Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008071.1 Hibiscus syriacus cultivar Beakdansim tig00110569_pilon, 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: 1969971
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
File 4 of 8
Found at i:707252 original size:90 final size:89
Alignment explanation
Indices: 707097--707279 Score: 312
Period size: 90 Copynumber: 2.0 Consensus size: 89
707087 TTTTAACCTA
* *
707097 ATATGAGATAATAATATAATTATCAATAATATTCATGTTTCTATCATTTTTTATTTAGATTTCTA
1 ATATGAGATAATAACATAATTATCAATAATATTCATGTTTCTATCATTTTTTATTTAGATCTCTA
*
707162 TATTATCTAATAAAAAATGATATAT
66 TATTATCTAAT-AAAAATAATATAT
*
707187 ATATGAGATAATAACATAATTATCAATAATATTCATGTTTTTATCATTTTTTATTTAGATCTCTA
1 ATATGAGATAATAACATAATTATCAATAATATTCATGTTTCTATCATTTTTTATTTAGATCTCTA
*
707252 TCTTATCTAATAAAAATAATATAT
66 TATTATCTAATAAAAATAATATAT
707276 ATAT
1 ATAT
707280 AACGTAAAGT
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 16 0.18
90 72 0.82
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (89 bp):
ATATGAGATAATAACATAATTATCAATAATATTCATGTTTCTATCATTTTTTATTTAGATCTCTA
TATTATCTAATAAAAATAATATAT
Found at i:716985 original size:3 final size:3
Alignment explanation
Indices: 716977--717022 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
716967 TTTTATTCTA
716977 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
717023 CATATACACC
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:718384 original size:18 final size:19
Alignment explanation
Indices: 718347--718384 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
718337 CACGGAATGT
*
718347 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GAGAATAA
718367 AAGATTACCA-GAGAATAA
1 AAGATTACCAGGAGAATAA
718385 GATTACTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.50, C:0.11, G:0.21, T:0.18
Consensus pattern (19 bp):
AAGATTACCAGGAGAATAA
Found at i:719674 original size:29 final size:28
Alignment explanation
Indices: 719641--719728 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
719631 ATTAGTTCTT
719641 AAACTTTTAAATATTCTAATTTCATCCTC
1 AAACTTTTAAATATTCTAATTTCATCC-C
* * *
719670 AAAC-TATAAATCTCATTCTAAATTAATCCC
1 AAACTTTTAAA--T-ATTCTAATTTCATCCC
* *
719700 TAAACTTTTAGATATTCCAATTTCATCCC
1 -AAACTTTTAAATATTCTAATTTCATCCC
719729 CAAATACATA
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
28 5 0.11
29 17 0.37
30 3 0.07
31 17 0.37
32 4 0.09
ACGTcount: A:0.36, C:0.23, G:0.01, T:0.40
Consensus pattern (28 bp):
AAACTTTTAAATATTCTAATTTCATCCC
Found at i:722935 original size:21 final size:22
Alignment explanation
Indices: 722911--722954 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
722901 GTTCCCACCC
722911 AATCTTCTTGCTGAAGC-ACTA
1 AATCTTCTTGCTGAAGCTACTA
* *
722932 AATCTTCTTTCTGAGGCTACTA
1 AATCTTCTTGCTGAAGCTACTA
722954 A
1 A
722955 CACTCCACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (22 bp):
AATCTTCTTGCTGAAGCTACTA
Found at i:727995 original size:45 final size:45
Alignment explanation
Indices: 727946--728331 Score: 227
Period size: 45 Copynumber: 8.7 Consensus size: 45
727936 TTCACAGCAA
* * * * *
727946 TCTCTTTCTTTACCTTCTCAGCTGAGCTTTTTACTGTCGAGGCCG
1 TCTCTTTCTTCACCTTCTCAGCTGAGCTATTTACTGTCAAGACTG
* * *
727991 TCTCTTCCTTCACCTTCTCAGCTGAGCTGTTTACTG--AA-TCTG
1 TCTCTTTCTTCACCTTCTCAGCTGAGCTATTTACTGTCAAGACTG
** * * * * **
728033 TCTCTTGTC-TCTTCTTCTTAGCTGAGCTATTTACTTTCATGGCCA
1 TCTCTT-TCTTCACCTTCTCAGCTGAGCTATTTACTGTCAAGACTG
* * *
728078 TTTCATTT-TTCACCTTCTCAGCTGAGTTATTTATTGTCAAGACTG
1 TCTC-TTTCTTCACCTTCTCAGCTGAGCTATTTACTGTCAAGACTG
* * * * *
728123 CCTCTTTCTTCACGTTCTCACCCGAGCTATTTACTGTCAAGATTG
1 TCTCTTTCTTCACCTTCTCAGCTGAGCTATTTACTGTCAAGACTG
* * * *
728168 TCTCTTTCTTCATCTTCTCAGTTGAGCCATTTGCTGT--AG-CTGG
1 TCTCTTTCTTCACCTTCTCAGCTGAGCTATTTACTGTCAAGACT-G
** * * * *
728211 T-TCTTGTC-TCGTCTTCTCAGCTGAACCATTTACTGT-AATGGCCG
1 TCTCTT-TCTTCACCTTCTCAGCTGAGCTATTTACTGTCAA-GACTG
* * * * * * * * *
728255 TCTCTTTTTTCATCTTTTCAGTTGAGTTATTTATTTTCAAGGCTC
1 TCTCTTTCTTCACCTTCTCAGCTGAGCTATTTACTGTCAAGACTG
* * * *
728300 TCTCATTGTCCATCTTCTCAGCTGAGCTATTT
1 TCTCTTTCTTCACCTTCTCAGCTGAGCTATTT
728332 CTTGAAGTCA
Statistics
Matches: 260, Mismatches: 66, Indels: 30
0.73 0.19 0.08
Matches are distributed among these distances:
42 59 0.23
43 9 0.03
44 8 0.03
45 180 0.69
46 4 0.02
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (45 bp):
TCTCTTTCTTCACCTTCTCAGCTGAGCTATTTACTGTCAAGACTG
Found at i:728220 original size:177 final size:177
Alignment explanation
Indices: 727947--728295 Score: 412
Period size: 177 Copynumber: 2.0 Consensus size: 177
727937 TCACAGCAAT
* * * * * *
727947 CTCTTTCTTTACCTTCTCAGCTGAGCTTTTTACTGTCGAGGCCGTCTCTTCCTTCACCTTCTCAG
1 CTCTTTCTTCACCTTCTCACCCGAGCTATTTACTGTCAAGACCGTCTCTTCCTTCACCTTCTCAG
** * * * * * * *
728012 CTGAGCTGTTTACTGAATCTGTCTCTTGTCTCTTCTTCTTAGCTGAGCTATTTACTTTCATGGCC
66 CTGAGCCATTTACTGAAGCTGTCTCTTGTCTCGTCTTCTCAGCTGAACCATTTACTGTAATGGCC
*
728077 ATTTCATTTTTCACCTTCTCAGCTGAGTTATTTATTGTCAAGACTGC
131 ATCTCATTTTTCACCTTCTCAGCTGAGTTATTTATTGTCAAGACTGC
* ** * *
728124 CTCTTTCTTCACGTTCTCACCCGAGCTATTTACTGTCAAGATTGTCTCTTTCTTCATCTTCTCAG
1 CTCTTTCTTCACCTTCTCACCCGAGCTATTTACTGTCAAGACCGTCTCTTCCTTCACCTTCTCAG
* * *
728189 TTGAGCCATTTGCTGTAGCTGGT-TCTTGTCTCGTCTTCTCAGCTGAACCATTTACTGTAATGGC
66 CTGAGCCATTTACTGAAGCT-GTCTCTTGTCTCGTCTTCTCAGCTGAACCATTTACTGTAATGGC
* * * * * *
728253 CGTCTCTTTTTTCATCTTTTCAGTTGAGTTATTTATTTTCAAG
130 CATCTCATTTTTCACCTTCTCAGCTGAGTTATTTATTGTCAAG
728296 GCTCTCTCAT
Statistics
Matches: 141, Mismatches: 30, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
177 139 0.99
178 2 0.01
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.44
Consensus pattern (177 bp):
CTCTTTCTTCACCTTCTCACCCGAGCTATTTACTGTCAAGACCGTCTCTTCCTTCACCTTCTCAG
CTGAGCCATTTACTGAAGCTGTCTCTTGTCTCGTCTTCTCAGCTGAACCATTTACTGTAATGGCC
ATCTCATTTTTCACCTTCTCAGCTGAGTTATTTATTGTCAAGACTGC
Found at i:734883 original size:5 final size:5
Alignment explanation
Indices: 734873--734904 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
734863 CATGCACCAG
734873 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CA
1 CAAAA CAAAA CAAAA CAAAA CAAAA CAAAA CA
734905 GACAAAGCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (5 bp):
CAAAA
Found at i:738687 original size:20 final size:19
Alignment explanation
Indices: 738671--738707 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
738661 AATGATTATT
738671 TATTTT-TTAATATGATTA
1 TATTTTCTTAATATGATTA
*
738689 TATTTTCTTAATTTGATTA
1 TATTTTCTTAATATGATTA
738708 GTGAGGGGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (19 bp):
TATTTTCTTAATATGATTA
Found at i:745840 original size:60 final size:60
Alignment explanation
Indices: 745774--745958 Score: 167
Period size: 60 Copynumber: 3.1 Consensus size: 60
745764 ATATGCTTTT
* * * *
745774 AAATTATGACTTTTATTTTAAATTAATTTTTAAA-TTTTTAAATATTTTAGTTTCAT-CTCA
1 AAATTATGAATTTTATTTTAAATTAATTCTTAAACTTTTGAAA-ATTTTAATTTCATCCT-A
* * * * *
745834 AAATTATGATTTTTATTCTAAATTAGTTCTTAAACTTTTGAAAATTTTAATTTTATCCTT
1 AAATTATGAATTTTATTTTAAATTAATTCTTAAACTTTTGAAAATTTTAATTTCATCCTA
* * * * * ** * * *
745894 AAACTATGAATATTATTTTAAATTAGTCCTTAAACCTTTGAATCTTTCAATTTTATCCTC
1 AAATTATGAATTTTATTTTAAATTAATTCTTAAACTTTTGAAAATTTTAATTTCATCCTA
745954 AAATT
1 AAATT
745959 CATCCAAATA
Statistics
Matches: 104, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
60 95 0.91
61 9 0.09
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.51
Consensus pattern (60 bp):
AAATTATGAATTTTATTTTAAATTAATTCTTAAACTTTTGAAAATTTTAATTTCATCCTA
Found at i:745894 original size:29 final size:28
Alignment explanation
Indices: 745862--745952 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 28
745852 TAAATTAGTT
745862 CTTAAACTTTTGAAAATTTTAATTTTATC
1 CTTAAAC-TTTGAAAATTTTAATTTTATC
* *
745891 CTTAAACTATGAATATTATTTTAA-ATTAGTC
1 CTTAAACTTTGAA-A--ATTTTAATTTTA-TC
** *
745922 CTTAAACCTTTGAATCTTTCAATTTTATC
1 CTTAAA-CTTTGAAAATTTTAATTTTATC
745951 CT
1 CT
745953 CAAATTCATC
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
28 5 0.10
29 17 0.35
30 6 0.12
31 15 0.31
32 6 0.12
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.48
Consensus pattern (28 bp):
CTTAAACTTTGAAAATTTTAATTTTATC
Found at i:745924 original size:31 final size:31
Alignment explanation
Indices: 745846--745928 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
745836 ATTATGATTT
* * *
745846 TTATTCTAAATTAGTTCTTAAACTTTTGAAA
1 TTATTTTAAATTAGTCCTTAAACTTATGAAA
*
745877 --ATTTTAATTTTA-TCCTTAAAC-TATGAATA
1 TTATTTTAA-ATTAGTCCTTAAACTTATGAA-A
745906 TTATTTTAAATTAGTCCTTAAAC
1 TTATTTTAAATTAGTCCTTAAAC
745929 CTTTGAATCT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
28 5 0.12
29 15 0.36
30 6 0.14
31 16 0.38
ACGTcount: A:0.36, C:0.11, G:0.05, T:0.48
Consensus pattern (31 bp):
TTATTTTAAATTAGTCCTTAAACTTATGAAA
