignment explanation
Indices: 94459227--94459338 Score: 52
Period size: 18 Copynumber: 6.4 Consensus size: 16
94459217 CTTCCATAAA
*
94459227 ATTA-TTTTATA-AGT
1 ATTATTTTTATATATT
94459241 ATTATTTTTATATGTATT
1 ATTATTTTTATA--TATT
*
94459259 ATAATTGTTTAT-TATAT
1 ATTATT-TTTATATAT-T
*
94459276 ATTAATTCTCTCATA-ATT
1 ATT-ATT-T-TTATATATT
94459294 ATTATTTTTATATATATT
1 ATTA-TTTT-TATATATT
94459312 ATTATATTTTACATATATT
1 ATTAT-TTTT--ATATATT
94459331 ATATATTT
1 AT-TATTT
94459339 ATTTTTACAT
Statistics
Matches: 76, Mismatches: 6, Indels: 27
0.70 0.06 0.25
Matches are distributed among these distances:
14 4 0.05
15 7 0.09
16 4 0.05
17 10 0.13
18 27 0.36
19 21 0.28
20 3 0.04
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.60
Consensus pattern (16 bp):
ATTATTTTTATATATT
Found at i:94459312 original size:18 final size:18
Alignment explanation
Indices: 94459240--94459364 Score: 89
Period size: 18 Copynumber: 6.9 Consensus size: 18
94459230 ATTTTATAAG
*
94459240 TATTATTTTTATATGTAT
1 TATTATTTTTATATATAT
*
94459258 TATAATTGTTTAT-TATA-
1 TATTATT-TTTATATATAT
* * *
94459275 TATTAATTCTCTCATA-AT
1 TATTATTTTTAT-ATATAT
94459293 TATTATTTTTATATATAT
1 TATTATTTTTATATATAT
*
94459311 TATTATATTTTACATATAT
1 TATTAT-TTTTATATATAT
* *
94459330 TATATATTTATT-TTTACA-
1 TAT-TATTT-TTATATATAT
*
94459348 TATTATTTTTACATATA
1 TATTATTTTTATATATA
94459365 AATTTTCATT
Statistics
Matches: 82, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
16 5 0.06
17 17 0.21
18 31 0.38
19 24 0.29
20 5 0.06
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.60
Consensus pattern (18 bp):
TATTATTTTTATATATAT
Found at i:94459315 original size:21 final size:21
Alignment explanation
Indices: 94459291--94459350 Score: 79
Period size: 19 Copynumber: 2.9 Consensus size: 21
94459281 TTCTCTCATA
*
94459291 ATTATTATTTTTATATATATT
1 ATTATTATTTTTACATATATT
94459312 ATTA-TA-TTTTACATATATT
1 ATTATTATTTTTACATATATT
94459331 ATATATTTATTTTTACATAT
1 AT-TA-TTATTTTTACATAT
94459351 TATTTTTACA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 14 0.41
20 4 0.12
21 4 0.12
22 2 0.06
23 10 0.29
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTATTATTTTTACATATATT
Found at i:94459352 original size:21 final size:19
Alignment explanation
Indices: 94459291--94459354 Score: 67
Period size: 21 Copynumber: 3.2 Consensus size: 19
94459281 TTCTCTCATA
*
94459291 ATTATTATTTTTATATA-T
1 ATTATTATTTTTACATATT
94459309 ATTATTATATTTTACATATATT
1 ATTATTAT-TTTTAC--ATATT
94459331 ATATATTTATTTTTACATATT
1 AT-TA-TTATTTTTACATATT
94459352 ATT
1 ATT
94459355 TTTACATATA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
18 8 0.21
19 5 0.13
20 1 0.03
21 10 0.26
22 3 0.08
23 8 0.21
24 4 0.10
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTATTATTTTTACATATT
Found at i:94459355 original size:13 final size:13
Alignment explanation
Indices: 94459311--94459363 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
94459301 TTATATATAT
94459311 TATTATATTTTACA
1 TATTAT-TTTTACA
* *
94459325 TA-TA-TTATATA
1 TATTATTTTTACA
94459336 T-TTATTTTTACA
1 TATTATTTTTACA
94459348 TATTATTTTTACA
1 TATTATTTTTACA
94459361 TAT
1 TAT
94459364 AAATTTTCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
11 8 0.25
12 6 0.19
13 16 0.50
14 2 0.06
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTATTTTTACA
Found at i:94459728 original size:7 final size:7
Alignment explanation
Indices: 94459716--94459748 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
94459706 ATATTCTTGT
94459716 TATTATA
1 TATTATA
94459723 TATTATA
1 TATTATA
94459730 TATTATA
1 TATTATA
94459737 TATTATA
1 TATTATA
94459744 TATTA
1 TATTA
94459749 AATACTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATTATA
Found at i:94461189 original size:50 final size:50
Alignment explanation
Indices: 94461017--94461200 Score: 222
Period size: 50 Copynumber: 3.8 Consensus size: 50
94461007 TAAGGTATAA
94461017 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C-ATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAATCAAG
* * *
94461066 T--TGATGTCATGTCCCAGACATGGTCTTACACT-GACTATCGA-AATCAAG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTC-ACAATCAAG
* *
94461114 -GCCGACGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATC-CG
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-ATCAAG
*
