Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 196 of 228
Found at i:57764870 original size:21 final size:21
Alignment explanation
Indices: 57764846--57764886 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
57764836 CACTGTTCTA
*
57764846 ATAAAGATTTTT-TTTTAAATT
1 ATAAA-ATTTTTATTCTAAATT
57764867 ATAAAATTTTTATTCTAAAT
1 ATAAAATTTTTATTCTAAAT
57764887 ACATTTTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (21 bp):
ATAAAATTTTTATTCTAAATT
Found at i:57765903 original size:25 final size:26
Alignment explanation
Indices: 57765865--57765914 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
57765855 TTGGTTTCTA
*
57765865 TATTATATAATATATATAG-ATTTTG
1 TATTATATAATATATAAAGTATTTTG
*
57765890 TATTATATATTATATAAAGTATTTT
1 TATTATATAATATATAAAGTATTTT
57765915 CAAATAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (26 bp):
TATTATATAATATATAAAGTATTTTG
Found at i:57768006 original size:7 final size:7
Alignment explanation
Indices: 57767996--57768037 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
57767986 AATCTAAAAT
57767996 TAAACCC
1 TAAACCC
57768003 TAAACCC
1 TAAACCC
57768010 TAAACCC
1 TAAACCC
57768017 TAAACCC
1 TAAACCC
*
57768024 TCAACCC
1 TAAACCC
*
57768031 TCAACCC
1 TAAACCC
57768038 AACAACCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (7 bp):
TAAACCC
Found at i:57769654 original size:27 final size:28
Alignment explanation
Indices: 57769624--57769682 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
57769614 AAATTTTAGA
57769624 TTTAATTATATATATACATATATA-TTT
1 TTTAATTATATATATACATATATACTTT
* * *
57769651 TTTATTTATATATATACTTCTATACTTT
1 TTTAATTATATATATACATATATACTTT
57769679 TTTA
1 TTTA
57769683 TACTTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (28 bp):
TTTAATTATATATATACATATATACTTT
Found at i:57769740 original size:29 final size:28
Alignment explanation
Indices: 57769695--57769758 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
57769685 CTTTAAAATT
*
57769695 TATATATATTATACATACAT-TTTTATAA
1 TATATATAATATACATACATATTTT-TAA
57769723 TATATATACATATACATACATATTTTTAA
1 TATATATA-ATATACATACATATTTTTAA
*
57769752 TTTATAT
1 TATATAT
57769759 CTTTTTACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
28 8 0.25
29 20 0.62
30 4 0.12
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (28 bp):
TATATATAATATACATACATATTTTTAA
Found at i:57769767 original size:29 final size:29
Alignment explanation
Indices: 57769686--57769768 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
57769676 TTTTTTATAC
* *
57769686 TTTAAAATTTATATATATTATACATACATT
1 TTTATAATTTATATCT-TTATACATACATT
* *
57769716 TTTATAATATATATAC-ATATACATACATAT
1 TTTATAATTTATAT-CTTTATACATACAT-T
*
57769746 TTT-TAATTTATATCTTTTTACAT
1 TTTATAATTTATATCTTTATACAT
57769769 TTTTAAATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
28 1 0.02
29 26 0.60
30 16 0.37
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (29 bp):
TTTATAATTTATATCTTTATACATACATT
Found at i:57769787 original size:23 final size:23
Alignment explanation
Indices: 57769744--57769787 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
57769734 ATACATACAT
* *
57769744 ATTTTTAATTTATATCTTTTTAC
1 ATTTTTAATGTATATCATTTTAC
57769767 ATTTTTAAATGTAT-TCATTTT
1 ATTTTT-AATGTATATCATTTT
57769788 CTTTATTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (23 bp):
ATTTTTAATGTATATCATTTTAC
Found at i:57771073 original size:13 final size:13
Alignment explanation
Indices: 57771055--57771084 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
57771045 TCCAGCAACT
57771055 ATGAATTTATTTC
1 ATGAATTTATTTC
*
57771068 ATGAATTTATTTG
1 ATGAATTTATTTC
57771081 ATGA
1 ATGA
57771085 TTATCCAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:57771254 original size:50 final size:50
Alignment explanation
Indices: 57771179--57771471 Score: 478
Period size: 50 Copynumber: 5.8 Consensus size: 50
57771169 ATTTGGGTAA
*
57771179 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
57771229 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
57771279 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
57771329 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
57771379 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
57771429 AGAACATCCCATGTAAGACCATGTCTGGGACAAGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
57771472 TGTTATGATC
Statistics
Matches: 226, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
50 193 0.85
51 33 0.15
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:57773559 original size:20 final size:20
Alignment explanation
Indices: 57773536--57773581 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
57773526 GGGTTAAGAT
57773536 TGAGCTAAATTGAGCTCGAA-
1 TGAGCTAAATTGAGCTC-AAG
* *
57773556 TGAGCTGACTTGAGCTCAAG
1 TGAGCTAAATTGAGCTCAAG
57773576 TGAGCT
1 TGAGCT
57773582 GGAAACGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (20 bp):
TGAGCTAAATTGAGCTCAAG
Found at i:57773582 original size:20 final size:20