Found at i:753820 original size:24 final size:24
Alignment explanation
Indices: 753757--753822 Score: 62
Period size: 24 Copynumber: 2.7 Consensus size: 24
753747 TAAATTATTG
* *
753757 TTTTTAGTTTATTTTAGTACTTAAA
1 TTTTTAATTTATTTTA-AACTTAAA
* *
753782 TTTTTAGATTT-TTTTAAAGTTTAA
1 TTTTTA-ATTTATTTTAAACTTAAA
*
753806 TTTTTATTTTATTTTAA
1 TTTTTAATTTATTTTAA
753823 TATATCGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
23 3 0.09
24 17 0.50
25 11 0.32
26 3 0.09
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (24 bp):
TTTTTAATTTATTTTAAACTTAAA
Found at i:756554 original size:29 final size:30
Alignment explanation
Indices: 756521--756581 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
756511 AGGCACATTT
*
756521 TAATTATTAAAATTTTAAAATT-T-ATAAAA
1 TAATTATT-AAATTATAAAATTATCATAAAA
*
756550 TAATTATTATATTATAAAATTATCATAAAA
1 TAATTATTAAATTATAAAATTATCATAAAA
756580 TA
1 TA
756582 TATAATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 11 0.39
29 9 0.32
30 8 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (30 bp):
TAATTATTAAATTATAAAATTATCATAAAA
Found at i:756591 original size:3 final size:3
Alignment explanation
Indices: 756574--756609 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
756564 TAAAATTATC
756574 ATA A-A ATA TATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
756610 TTTCTATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 2 0.06
3 26 0.84
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:758920 original size:22 final size:23
Alignment explanation
Indices: 758876--758921 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
758866 TTATTTGCGA
758876 ACATATTCGTTTATATGTGCATG
1 ACATATTCGTTTATATGTGCATG
* *
758899 ACATGTTCGTTTA-ATGTTCATG
1 ACATATTCGTTTATATGTGCATG
758921 A
1 A
758922 ACACAGTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.43
Consensus pattern (23 bp):
ACATATTCGTTTATATGTGCATG
Found at i:763686 original size:31 final size:31
Alignment explanation
Indices: 763644--763714 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
763634 CCACTACCAT
763644 CACCTC-CTCCCCTTCCACAGTCCATGCTGC
1 CACCTCTCTCCCCTTCCACAGTCCATGCTGC
763674 CACCTCTCTCCCCTTCCACAGTCCATGCTGC
1 CACCTCTCTCCCCTTCCACAGTCCATGCTGC
763705 CACCTCTCTC
1 CACCTCTCTC
763715 GGGCACTAGT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 6 0.15
31 34 0.85
ACGTcount: A:0.13, C:0.54, G:0.08, T:0.25
Consensus pattern (31 bp):
CACCTCTCTCCCCTTCCACAGTCCATGCTGC
Found at i:764057 original size:3 final size:3
Alignment explanation
Indices: 764051--764119 Score: 120
Period size: 3 Copynumber: 22.7 Consensus size: 3
764041 TTTTTATCCA
*
764051 TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
764099 TAT TAT TAT TAT TAT ATAT TA
1 TAT TAT TAT TAT TAT -TAT TA
764120 AATAAATATA
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 60 0.95
4 3 0.05
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:764137 original size:14 final size:15
Alignment explanation
Indices: 764111--764141 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
764101 TTATTATTAT
764111 TATATATTAAATAAA
1 TATATATTAAATAAA
764126 TATATA-TAAATAAA
1 TATATATTAAATAAA
764140 TA
1 TA
764142 ATTACAGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TATATATTAAATAAA
Found at i:764636 original size:15 final size:15
Alignment explanation
Indices: 764616--764651 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
764606 AGAAAGATAC
764616 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
764631 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
764646 AAAGAA
1 AAAGAA
764652 GATAAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:765447 original size:18 final size:19
Alignment explanation
Indices: 765414--765449 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
765404 ATTTAGTCAG
765414 TTATTTTATATGTTTTTAT
1 TTATTTTATATGTTTTTAT
765433 TTATTTTAT-TGTTTTTA
1 TTATTTTATATGTTTTTA
765450 AATATATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (19 bp):
TTATTTTATATGTTTTTAT
Found at i:765514 original size:20 final size:21
Alignment explanation
Indices: 765474--765517 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
765464 GTAGTATTTT
**
765474 TATTTTTATTATATTGTTAAA
1 TATTTTTATTATATTCATAAA
765495 TATTTTTA-TATATTCATAAA
1 TATTTTTATTATATTCATAAA
765515 TAT
1 TAT
765518 ATATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTTTTATTATATTCATAAA
Found at i:766261 original size:14 final size:14
Alignment explanation
Indices: 766236--766280 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
766226 TATTTATATG
766236 TTTTATTTGCAATTA
1 TTTTA-TTGCAATTA
*
766251 TTTTATTGCAAGTA
1 TTTTATTGCAATTA
*
766265 TTTTATTTC-ATTA
1 TTTTATTGCAATTA
766278 TTT
1 TTT
766281 ATTTTTCTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 6 0.22
14 16 0.59
15 5 0.19
ACGTcount: A:0.24, C:0.07, G:0.07, T:0.62
Consensus pattern (14 bp):
TTTTATTGCAATTA
Found at i:776805 original size:7 final size:7
Alignment explanation
Indices: 776793--776892 Score: 98
Period size: 7 Copynumber: 14.0 Consensus size: 7
776783 ATTATGCTTG
776793 AAGAAAA
1 AAGAAAA
776800 AAGAAAA
1 AAGAAAA
*
776807 AAGAAAG
1 AAGAAAA
*
776814 AA-AAGA
1 AAGAAAA
776820 AAGAAAA
1 AAGAAAA
*
776827 TAGAAAA
1 AAGAAAA
776834 AAGAAAGAA
1 AAG-AA-AA
776843 AAGAAAAA
1 AAG-AAAA
776851 ATAGAAAA
1 A-AGAAAA
776859 AAGAAAA
1 AAGAAAA
*
776866 AAGAGGAA
1 AAGA-AAA
776874 AA-AAAA
1 AAGAAAA
776880 AAGAAAA
1 AAGAAAA
776887 AA-AAAA
1 AAGAAAA
776893 GGGGTTCAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 13
0.79 0.08 0.13
Matches are distributed among these distances:
6 12 0.15
7 43 0.54
8 14 0.18
9 10 0.13
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (7 bp):
AAGAAAA
Found at i:776817 original size:9 final size:8
Alignment explanation
Indices: 776796--776893 Score: 87
Period size: 9 Copynumber: 11.9 Consensus size: 8
776786 ATGCTTGAAG
776796 AAAAAAG-
1 AAAAAAGA
776803 AAAAAAGA
1 AAAAAAGA
776811 AAGAAAAGA
1 AA-AAAAGA
*
776820 AAGAAAATA
1 AA-AAAAGA
776829 GAAAAAAGA
1 -AAAAAAGA
776838 AAGAAAAGA
1 AA-AAAAGA
776847 AAAAATAG-
1 AAAAA-AGA
776855 AAAAAAGA
1 AAAAAAGA
776863 AAAAAGAGGA
1 AAAAA-A-GA
776873 AAAAAA-A
1 AAAAAAGA
*
776880 AAGAAA-A
1 AAAAAAGA
776887 AAAAAAG
1 AAAAAAG
776894 GGGTTCAAGG
Statistics
Matches: 78, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
7 21 0.27
8 17 0.22
9 31 0.40
10 9 0.12
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (8 bp):
AAAAAAGA
Found at i:776825 original size:27 final size:27
Alignment explanation
Indices: 776793--776893 Score: 127
Period size: 27 Copynumber: 3.8 Consensus size: 27
776783 ATTATGCTTG
776793 AAGAAAAAAGAAAAAAGAAAGAAAAGA
1 AAGAAAAAAGAAAAAAGAAAGAAAAGA
*
776820 AAGAAAATAGAAAAAAGAAAGAAAAG-
1 AAGAAAAAAGAAAAAAGAAAGAAAAGA
*
776846 AA-AAAATAGAAAAAAGAAA-AAAGAGGA
1 AAGAAAAAAGAAAAAAGAAAGAAA-A-GA
* *
776873 AAAAAAAAAGAAAAAAAAAAG
1 AAGAAAAAAGAAAAAAGAAAG
776894 GGGTTCAAGG
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
24 3 0.05
25 18 0.27
26 3 0.05
27 27 0.41
28 15 0.23
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (27 bp):
AAGAAAAAAGAAAAAAGAAAGAAAAGA
Found at i:776833 original size:25 final size:24
Alignment explanation
Indices: 776805--776893 Score: 80
Period size: 24 Copynumber: 3.7 Consensus size: 24
776795 GAAAAAAGAA
776805 AAAAGAAAGAAAAGAAAGAAAATAG
1 AAAAGAAAGAAAA-AAAGAAAATAG
*
776830 AAAAAAGAAAGAAAAGAA-AAAATAG
1 --AAAAGAAAGAAAAAAAGAAAATAG
*
776855 -AAA-AAAGAAAAAAGAGGAAAA-AA
1 AAAAGAAAGAAAAAA-A-GAAAATAG
776878 AAAAGAAA-AAAAAAAG
1 AAAAGAAAGAAAAAAAG
776894 GGGTTCAAGG
Statistics
Matches: 54, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
21 9 0.17
22 5 0.09
23 2 0.04
24 13 0.24
25 10 0.19
26 2 0.04
27 13 0.24
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (24 bp):
AAAAGAAAGAAAAAAAGAAAATAG
Found at i:776891 original size:32 final size:32
Alignment explanation
Indices: 776793--776893 Score: 114
Period size: 32 Copynumber: 3.1 Consensus size: 32
776783 ATTATGCTTG
*
776793 AAGAAAAAAGAAAAAAGAAAGAAAAGAAAGAAAA
1 AAGAAAAAAGAAGAAA-AAA-AAAAGAAAGAAAA
* * *
776827 TAGAAAAAAGAAAGAAAAGAAAAA-ATAGAAAA
1 AAGAAAAAAG-AAGAAAAAAAAAAGAAAGAAAA
* *
776859 AAGAAAAAAGAGGAAAAAAAAAAGAAAAAAAA
1 AAGAAAAAAGAAGAAAAAAAAAAGAAAGAAAA
776891 AAG
1 AAG
776894 GGGTTCAAGG
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
31 11 0.20
32 25 0.45
33 4 0.07
34 11 0.20
35 5 0.09
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (32 bp):
AAGAAAAAAGAAGAAAAAAAAAAGAAAGAAAA
Found at i:777238 original size:16 final size:17
Alignment explanation
Indices: 777219--777264 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 17
777209 CTATTTCAAG
*
777219 TTCAATTTATT-GGAGA
1 TTCAATTTATTGGGAAA
777235 TTCAATTTATTTTGGGAAA
1 TTCAATTTA--TTGGGAAA
777254 TTCAATTTATT
1 TTCAATTTATT