94461163 TGCCGATGCCATGCCCCAGACATGGTCTTACACTAGCT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
94461201 TACAATAACC
Statistics
Matches: 115, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
46 3 0.03
47 31 0.27
48 7 0.06
49 35 0.30
50 39 0.34
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (50 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATCAAG
Found at i:94464119 original size:46 final size:45
Alignment explanation
Indices: 94464052--94464225 Score: 172
Period size: 46 Copynumber: 3.8 Consensus size: 45
94464042 TGTAACCCGC
*
94464052 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* *
94464098 CCATAAGTGAACTCGGACTCAACTCAACGAGCT-GGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTAGCAT
* *** * * * * *
94464143 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCAGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
*
94464190 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
94464226 ATGCCCAAAC
Statistics
Matches: 102, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 8 0.08
46 86 0.84
47 8 0.08
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGCAT
Found at i:94464167 original size:92 final size:93
Alignment explanation
Indices: 94464060--94464230 Score: 272
Period size: 92 Copynumber: 1.8 Consensus size: 93
94464050 GCCCATAAGT
* * * *
94464060 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94464125 CGAGCT-GGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
94464152 GAACTCAGACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
94464217 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
94464231 CAAACATCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 64 0.90
93 7 0.10
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:94471030 original size:19 final size:19
Alignment explanation
Indices: 94471006--94471042 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
94470996 AAATTTAGTC
*
94471006 CTATATTTATTATATTATT
1 CTATATTAATTATATTATT
94471025 CTATATTAATTATATTAT
1 CTATATTAATTATATTAT
94471043 GGATTGATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
CTATATTAATTATATTATT
Found at i:94472625 original size:14 final size:16
Alignment explanation
Indices: 94472606--94472638 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
94472596 CGATATTCTT
94472606 TTTGCATTT-AT-GCA
1 TTTGCATTTCATAGCA
94472620 TTTGCATTTCATAGCA
1 TTTGCATTTCATAGCA
94472636 TTT
1 TTT
94472639 CATCACATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 2 0.12
16 6 0.35
ACGTcount: A:0.21, C:0.15, G:0.12, T:0.52
Consensus pattern (16 bp):
TTTGCATTTCATAGCA
Found at i:94473914 original size:24 final size:24
Alignment explanation
Indices: 94473869--94473914 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
94473859 CTTCAATTCG
* * *
94473869 AAAGTAGTCACGGTTAGTCAACCC
1 AAAGTAGCCACAGTTAGGCAACCC
*
94473893 AAAGTAGCCACAGTTGGGCAAC
1 AAAGTAGCCACAGTTAGGCAAC
94473915 AGGGCTCTCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (24 bp):
AAAGTAGCCACAGTTAGGCAACCC
Found at i:94490282 original size:29 final size:29
Alignment explanation
Indices: 94490219--94490286 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
94490209 TAATCAACCG
94490219 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
94490248 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
94490277 CGCACACTTA
1 CGCACACTTA
94490287 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:94490399 original size:174 final size:174
Alignment explanation
Indices: 94490108--94490435 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
94490098 AACTCAAGGT
* *
94490108 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
94490173 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
94490238 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
94490282 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
94490347 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
94490412 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
94490436 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:94490427 original size:29 final size:30
Alignment explanation
Indices: 94490388--94490466 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
94490378 CTTAATAATC
94490388 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
94490418 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