777265 CTTCTATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 9 0.35
17 2 0.08
18 2 0.08
19 13 0.50
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (17 bp):
TTCAATTTATTGGGAAA
Found at i:778228 original size:84 final size:84
Alignment explanation
Indices: 778019--778495 Score: 833
Period size: 84 Copynumber: 5.7 Consensus size: 84
778009 AAACATTAAC
*
778019 TAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTGGAC
1 TAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
*
778084 AGAACAATCA-T-TGAATT
66 AGAACAATCATTGTGAGTT
*
778101 AAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
778166 AGAACAATCATTGTGAGTT
66 AGAACAATCATTGTGAGTT
778185 TAGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 TAGAAGATGAATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
*
778249 CAGAACAATCA-T-TGAATT
65 CAGAACAATCATTGTGAGTT
*
778267 AAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
778332 AGAACAATCATTGTGAGTT
66 AGAACAATCATTGTGAGTT
778351 TAGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
1 TAGAAGATGAATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
778415 CAGAACAATCATTGTGAGTT
65 CAGAACAATCATTGTGAGTT
778435 TAGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
1 TAGAAGATGAATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
778496 TGGTAGGAAC
Statistics
Matches: 380, Mismatches: 8, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
82 150 0.39
83 6 0.02
84 224 0.59
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (84 bp):
TAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
AGAACAATCATTGTGAGTT
Found at i:778293 original size:166 final size:166
Alignment explanation
Indices: 778019--778495 Score: 877
Period size: 166 Copynumber: 2.9 Consensus size: 166
778009 AAACATTAAC
*
778019 TAGAAGATGAATTTGCTC-ATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTGGA
1 TAGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGA
778083 CAGAACAATCATTGAATTAAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
65 CAGAACAATCATTGAATTAAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
778148 TATCTGATCTGGTTGGACAGAACAATCATTGTGAGTT
130 TATCTGATCTGGTTGGACAGAACAATCATTGTGAGTT
778185 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
778250 AGAACAATCATTGAATTAAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT
66 AGAACAATCATTGAATTAAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT
778315 ATCTGATCTGGTTGGACAGAACAATCATTGTGAGTT
131 ATCTGATCTGGTTGGACAGAACAATCATTGTGAGTT
778351 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
1 TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
* *
778416 AGAACAATCATTGTGAGTTTAGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGA
66 AGAACAATCA-T-TGAATTAAGAAGATGAATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGA
778480 GTTATCTGATCTGGTT
128 GTTATCTGATCTGGTT
778496 TGGTAGGAAC
Statistics
Matches: 304, Mismatches: 3, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
165 1 0.00
166 238 0.78
167 2 0.01
168 63 0.21
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (166 bp):
TAGAAGATGAATTTGCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGAC
AGAACAATCATTGAATTAAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTT
ATCTGATCTGGTTGGACAGAACAATCATTGTGAGTT
Found at i:778459 original size:250 final size:248
Alignment explanation
Indices: 778020--778495 Score: 891
Period size: 250 Copynumber: 1.9 Consensus size: 248
778010 AACATTAACT
778020 AGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTGGACA
1 AGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTGGACA
778085 GAACAATCATTGAATTAAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
66 GAACAATCATTGAATTAAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
778150 TCTGATCTGGTTGGACAGAACAATCATTGTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCT
131 TCTGATCTGGTTGGACAGAACAATCATTGTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCT
778215 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTA
196 GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTA
*
778268 AGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACA
1 AGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTGGACA
* *
778333 GAACAATCATTGTGAGTTTAGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAG
66 GAACAATCA-T-TGAATTAAGAAGATGAATTTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAG
778397 TTATCTGATCTGGTTGGACAGAACAATCATTGTGAGTTTAGAAGATGAATTTGCCAATAGCATCT
128 TTATCTGATCTGGTTGGACAGAACAATCATTGTGAGTTTAGAAGATGAATTTGCCAATAGCATCT
778462 TCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
193 TCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTT
778496 TGGTAGGAAC
Statistics
Matches: 222, Mismatches: 3, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
248 73 0.33
249 2 0.01
250 147 0.66
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (248 bp):
AGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTGGACA
GAACAATCATTGAATTAAGAAGATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
TCTGATCTGGTTGGACAGAACAATCATTGTGAGTTTAGAAGATGAATTTGCCAATAGCATCTTCT
GGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAACAATCATTGAATTA
Found at i:779414 original size:113 final size:113
Alignment explanation
Indices: 779216--779776 Score: 876
Period size: 116 Copynumber: 4.9 Consensus size: 113
779206 GATTCAAATC
* *
779216 CATCACTTGATGGAGCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
779281 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
*
779329 CATCACTTGATGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
779394 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
* * * *
779442 CATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
1 CATCACTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGA
779506 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
62 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
* * * *
779558 CATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
1 CATCACTTGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGA
779622 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
62 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
* * * *
779674 CATCAATTGATGGATTATCTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAA
1 CATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
779738 AGAAGAAGTTCATAATAAGAAGAATTTATTCAACCTTTT
66 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
779777 TAATGACTCT
Statistics
Matches: 427, Mismatches: 16, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
112 52 0.12
113 154 0.36
115 19 0.04
116 201 0.47
117 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
CATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
Found at i:779630 original size:229 final size:224
Alignment explanation
Indices: 779216--779776 Score: 838
Period size: 229 Copynumber: 2.5 Consensus size: 224
779206 GATTCAAATC
* * * * *
779216 CATCACTTGATGGAGCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCAATTGATGGATCAACATTGCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
779281 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCA
65 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCA
* * *
779346 TCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
130 ACATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATAATG
779411 AGAAGAATTTGTTCAACCTTTTACCTGAATT
194 AGAAGAATTTGTTCAACCTTTTACCTGAATT
*
779442 CATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGA
1 CATCAATTGATGGATCAACATTGCCAGAG-A-AGTTCATAATGAGAAGAA--C-TCATCTGAAGA
*
779506 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCATTTGATGG
61 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGG
*
779571 ATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGGAAGAAGAAGT
126 ATCAACATTGCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGG-AGAAGAAGT
779635 TCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
186 TCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATT
* * * * *
779674 CATCAATTGATGGATTATCTTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA
1 CATCAATTGATGGATCAACATTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
779739 GAAGAAGTTCATAATAAGAAGAATTTATTCAACCTTTT
66 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
779777 TAATGACTCT
Statistics
Matches: 307, Mismatches: 19, Indels: 16
0.90 0.06 0.05
Matches are distributed among these distances:
225 2 0.01
226 40 0.13
228 53 0.17
229 106 0.35
231 19 0.06
232 86 0.28
233 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.29
Consensus pattern (224 bp):
CATCAATTGATGGATCAACATTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCAA
CATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAGTTCATAATGAG
AAGAATTTGTTCAACCTTTTACCTGAATT
Found at i:780101 original size:3 final size:3
Alignment explanation
Indices: 780095--780185 Score: 157
Period size: 3 Copynumber: 30.7 Consensus size: 3
780085 TTTTTATCCA
*
780095 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
780143 TA- TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
780186 AATATATATT
Statistics
Matches: 84, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
2 2 0.02
3 82 0.98
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:780212 original size:14 final size:15
Alignment explanation
Indices: 780184--780218 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
780174 TTATTATTAT
780184 TAAATATATATTAAA
1 TAAATATATATTAAA
780199 TAAATATATA-TAAA
1 TAAATATATATTAAA
780213 TAAATA
1 TAAATA
780219 ATTACAGACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
TAAATATATATTAAA
Found at i:780672 original size:24 final size:24
Alignment explanation
Indices: 780627--780672 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
780617 ACCCCAACCT
* *
780627 GAAAAAAAAAAGAACGGGGAGACA
1 GAAAAAAAAAAGAACAGAGAGACA
* *
780651 GAAAAAAAGAAGGACAGAGAGA
1 GAAAAAAAAAAGAACAGAGAGA
780673 AAGATACAAA
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:0.63, C:0.07, G:0.30, T:0.00
Consensus pattern (24 bp):
GAAAAAAAAAAGAACAGAGAGACA
Found at i:780673 original size:20 final size:21
Alignment explanation
Indices: 780631--780674 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
780621 CAACCTGAAA
**
780631 AAAAAAAGAACGGGGAGACAG
1 AAAAAAAGAACGGACAGACAG
*
780652 AAAAAAAGAA-GGACAGAGAG
1 AAAAAAAGAACGGACAGACAG
780672 AAA
1 AAA
780675 GATACAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.64, C:0.07, G:0.30, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAACGGACAGACAG
Found at i:781506 original size:18 final size:19
Alignment explanation
Indices: 781473--781508 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
781463 ATTTAGTCAG
781473 TTATTTTATATGTTTTTAT
1 TTATTTTATATGTTTTTAT
781492 TTATTTTAT-TGTTTTTA
1 TTATTTTATATGTTTTTA
781509 AATATATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (19 bp):
TTATTTTATATGTTTTTAT
Found at i:781573 original size:20 final size:21
Alignment explanation
Indices: 781533--781576 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
781523 GTAGTATTTT
**
781533 TATTTTTATTATATTGTTAAA
1 TATTTTTATTATATTCATAAA
781554 TATTTTTA-TATATTCATAAA
1 TATTTTTATTATATTCATAAA
781574 TAT
1 TAT
781577 ATATATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTTTTATTATATTCATAAA
Found at i:790878 original size:3 final size:3
Alignment explanation
Indices: 790870--790897 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
790860 TTGATCTCTG
790870 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
790898 GCAGGATAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:795716 original size:3 final size:3
Alignment explanation
Indices: 795704--795738 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
795694 ATAGTCACAG
795704 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
795739 AATTAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:801784 original size:13 final size:13
Alignment explanation
Indices: 801766--801791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
801756 AATTTAAATT
801766 AAAATAAATATAA
1 AAAATAAATATAA
801779 AAAATAAATATAA
1 AAAATAAATATAA
801792 TATTTACATA
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:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATAAATATAA
Found at i:806585 original size:2 final size:2
Alignment explanation
Indices: 806578--806627 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
806568 CTGTTATGGA
806578 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
806620 AT AT AT AT
1 AT AT AT AT
806628 CAACATCTAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:807149 original size:25 final size:25
Alignment explanation
Indices: 807120--807170 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
807110 AGCTATCGTT
*
807120 TTCACTCATCTAATGATCCTAAATC
1 TTCACTCATCTAACGATCCTAAATC
807145 TTCACTCATCTAACGATCCTAAATC
1 TTCACTCATCTAACGATCCTAAATC
807170 T
1 T
807171 ATATAGAACT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.29, G:0.04, T:0.35
Consensus pattern (25 bp):
TTCACTCATCTAACGATCCTAAATC
Found at i:807672 original size:57 final size:59
Alignment explanation
Indices: 807604--807718 Score: 146
Period size: 59 Copynumber: 2.0 Consensus size: 59
807594 GGAACTAATG
* *
807604 AATAATCAAGTGA-C-TTAAT-AAAATAGTATAATGACTAAACAAAGTAACACTCTATAA
1 AATAATCAAGTGACCATT-ATGAAAATAGCAGAATGACTAAACAAAGTAACACTCTATAA
* ** *
807661 AATAATCAAGTGACCATTTTGTTAATAGCAGAATGACTCAACAAAGTAACACTCTATA
1 AATAATCAAGTGACCATTATGAAAATAGCAGAATGACTAAACAAAGTAACACTCTATA
807719 GTTGAAAGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
57 13 0.27
58 2 0.04
59 34 0.69
ACGTcount: A:0.48, C:0.15, G:0.10, T:0.27
Consensus pattern (59 bp):
AATAATCAAGTGACCATTATGAAAATAGCAGAATGACTAAACAAAGTAACACTCTATAA
Found at i:815073 original size:5 final size:5
Alignment explanation
Indices: 815057--815092 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
815047 CATTGTATCT
*
815057 ATAAA ATGAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
815093 AATATTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:815369 original size:15 final size:16
Alignment explanation
Indices: 815349--815405 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
815339 GTTTACTTCA
*
815349 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
815364 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
* *
815380 GAATGAATCAAATGCT
1 GAATGATTCAAACGCT
*
815396 TAATGATTCA
1 GAATGATTCA
815406 GAACCTCTGT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 8 0.22
16 28 0.78
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:815382 original size:16 final size:16
Alignment explanation
Indices: 815361--815405 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
815351 ATGATTAAGC
815361 GCTGAATGATTCAAAT
1 GCTGAATGATTCAAAT
*
815377 GCTGAATGAATCAAAT
1 GCTGAATGATTCAAAT
*
815393 GCTTAATGATTCA
1 GCTGAATGATTCA
815406 GAACCTCTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (16 bp):
GCTGAATGATTCAAAT
Found at i:832457 original size:2 final size:2
Alignment explanation
Indices: 832450--832496 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
832440 AAATAAGACA
832450 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
832492 AT AT A
1 AT AT A
832497 GCACGAACCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:835201 original size:59 final size:59
Alignment explanation
Indices: 835123--835303 Score: 233
Period size: 59 Copynumber: 3.1 Consensus size: 59
835113 TCGGATGATA
*
835123 ATTTTGTAACTTGTAATAGTCAGAGGACTCAACAATCAATATCTTATAGTCAAATGACT
1 ATTTTGTAACTTGTAATAGTCAGAGGACTCAACAATCAATATCTTATAGTCAAAGGACT
* * *
835182 ATTTTGTAACTTGTAATAGTCAGAGGACTCAAAAATCAACATCTTATAGTCGAAGGACT
1 ATTTTGTAACTTGTAATAGTCAGAGGACTCAACAATCAATATCTTATAGTCAAAGGACT
* * * * *
835241 ATTTTATAACTT-TAGATAGTC-GAGTAACTCAACAAAACAATA-CTTATAGTCGAAGGACA
1 ATTTTGTAACTTGTA-ATAGTCAGAG-GACTCAAC-AATCAATATCTTATAGTCAAAGGACT
835300 ATTT
1 ATTT
835304 GTATTCTTCA
Statistics
Matches: 109, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
58 5 0.05
59 98 0.90
60 6 0.06
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (59 bp):
ATTTTGTAACTTGTAATAGTCAGAGGACTCAACAATCAATATCTTATAGTCAAAGGACT
Found at i:837531 original size:35 final size:35
Alignment explanation
Indices: 837468--837557 Score: 94
Period size: 35 Copynumber: 2.6 Consensus size: 35
837458 TATTACTCGA
* *
837468 CTCGTTGCTTGTTAATCTCGATACTCGTTG-TTCG-
1 CTCGTTGCTCGTTAAGCTCGATACTCGTTGCTT-GT
**
837502 CTTCGTTGCTCGTTAAGCTCGATGTTCGTTGCTTGT
1 C-TCGTTGCTCGTTAAGCTCGATACTCGTTGCTTGT
**
837538 CTAATTGCTCGTTAAGCTCG
1 CTCGTTGCTCGTTAAGCTCG
837558 CTAAAATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
34 1 0.02
35 43 0.91
36 3 0.06
ACGTcount: A:0.12, C:0.23, G:0.22, T:0.42
Consensus pattern (35 bp):
CTCGTTGCTCGTTAAGCTCGATACTCGTTGCTTGT
Found at i:846972 original size:185 final size:184
Alignment explanation
Indices: 846761--847132 Score: 609
Period size: 185 Copynumber: 2.0 Consensus size: 184
846751 ATTAAATTTT
* ** *
846761 AAATATTAAATATATTATATATAACATATGGGATCCGCCCAAACCATTTAAAATCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGATAAGCCCAAACCATTTAAAACCCAATTAATAA
*
846826 TTTAAGATACAATAACTTTTAAACCTAATTCAATATTAATTAATTAAAAAAATTATATAAAATTT
66 TTTAAGATACAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
* *
846891 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
* * *
846946 AAATATTATATATATTATATATAACATATGAGATAAGCCCACATCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGATAAGCCCAAACCATTTAAAACCCAATTAATAA
* * * *
847011 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTATCTGAAATTT
66 TTTAAGATACAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