94490447 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
94490467 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:94492632 original size:22 final size:22
Alignment explanation
Indices: 94492604--94492648 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
94492594 TTAATAAAAA
94492604 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
94492626 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
94492648 A
1 A
94492649 CACTCCCCTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:94497209 original size:22 final size:22
Alignment explanation
Indices: 94497184--94497228 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
94497174 TTTAATAAAA
94497184 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
94497206 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
94497228 A
1 A
94497229 CAAAAATACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:94499296 original size:22 final size:23
Alignment explanation
Indices: 94499271--94499314 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
94499261 TCTCTCTCGG
94499271 AAAAAATTGAACTT-GAAATCTT
1 AAAAAATTGAACTTCGAAATCTT
** *
94499293 AAAATTTTGAATTTCGAAATCT
1 AAAAAATTGAACTTCGAAATCT
94499315 CTTCCTTGCC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (23 bp):
AAAAAATTGAACTTCGAAATCTT
Found at i:94509676 original size:13 final size:13
Alignment explanation
Indices: 94509660--94509685 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94509650 ATTTTATGCA
94509660 AACAAATGGTTTT
1 AACAAATGGTTTT
94509673 AACAAATGGTTTT
1 AACAAATGGTTTT
94509686 TGGAAACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:94512337 original size:28 final size:27
Alignment explanation
Indices: 94512279--94512373 Score: 109
Period size: 27 Copynumber: 3.4 Consensus size: 27
94512269 TATGAACCTT
* * * *
94512279 TGGGAATTGGGACTGCCCACGGCCTTT
1 TGGGAATTGGGACTACCCACGACCCTC
94512306 TGGGAATTGGGACTACCCCACGACCCTC
1 TGGGAATTGGGACTA-CCCACGACCCTC
* **
94512334 TGGGAATTGAGACTACCCACGATTCTC
1 TGGGAATTGGGACTACCCACGACCCTC
94512361 TGGGAATTTGGGA
1 TGGGAA-TTGGGA
94512374 GATCTAAATT
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 30 0.52
28 28 0.48
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.24
Consensus pattern (27 bp):
TGGGAATTGGGACTACCCACGACCCTC
Found at i:94518409 original size:3 final size:3
Alignment explanation
Indices: 94518401--94518444 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
94518391 TTTTATATAT
* *
94518401 TTA TTA TTA TTA TTA -TA TTA TTA CTA TTA TTC TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
94518445 AGTATATTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:94518886 original size:30 final size:32
Alignment explanation
Indices: 94518850--94518914 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
94518840 ATATGTATAT
*
94518850 TATATGTATTCTT-TTAATA-TGTATTACATA
1 TATATGTATTCTTATTAATATTATATTACATA
* *
94518880 TATATGTATTTTTATTAATATTATATTATATA
1 TATATGTATTCTTATTAATATTATATTACATA
94518912 TAT
1 TAT
94518915 TTTTCATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 12 0.40
31 6 0.20
32 12 0.40
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (32 bp):
TATATGTATTCTTATTAATATTATATTACATA
Found at i:94518916 original size:26 final size:26
Alignment explanation
Indices: 94518840--94518918 Score: 88
Period size: 26 Copynumber: 2.9 Consensus size: 26
94518830 TTTTTGAAAT
*
94518840 ATATGTATATTATATGTATTCTTTTA
1 ATATGTATATTATATGTATTTTTTTA
94518866 ATATGTATTACATATATATGTATTTTTATTA
1 ATATGTA-T--AT-TATATGTATTTTT-TTA
*
94518897 ATAT-TATATTATATATATTTTT
1 ATATGTATATTATATGTATTTTT
94518919 CATATATAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
26 19 0.41
27 3 0.07
29 3 0.07
30 14 0.30
31 7 0.15
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (26 bp):
ATATGTATATTATATGTATTTTTTTA
Found at i:94518995 original size:20 final size:19
Alignment explanation
Indices: 94518945--94518996 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
94518935 GTGTTTTTTA
94518945 GTAT-TATATTTTATATAT
1 GTATATATATTTTATATAT
94518963 -TATTATGTATATTTTAGTATAT
1 GTA-TA--TATATTTTA-TATAT
94518985 GTATATATATTT
1 GTATATATATTT
94518997 GTGAAGTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
17 2 0.07
18 1 0.04
20 7 0.25
21 9 0.32
22 7 0.25
23 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (19 bp):
GTATATATATTTTATATAT
Done.