847076 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
847130 AAA
1 AAA
847133 CATTTAATTT
Statistics
Matches: 173, Mismatches: 14, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
184 16 0.09
185 157 0.91
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.41
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGAGATAAGCCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATACAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
Found at i:848095 original size:2 final size:2
Alignment explanation
Indices: 848088--848115 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
848078 AAGAATCTTT
848088 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
848116 GTAAATACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:849343 original size:30 final size:31
Alignment explanation
Indices: 849257--849354 Score: 135
Period size: 31 Copynumber: 3.2 Consensus size: 31
849247 GTTTGAAAAA
* *
849257 AAAAATTAAAAGTTTAGATACTAAAACGAAC
1 AAAAATTAATAGTTTAGATACTAAAACAAAC
* **
849288 AAAAATTGATAGTTTAGGCACTAAAACAAAC
1 AAAAATTAATAGTTTAGATACTAAAACAAAC
*
849319 CAAAATTAATAG-TTAGATACTAAAACAAAC
1 AAAAATTAATAGTTTAGATACTAAAACAAAC
849349 AAAAAT
1 AAAAAT
849355 GATCATTTTG
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
30 21 0.37
31 36 0.63
ACGTcount: A:0.57, C:0.11, G:0.09, T:0.22
Consensus pattern (31 bp):
AAAAATTAATAGTTTAGATACTAAAACAAAC
Found at i:853464 original size:20 final size:20
Alignment explanation
Indices: 853441--853483 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
853431 ATAATGTAAA
853441 AAATAT-TTTATT-TTTGTATG
1 AAATATCTTT-TTATTTG-ATG
853461 AAATATCTTTTTATTTGATG
1 AAATATCTTTTTATTTGATG
853481 AAA
1 AAA
853484 ATCGTTAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.53
Consensus pattern (20 bp):
AAATATCTTTTTATTTGATG
Found at i:857651 original size:130 final size:130
Alignment explanation
Indices: 857510--857757 Score: 433
Period size: 130 Copynumber: 1.9 Consensus size: 130
857500 TATTTATATA
*
857510 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* *
857575 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTTACCACCTAATTATTTATATATGCT
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
857640 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
* * * *
857705 TTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTAATTA
66 TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTA
857758 GAAGAAAATT
Statistics
Matches: 111, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 111 1.00
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTG
TTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCT
Found at i:857788 original size:130 final size:129
Alignment explanation
Indices: 857524--857788 Score: 318
Period size: 130 Copynumber: 2.0 Consensus size: 129
857514 ATTTGGTCCT
* *
857524 AAATTAAATAAAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
857589 TGACACGTGTCATTGGTGACACATGTTACCACCTAATTATTTATATATGCTATCAATTTGGTCCT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
857654 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
* * * * *
857719 TGATATGTGTTATTGGTGACACATGTCACCTCCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACGTGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
857783 -A
128 CA
857784 AAATT
1 AAATT
857789 TGGGTCTTGG
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
130 101 0.89
132 8 0.07
133 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAATCAGGATCTGACATGTGTTAACACATGATCA
TGACACGTGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:858102 original size:28 final size:27
Alignment explanation
Indices: 858071--858133 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
858061 AGTTGATACA
*
858071 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
858099 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
858127 ATATTTT
1 ATATTTT
858134 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:858234 original size:16 final size:18
Alignment explanation
Indices: 858213--858246 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
858203 ATTTCTTATT
858213 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
858229 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
858247 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:858393 original size:21 final size:21
Alignment explanation
Indices: 858369--858411 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
858359 TATTACCTTA
858369 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
858390 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
858411 A
1 A
858412 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:858429 original size:35 final size:35
Alignment explanation
Indices: 858380--858465 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
858370 ATTGAAGTAT
** * *
858380 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
858415 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
858450 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
858466 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:860412 original size:29 final size:29
Alignment explanation
Indices: 860367--860472 Score: 185
Period size: 29 Copynumber: 3.7 Consensus size: 29
860357 CTTCCCAGCA
* *
860367 TAGGTCGCCATGCACTCCGGGCGACCTTA
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
*
860396 TAAGTCGCCATGCACTCCTGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
860425 TAGGTCGCCATGCACTCCTGGCGACCTTG
1 TAGGTCGCCATGCACTCCTGGCGACCTTG
860454 TAGGTCGCCATGCACTCCT
1 TAGGTCGCCATGCACTCCT
860473 CCTCCTCGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 73 1.00
ACGTcount: A:0.16, C:0.35, G:0.25, T:0.24
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCTGGCGACCTTG
Found at i:860562 original size:14 final size:14
Alignment explanation
Indices: 860529--860555 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
860519 GCTCGAATGG
860529 CCTCGGTCGGATGC
1 CCTCGGTCGGATGC
860543 CCTCGGTCGGATG
1 CCTCGGTCGGATG
860556 GTTTCGGATG
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:0.07, C:0.33, G:0.37, T:0.22
Consensus pattern (14 bp):
CCTCGGTCGGATGC
Found at i:861758 original size:29 final size:29
Alignment explanation
Indices: 861725--861809 Score: 73
Period size: 31 Copynumber: 2.9 Consensus size: 29
861715 TGAGTCCTTT
*
861725 AACTATTAAAAGTTATAAAATGATCTATC
1 AACTATTAAAAGTTATAAAATGATCCATC
* ****
861754 AACTA-TAGAAAGTTGTTTTGTTGAGTCCATC
1 AACTATTA-AAAGTT-ATAAAATGA-TCCATC
*
861785 AACTATTAAAAGTTACAAAATGATC
1 AACTATTAAAAGTTATAAAATGATC
861810 ACCTGATTAT
Statistics
Matches: 40, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
28 2 0.05
29 13 0.32
30 7 0.17
31 16 0.40
32 2 0.05
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (29 bp):
AACTATTAAAAGTTATAAAATGATCCATC
Found at i:873863 original size:3 final size:3
Alignment explanation
Indices: 873855--873886 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
873845 CTATAATGTT
*
873855 ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
873887 TTTGTGACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:874284 original size:3 final size:3
Alignment explanation
Indices: 874271--874301 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
874261 TATTATCATG
874271 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
874302 GTTATTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:876649 original size:59 final size:59
Alignment explanation
Indices: 876532--876646 Score: 135
Period size: 58 Copynumber: 2.0 Consensus size: 59
876522 ATCGAGTGGC
* * * * * *
876532 CATTTTGTAACATTTAAATATTTAAGGGATTCAACAAAGTATCTCTCTAGTCGAGGGAT
1 CATTTTGTAACATTTAAATAATTAAGAGACTCAACAAAATATATCTATAGTCGAGGGAT
* *
876591 CATTTTGTAAC-TTTTAATAATTAAGAGACTCAATAAAATAATATCTATAGTC-AGGG
1 CATTTTGTAACATTTAAATAATTAAGAGACTCAACAAAAT-ATATCTATAGTCGAGGG
876647 GATATTGTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
58 26 0.55
59 21 0.45
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (59 bp):
CATTTTGTAACATTTAAATAATTAAGAGACTCAACAAAATATATCTATAGTCGAGGGAT
Found at i:880299 original size:2 final size:2
Alignment explanation
Indices: 880292--880322 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
880282 AATGTATCAC
880292 TA TA TA TA TA TA TA 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 T
880323 TTCTTTATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:881326 original size:2 final size:2
Alignment explanation
Indices: 881319--881389 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
881309 CAAAACATTA
881319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
881361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
881390 AAATTGTAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:885242 original size:5 final size:5
Alignment explanation
Indices: 885232--885261 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
885222 TATATGGTCG
885232 TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT
1 TAGAT TAGAT TAGAT TAGAT TAGAT TAGAT
885262 CATGTTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
TAGAT
Found at i:888174 original size:16 final size:17
Alignment explanation
Indices: 888153--888204 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 17
888143 TTTTTAATTT
888153 AATTACT-TAACTTTCA
1 AATTACTCTAACTTTCA
888169 AATTACTCCTAA-TTT--
1 AATTACT-CTAACTTTCA
*
888184 AATCACTCTAACTTTCA
1 AATTACTCTAACTTTCA
888201 AATT
1 AATT
888205 TATTTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 4 0.14
15 9 0.31
16 7 0.24
17 6 0.21
18 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTACTCTAACTTTCA
Found at i:888797 original size:16 final size:16
Alignment explanation
Indices: 888773--888819 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
888763 CATTATGGTA
*
888773 ATTTTTTTTTAAAAAT
1 ATTTATTTTTAAAAAT
*
888789 ATTTATTTTTTAAAAT
1 ATTTATTTTTAAAAAT
*
888805 ATATATTTTTAAAAA
1 ATTTATTTTTAAAAA
888820 CAAATTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTTATTTTTAAAAAT
Found at i:890154 original size:42 final size:43
Alignment explanation
Indices: 890095--890208 Score: 178
Period size: 42 Copynumber: 2.7 Consensus size: 43
890085 TTTTCTCAAA
890095 TTCTCGTGTTTGTTTCACGTAATTCGTTTTTC-GAAAAATGTT
1 TTCTCGTGTTTGTTTCACGTAATTCGTTTTTCTGAAAAATGTT
890137 TTCTCGTGTTTGTTTCACGTAATTCG-TTTTCTGAAAAATGTT
1 TTCTCGTGTTTGTTTCACGTAATTCGTTTTTCTGAAAAATGTT
* * * *
890179 TTCCCATGTTTGTTTAACGTAATTGGTTTT
1 TTCTCGTGTTTGTTTCACGTAATTCGTTTT
890209 CCGGAATGTA
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
41 5 0.08
42 58 0.88
43 3 0.05
ACGTcount: A:0.18, C:0.14, G:0.17, T:0.51
Consensus pattern (43 bp):
TTCTCGTGTTTGTTTCACGTAATTCGTTTTTCTGAAAAATGTT
Found at i:890433 original size:22 final size:22
Alignment explanation
Indices: 890408--890489 Score: 65
Period size: 24 Copynumber: 3.5 Consensus size: 22
890398 ATTTATTTAT
890408 TAATATTTATAATAATATAATA
1 TAATATTTATAATAATATAATA
* *
890430 TAATATTTTTAATATTATATAAAA
1 TAATATTTATAATA--ATATAATA
* * *
890454 TAATCAATTATATTATTAATAATA
1 TAAT-ATTTATAATAAT-ATAATA
*
890478 TAAGATATTATA
1 TAATAT-TTATA
890490 TTTTTATTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
22 13 0.28
23 2 0.04
24 24 0.52
25 7 0.15
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (22 bp):
TAATATTTATAATAATATAATA
Found at i:890473 original size:31 final size:30
Alignment explanation
Indices: 890400--890514 Score: 96
Period size: 31 Copynumber: 3.8 Consensus size: 30
890390 TATTATTTAT
890400 TTAT-TTATTAATATT-TATAATAATATAA
1 TTATATTATTAATATTATATAATAATATAA
*
890428 TATAATATTTTTAATATTATATAA-AATAATCAA
1 T-T-ATATTATTAATATTATATAATAAT-AT-AA
* * *
890461 TTATATTATTAATAATATA-AGATATTATAT
1 TTATATTATTAATATTATATA-ATAATATAA
* *
890491 TTTTATT-TTAATAATATATAATAA
1 TTATATTATTAATATTATATAATAA
890515 AAAATTTATA
Statistics
Matches: 71, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
28 1 0.01
29 15 0.21
30 11 0.15
31 31 0.44
32 10 0.14
33 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
TTATATTATTAATATTATATAATAATATAA
Found at i:890478 original size:29 final size:27
Alignment explanation
Indices: 890410--890566 Score: 83
Period size: 29 Copynumber: 5.6 Consensus size: 27
890400 TTATTTATTA
890410 ATATTTATAATAATAT--AAT-ATAA-T
1 ATATTT-TAATAATATAAAATAATAATT
890434 AT-TTTTAATATTATATAAAATAATCAATT
1 ATATTTTAATA--ATATAAAATAAT-AATT
* *
890463 ATATTATTAATAATATAAGATATTATATTT
1 ATATT-TTAATAATATAA-A-ATAATAATT
* * *
890493 TTATTTTAATAATATATAATAAAAAATTT
1 ATATTTTAATAATATAAAAT-AATAA-TT
* * *
890522 ATATATTTAATAATGA-ATAATATTATTT
1 ATAT-TTTAATAAT-ATAAAATAATAATT
890550 ATATATTTAAATAATAT
1 ATAT-TTT-AATAATAT
890567 TTTAATAAAG
Statistics
Matches: 105, Mismatches: 11, Indels: 29
0.72 0.08 0.20
Matches are distributed among these distances:
22 5 0.05
23 3 0.03
24 6 0.06
26 3 0.03
27 4 0.04
28 16 0.15
29 33 0.31
30 24 0.23
31 11 0.10
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (27 bp):
ATATTTTAATAATATAAAATAATAATT
Found at i:890595 original size:23 final size:23
Alignment explanation
Indices: 890569--890613 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
890559 AATAATATTT
890569 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
890592 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
890614 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:890740 original size:19 final size:20
Alignment explanation
Indices: 890708--890746 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
890698 TAATAAAATT
890708 ATAAAAAAAATA-TTTAATA
1 ATAAAAAAAATATTTTAATA
* *
890727 ATAAATAAATTATTTTAATA
1 ATAAAAAAAATATTTTAATA
890747 TTTTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
ATAAAAAAAATATTTTAATA
Found at i:890766 original size:22 final size:22
Alignment explanation
Indices: 890729--890787 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
890719 ATTTAATAAT
* *
890729 AAATAAATTATTTTAATATTTTA
1 AAATAAATAATATTAA-ATTTTA
890752 AAAT-AATAATATTAAATTTTA
1 AAATAAATAATATTAAATTTTA
**
890773 TGATAAATAATATTA
1 AAATAAATAATATTA
890788 TTTATTACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 8 0.26
22 19 0.61
23 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (22 bp):
AAATAAATAATATTAAATTTTA
Found at i:890989 original size:29 final size:31
Alignment explanation
Indices: 890956--891034 Score: 90
Period size: 36 Copynumber: 2.5 Consensus size: 31
890946 TTCCAAAAAT
*
890956 GTAATTCATTTTCC-AG-AATTCAAATTTCA
1 GTAATTCATTTTCCTAGTAATTCAAATTCCA
890985 GTAATTCATTTTTCAGTTCTAGTAATTCAAATTCCA
1 GTAATTCA-TTTTC----CTAGTAATTCAAATTCCA
891021 GTAATTCATTTTCC
1 GTAATTCATTTTCC
891035 GGAAAATCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
29 8 0.19
30 5 0.12
31 1 0.02
34 1 0.02
35 7 0.17
36 20 0.48
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (31 bp):
GTAATTCATTTTCCTAGTAATTCAAATTCCA
Found at i:890998 original size:15 final size:15
Alignment explanation
Indices: 890956--891001 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
890946 TTCCAAAAAT
*
890956 GTAATTCATTTTCCA
1 GTAATTCATTTTTCA
**
890971 G-AATTCAAATTTCA
1 GTAATTCATTTTTCA
890985 GTAATTCATTTTTCA
1 GTAATTCATTTTTCA
891000 GT
1 GT
891002 TCTAGTAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (15 bp):
GTAATTCATTTTTCA
Found at i:891034 original size:15 final size:15
Alignment explanation
Indices: 890956--891034 Score: 54
Period size: 15 Copynumber: 4.9 Consensus size: 15
890946 TTCCAAAAAT
890956 GTAATTCATTTTCCA
1 GTAATTCATTTTCCA
*
890971 G-AATTCAAATTT-CA
1 GTAATTC-ATTTTCCA
890985 GTAATTCATTTTTCAGTTCTA
1 GTAATTCA-TTTTC----C-A
**
891006 GTAATTCAAATTCCA
1 GTAATTCATTTTCCA
891021 GTAATTCATTTTCC
1 GTAATTCATTTTCC
891035 GGAAAATCAA
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
14 9 0.18
15 26 0.53
16 1 0.02
20 4 0.08
21 9 0.18
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (15 bp):
GTAATTCATTTTCCA
Found at i:895581 original size:20 final size:20
Alignment explanation
Indices: 895556--895593 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
895546 TTTGGTTCAC
895556 GGAATGTAAGATTATCAGTG
1 GGAATGTAAGATTATCAGTG
895576 GGAATGTAAGATTATCAG
1 GGAATGTAAGATTATCAG
895594 AGAATATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.05, G:0.29, T:0.29
Consensus pattern (20 bp):
GGAATGTAAGATTATCAGTG
Found at i:895811 original size:20 final size:20
Alignment explanation
Indices: 895786--895827 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
895776 TTAAATTCAT
895786 AATATTTATATATTTTTTAC
1 AATATTTATATATTTTTTAC
895806 AATATTTATATATTTTTTAC
1 AATATTTATATATTTTTTAC
895826 AA
1 AA
895828 AATTAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (20 bp):
AATATTTATATATTTTTTAC
Found at i:896879 original size:16 final size:16
Alignment explanation
Indices: 896858--896888 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
896848 TTAGCTTATA
896858 CTTGTAATATTATTAC
1 CTTGTAATATTATTAC
896874 CTTGTAATATTATTA
1 CTTGTAATATTATTA
896889 TTTTAAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.52
Consensus pattern (16 bp):
CTTGTAATATTATTAC
Found at i:897629 original size:15 final size:15
Alignment explanation
Indices: 897608--897646 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
897598 AAATCATTTC
*
897608 ATGAATTACTGGAAT
1 ATGAATTACTGGAAA
*
897623 TTGAATTACTGGAAA
1 ATGAATTACTGGAAA
897638 ATGAATTAC
1 ATGAATTAC
897647 ATTTCTGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (15 bp):
ATGAATTACTGGAAA
Found at i:897660 original size:20 final size:20
Alignment explanation
Indices: 897631--897698 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
897621 ATTTGAATTA
897631 CTGGAAAATGAATTACATTT
1 CTGGAAAATGAATTACATTT
*
897651 CTGTAAAATGAATTACATTT
1 CTGGAAAATGAATTACATTT
897671 CTGGAAAATGAATTACATTT
1 CTGGAAAATGAATTACATTT
897691 CTGGAAAA
1 CTGGAAAA
897699 CATCTGGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (20 bp):
CTGGAAAATGAATTACATTT
Found at i:897921 original size:30 final size:28
Alignment explanation
Indices: 897864--897954 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 28
897854 CTTTACTAAA
*
897864 ATATTATTGAAATATATAAATAATATTAT
1 ATATTATT-AAATATATAAAAAATATTAT
897893 -TCATTATTAAATATATAAAAAATTTATTAT
1 AT-ATTATTAAATATATAAAAAA--TATTAT
*
897923 ATATTATT-AA-A-ATAAAAAATATAAT
1 ATATTATTAAATATATAAAAAATATTAT
*
897948 ATCTTAT
1 ATATTAT
897955 ATTATTATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
25 11 0.20
27 8 0.15
28 15 0.27
29 8 0.15
30 12 0.22
31 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (28 bp):
ATATTATTAAATATATAAAAAATATTAT
Found at i:897990 original size:33 final size:33
Alignment explanation
Indices: 897957--898033 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 33
897947 TATCTTATAT
897957 TATTAT-AATATAAT-TGAT-TATT-TTATATAA
1 TATTATAAATATAATATGATATATTATTATA-AA
* *
897987 TATTAAAAATATAATATTATATATTATTATAAA
1 TATTATAAATATAATATGATATATTATTATAAA
898020 TATTAATAAATATA
1 TATT-ATAAATATA
898034 TTTTAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
30 5 0.13
31 8 0.21
32 3 0.08
33 10 0.26
34 13 0.33
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (33 bp):
TATTATAAATATAATATGATATATTATTATAAA
Found at i:897991 original size:15 final size:16
Alignment explanation
Indices: 897953--898033 Score: 53
Period size: 18 Copynumber: 5.0 Consensus size: 16
897943 ATAATATCTT
897953 ATATTATTATAATATA
1 ATATTATTATAATATA
*
897969 ATTGATTATT-TTATATA
1 A-T-ATTATTATAATATA
*
897986 ATATTA--AAAATATA
1 ATATTATTATAATATA
*
898000 ATATTATATATTATTATAA
1 ATATTAT-TA-TAATAT-A
*
898019 ATATTAATA-AATATA
1 ATATTATTATAATATA
898034 TTTTAAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 17
0.68 0.09 0.23
Matches are distributed among these distances:
14 11 0.22
15 5 0.10
16 6 0.12
17 9 0.18
18 12 0.24
19 7 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (16 bp):
ATATTATTATAATATA
Found at i:898013 original size:36 final size:34
Alignment explanation
Indices: 897960--898033 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 34
897950 CTTATATTAT
897960 TATAATATAATTGATTATTTTATATAATATTAA-AAA
1 TATAATATAATTGATTA--TTATA-AATATTAATAAA
*
897996 TATAATATTATAT-ATTATTATAAATATTAATAAA
1 TATAATATAAT-TGATTATTATAAATATTAATAAA
898030 TATA
1 TATA
898034 TTTTAAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
33 8 0.23
34 12 0.34
36 14 0.40
37 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (34 bp):
TATAATATAATTGATTATTATAAATATTAATAAA
Found at i:898014 original size:24 final size:25
Alignment explanation
Indices: 897979--898059 Score: 80
Period size: 24 Copynumber: 3.4 Consensus size: 25
897969 ATTGATTATT
*
897979 TTATATAATATTAAAAATA-TAATA
1 TTATATATTATTAAAAATATTAATA
*
898003 TTATATATTATTATAAATATTAATA
1 TTATATATTATTAAAAATATTAATA
* * *
898028 -AATATATT-TTAAATATTTTAATAA
1 TTATATATTATTAAAAATATTAAT-A
898052 TTA-ATATT
1 TTATATATT
898060 TTGATGAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
23 11 0.23
24 30 0.64
25 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TTATATATTATTAAAAATATTAATA
Found at i:898040 original size:21 final size:19
Alignment explanation
Indices: 897999--898044 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
897989 TTAAAAATAT
*
897999 AATATTATATATTATTATA
1 AATATTATAAATTATTATA
*
898018 AATATTAATAAATATATTTTA
1 AATATT-ATAAAT-TATTATA
898039 AATATT
1 AATATT
898045 TTAATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 5 0.22
21 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AATATTATAAATTATTATA
Found at i:898043 original size:54 final size:52
Alignment explanation
Indices: 897921--898044 Score: 137
Period size: 54 Copynumber: 2.3 Consensus size: 52
897911 AAAATTTATT
* **
897921 ATATATTATTAAA-ATAAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATATCTTATATTATTATAATATAATAA
897973 AT-TATTTTATATAATATTAAAAATATAATAT-TATATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATATCT-TATATTATTAT-AATA-TAATAA
898029 ATATATTTTAAATATT
1 ATATATTTTAAATATT
898045 TTAATAATTA
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
51 3 0.05
52 6 0.10
53 3 0.05
54 32 0.52
55 6 0.10
56 9 0.15
57 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.48
Consensus pattern (52 bp):
ATATATTTTAAATATTAAAAATATAATATCTTATATTATTATAATATAATAA
Found at i:898044 original size:33 final size:33
Alignment explanation
Indices: 897975--898052 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 33
897965 TATAATTGAT
*
897975 TATTTTATATAATATTAAAAATATAATATTATA
1 TATTTTATATAATATTAAAAATATAATATTAAA
*
898008 TATTATTATA-AATATTAATAAATAT-ATTTTAAA
1 TATT-TTATATAATATTAA-AAATATAATATTAAA
898041 TATTTTA-ATAAT
1 TATTTTATATAAT
898053 TAATATTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
31 1 0.03
32 6 0.15
33 22 0.55
34 11 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (33 bp):
TATTTTATATAATATTAAAAATATAATATTAAA
Found at i:898292 original size:42 final size:42
Alignment explanation
Indices: 898233--898352 Score: 195
Period size: 42 Copynumber: 2.9 Consensus size: 42
898223 ATGAATTACA
* * *
898233 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
*
898275 TTCCGAAAAACGAATTACGTGAAACAAATACGGAAAAACATT
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
*
898317 TTTCGAAAAACGAATTACGTGAAACAAACACGGAAA
1 TTCCGAAAAACGAATTACGTGAAACAAACACGGAAA
898353 TTCGGGGAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.17
Consensus pattern (42 bp):
TTCCGAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
Found at i:899456 original size:24 final size:24
Alignment explanation
Indices: 899425--899481 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
899415 GTATGTGGAA
*
899425 ATGATGATGTTTTGTTGTATGGTG
1 ATGATGATGTTTTGGTGTATGGTG
899449 ATGATGATGTTTTGGTGTATGGTG
1 ATGATGATGTTTTGGTGTATGGTG
899473 ATGATGATG
1 ATGATGATG
899482 AGTTGAGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (24 bp):
ATGATGATGTTTTGGTGTATGGTG
Found at i:900422 original size:17 final size:17
Alignment explanation
Indices: 900400--900432 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
900390 CTTATTAATT
900400 TTATTTTGATT-ATTTAA
1 TTATTTT-ATTGATTTAA
900417 TTATTTTATTGATTTA
1 TTATTTTATTGATTTA
900433 TCTTTACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTATTTTATTGATTTAA
Found at i:905367 original size:45 final size:44
Alignment explanation
Indices: 905284--905381 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 44
905274 GCATGATAAG
*
905284 TTCTAATAATTTTTTTTTTGAATTTGTAACTTTGATGTGATAGA
1 TTCTAATAATTTTTTTTTTGAATTTGTAACTTTAATGTGATAGA
* * **
905328 TTCTTATAATTTTTTTTTTGGAATTTGTTA-TCTTAATGTGACGGA
1 TTCTAATAATTTTTTTTTT-GAATTTGTAACT-TTAATGTGATAGA
905373 TTCTAATAA
1 TTCTAATAA
905382 AAAATTTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
44 19 0.41
45 27 0.59
ACGTcount: A:0.27, C:0.06, G:0.13, T:0.54
Consensus pattern (44 bp):
TTCTAATAATTTTTTTTTTGAATTTGTAACTTTAATGTGATAGA
Found at i:907913 original size:28 final size:28
Alignment explanation
Indices: 907805--907907 Score: 152
Period size: 28 Copynumber: 3.5 Consensus size: 28
907795 AATTGAACTA
*
907805 AAAATTTAGTGACCGTAATGTATGTTTT
1 AAAATTTAGTGACCGTAATGTATATTTT
907833 AAAATTTAATTTAGTGACCGTAATGTATATTTT
1 --AA---AATTTAGTGACCGTAATGTATATTTT
907866 AAAATTTAGTGACCGTAATGTATATTTT
1 AAAATTTAGTGACCGTAATGTATATTTT
907894 AAAATTTAGTGACC
1 AAAATTTAGTGACC
907908 AAAATGAAAG
Statistics
Matches: 69, Mismatches: 1, Indels: 8
0.88 0.01 0.10
Matches are distributed among these distances:
28 40 0.58
30 2 0.03
31 2 0.03
33 25 0.36
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.42
Consensus pattern (28 bp):
AAAATTTAGTGACCGTAATGTATATTTT
Found at i:913636 original size:26 final size:26
Alignment explanation
Indices: 913603--913658 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
913593 AATACAAAAA
913603 CAAA-TTTTAGAT-TAAAAAATATACT
1 CAAACTTTTA-ATCTAAAAAATATACT
* *
913628 CAAACTTTTAATCTAAAAATTATATT
1 CAAACTTTTAATCTAAAAAATATACT
913654 CAAAC
1 CAAAC
913659 CCTACTCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (26 bp):
CAAACTTTTAATCTAAAAAATATACT
Found at i:914389 original size:20 final size:20
Alignment explanation
Indices: 914364--914457 Score: 125
Period size: 20 Copynumber: 4.7 Consensus size: 20
914354 TTTTCCCAAT
*
914364 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
** *
914384 TCGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAA-TAAGTAAA
*
914405 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
*
914425 TCACAACGCGAATAAGTAAA
1 TCGCAACGCGAATAAGTAAA
914445 TCGCAACGCGAAT
1 TCGCAACGCGAAT
914458 TGGGAAAATC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
20 46 0.74
21 16 0.26
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAATAAGTAAA
Found at i:914407 original size:21 final size:20
Alignment explanation
Indices: 914364--914476 Score: 109
Period size: 20 Copynumber: 5.5 Consensus size: 20
914354 TTTTCCCAAT
* *
914364 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGAAAA
**
914384 TCGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAA-TAAGAAAA
* *
914405 TCGCAATGCGAATAAGTAAA
1 TCGCAACGCGAATAAGAAAA
* *
914425 TCACAACGCGAATAAGTAAA
1 TCGCAACGCGAATAAGAAAA
**
914445 TCGCAACGCGAATTGGGAAAA
1 TCGCAACGCGAA-TAAGAAAA
*
914466 TCGCAATGCGA
1 TCGCAACGCGA
914477 TACTTACTAT
Statistics
Matches: 76, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
20 45 0.59
21 31 0.41
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAATAAGAAAA
Found at i:914534 original size:20 final size:20
Alignment explanation
Indices: 914509--914559 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
914499 ATACAAAATT
*
914509 GCAACGAGATACTGACTTTC
1 GCAACGCGATACTGACTTTC
*
914529 GCAACGCGATTCTGACTTTC
1 GCAACGCGATACTGACTTTC
914549 GCAACGCGATA
1 GCAACGCGATA
914560 ATACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (20 bp):
GCAACGCGATACTGACTTTC
Found at i:914775 original size:22 final size:22
Alignment explanation
Indices: 914747--914790 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
914737 CACTCTCTCA
914747 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
914769 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
914791 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:915063 original size:20 final size:20
Alignment explanation
Indices: 915034--915077 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
915024 GCGATTTTAG
915034 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* **
915054 TTTCGTGTTGCGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
915074 TTTC
1 TTTC
915078 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.20, T:0.50
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:916417 original size:18 final size:18
Alignment explanation
Indices: 916396--916439 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
916386 TCCACTTCGG
*
916396 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
916414 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
916432 GAG-CATCA
1 GAGCCATCA
916440 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.27, C:0.43, G:0.16, T:0.14
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:916847 original size:12 final size:13
Alignment explanation
Indices: 916830--916858 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
916820 TTTGTTAGTA
916830 TTTGTTTTTGT-T
1 TTTGTTTTTGTCT
916842 TTTGTTTTTGTCT
1 TTTGTTTTTGTCT
916855 TTTG
1 TTTG
916859 GTTGAAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.00, C:0.03, G:0.17, T:0.79
Consensus pattern (13 bp):
TTTGTTTTTGTCT
Found at i:916969 original size:19 final size:20
Alignment explanation
Indices: 916915--916970 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
916905 TAGTTTACTT
* *
916915 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
916935 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
*
916955 TCGCAATGC-GAAATGA
1 TCGCAACGCGGAAATGA
916971 AAATCGCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:916976 original size:19 final size:19
Alignment explanation
Indices: 916954--917048 Score: 70
Period size: 19 Copynumber: 5.6 Consensus size: 19
916944 GGAAATGGCT
916954 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
916973 ATCGCAAT--G--A-CAAA
1 ATCGCAATGCGAAATGAAA
* *
916987 ATCAC-ACGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
917004 ATCGCAA--CG-AA--AAA
1 ATCGCAATGCGAAATGAAA
*
917018 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
917037 ATCGCAATGCGA
1 ATCGCAATGCGA
917049 TTTGTGTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 24
0.66 0.07 0.27
Matches are distributed among these distances:
13 1 0.02
14 16 0.28
15 4 0.07
16 4 0.07
17 10 0.17
18 1 0.02
19 22 0.38
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:917003 original size:32 final size:33
Alignment explanation
Indices: 916962--917045 Score: 127
Period size: 31 Copynumber: 2.6 Consensus size: 33
916952 CTATCGCAAT
*
916962 GCGAAATGAAAATCGCAATGACAAAATCAC-AC
1 GCGAAATGAAAATCGCAATGAAAAAATCACAAC
* *
916994 GCGAAATG-AAATCGCAACGAAAAAATCGCAAC
1 GCGAAATGAAAATCGCAATGAAAAAATCACAAC
917026 GCGAAATGAAAATCGCAATG
1 GCGAAATGAAAATCGCAATG
917046 CGATTTGTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
31 18 0.39
32 18 0.39
33 10 0.22
ACGTcount: A:0.49, C:0.20, G:0.19, T:0.12
Consensus pattern (33 bp):
GCGAAATGAAAATCGCAATGAAAAAATCACAAC
Found at i:917021 original size:14 final size:14
Alignment explanation
Indices: 916970--917026 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
916960 ATGCGAAATG
* *
916970 AAAATCGCAATGAC
1 AAAATCGCAACGAA
* *
916984 AAAATCACACGCGAA
1 AAAATCGCA-ACGAA
916999 ATGAAATCGCAACGAA
1 A--AAATCGCAACGAA
917015 AAAATCGCAACG
1 AAAATCGCAACG
917027 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
14 19 0.56
15 3 0.09
16 5 0.15
17 7 0.21
ACGTcount: A:0.51, C:0.23, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAA
Found at i:917079 original size:14 final size:14
Alignment explanation
Indices: 917060--917116 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
917050 TTGTGTTTCG
917060 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
917074 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
* *
917090 CGCGTGTGATTTTGT
1 CG-TTGCGATTTTGT
*
917105 CATTGCGATTTT
1 CGTTGCGATTTT
917117 CATTTCGCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
14 19 0.58
15 3 0.09
16 4 0.12
17 7 0.21
ACGTcount: A:0.11, C:0.16, G:0.25, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:917104 original size:31 final size:33
Alignment explanation
Indices: 917055--917132 Score: 115
Period size: 32 Copynumber: 2.4 Consensus size: 33
917045 GCGATTTGTG
*
917055 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCATTGCGATTTTCA
*
917087 TTTCGCG-TGTGATTTTGTCATTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCATTGCGATTTTCA
*
917119 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
917133 AGCCATTTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
31 17 0.43
32 18 0.45
33 5 0.12
ACGTcount: A:0.12, C:0.18, G:0.23, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCATTGCGATTTTCA
Found at i:917129 original size:19 final size:19
Alignment explanation
Indices: 917105--917171 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
917095 GTGATTTTGT
**
917105 CATTGCGATTTTCATTTCG
1 CATTGCGATAGTCATTTCG
*
917124 CATTGCGATAGCCATTTCCG
1 CATTGCGATAGTCATTT-CG
*
917144 CGTTGCGATAGTCATTTCG
1 CATTGCGATAGTCATTTCG
*
917163 CGTTGCGAT
1 CATTGCGAT
917172 TTTAAGTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 25 0.60
20 17 0.40
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.37
Consensus pattern (19 bp):
CATTGCGATAGTCATTTCG
Found at i:917151 original size:20 final size:19
Alignment explanation
Indices: 917117--917171 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
917107 TTGCGATTTT
*
917117 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
917136 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
917156 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
917172 TTTAAGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:919205 original size:19 final size:19
Alignment explanation
Indices: 919183--919236 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
919173 ATCGCAACGA
*
919183 GAAAATCGTAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
919202 GAAAATCGCAATGCAAAAT
1 GAAAATCGCAATGCGAAAT
919221 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
919237 TTTTCATTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:919312 original size:20 final size:20
Alignment explanation
Indices: 919255--919312 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
919245 TCGCATTGCG
* *
919255 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
919275 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
919295 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
919313 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:920399 original size:24 final size:24
Alignment explanation
Indices: 920372--920425 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
920362 GTATTCAAAA
* *
920372 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
920396 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
920420 TTTGAT
1 TTTGAT
920426 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Done.