Alignment explanation
Indices: 57773545--57773582 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57773535 TTGAGCTAAA
57773545 TTGAGCTCGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTGAC
57773565 TTGAGCTC-AAGTGAGCTG
1 TTGAGCTCGAA-TGAGCTG
57773583 GAAACGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTGAC
Found at i:57781134 original size:29 final size:30
Alignment explanation
Indices: 57781081--57781137 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
57781071 TCCGGGCCTT
57781081 GGGGCAAAAATGTAATTATGCAAAAGTTTA
1 GGGGCAAAAATGTAATTATGCAAAAGTTTA
*
57781111 GGGGC-AAAATCGTAATTTTG-AAAAGTT
1 GGGGCAAAAAT-GTAATTATGCAAAAGTT
57781138 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 12 0.48
30 13 0.52
ACGTcount: A:0.40, C:0.07, G:0.25, T:0.28
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGCAAAAGTTTA
Found at i:57781369 original size:13 final size:13
Alignment explanation
Indices: 57781351--57781380 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
57781341 TCCAGCAACT
57781351 ATGAATTTATTTC
1 ATGAATTTATTTC
*
57781364 ATGAATTTATTTG
1 ATGAATTTATTTC
57781377 ATGA
1 ATGA
57781381 TTATCCAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:57781550 original size:50 final size:50
Alignment explanation
Indices: 57781475--57781767 Score: 487
Period size: 50 Copynumber: 5.8 Consensus size: 50
57781465 ATTTGGGTAA
*
57781475 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
57781525 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
57781575 AGAGGTCTCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
57781625 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
57781675 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
57781725 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
57781768 TGTTATGATC
Statistics
Matches: 227, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
50 193 0.85
51 34 0.15
ACGTcount: A:0.25, C:0.23, G:0.32, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:57783961 original size:22 final size:21
Alignment explanation
Indices: 57783936--57783993 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 21
57783926 TAAACATTAT
57783936 ACCATAAACCTTAAAGCTCTAA
1 ACCATAAACCTTAAAGCT-TAA
* * *
57783958 ACCATAGACATTAAATCTTAA
1 ACCATAAACCTTAAAGCTTAA
*
57783979 ATTC-TAAACCTTAAA
1 A-CCATAAACCTTAAA
57783994 CATTAAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (21 bp):
ACCATAAACCTTAAAGCTTAA
Found at i:57784242 original size:40 final size:40
Alignment explanation
Indices: 57784198--57784301 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
57784188 AACATTTTTT
* *
57784198 GCGGTGTTTTCCT-AAAAGCGCCGCAAATACTCGATCTATA
1 GCGGTATTTT-CTAAAAAGCGCCGCAAATACTCGATATATA
* *
57784238 GCGGTATTTTCTAAAAAGCGCCGCTAATACTTGATATATA
1 GCGGTATTTTCTAAAAAGCGCCGCAAATACTCGATATATA
* * * *
57784278 GCGGCATTTTATTAATAGCGCCGC
1 GCGGTATTTTCTAAAAAGCGCCGC
57784302 TAATGCGACT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.04
40 53 0.96
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (40 bp):
GCGGTATTTTCTAAAAAGCGCCGCAAATACTCGATATATA
Found at i:57784302 original size:40 final size:40
Alignment explanation
Indices: 57784211--57784305 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
57784201 GTGTTTTCCT
* * * *
57784211 AAAAGCGCCGCAAATACTCGATCTATAGCGGTATTTTCTA
1 AAAAGCGCCGCTAATACTCGATATATAGCGGCATTTTATA
* *
57784251 AAAAGCGCCGCTAATACTTGATATATAGCGGCATTTTATT
1 AAAAGCGCCGCTAATACTCGATATATAGCGGCATTTTATA
*
57784291 AATAGCGCCGCTAAT
1 AAAAGCGCCGCTAAT
57784306 GCGACTAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (40 bp):
AAAAGCGCCGCTAATACTCGATATATAGCGGCATTTTATA
Found at i:57789223 original size:21 final size:21
Alignment explanation
Indices: 57789193--57789232 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
57789183 TAACAGGACC
57789193 GCTGACGTGGCAAGTTAACCA
1 GCTGACGTGGCAAGTTAACCA
*
57789214 GCTGATGTGGCAAGTTAAC
1 GCTGACGTGGCAAGTTAAC
57789233 TTGCCACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (21 bp):
GCTGACGTGGCAAGTTAACCA
Found at i:57789848 original size:6 final size:6
Alignment explanation
Indices: 57789707--57789836 Score: 98
Period size: 6 Copynumber: 20.7 Consensus size: 6
57789697 TTCTATTTCA
**
57789707 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTCA
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
** * * ** *
57789755 ATTTTG AAACACTCACTA ATTCTG ATTTTG ATTTTG ATTTCA ATTTCG
1 ATTTTG ----A-T-TTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
* * *
57789803 ATCTCG ATTTAG ATTTTG ATTTTG ATTTTG ATTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTT
57789837 CAATTTGGAT
Statistics
Matches: 101, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
6 96 0.95
7 1 0.01
8 1 0.01
10 1 0.01
11 1 0.01
12 1 0.01
ACGTcount: A:0.22, C:0.08, G:0.13, T:0.57
Consensus pattern (6 bp):
ATTTTG
Found at i:57790327 original size:15 final size:15
Alignment explanation
Indices: 57790307--57790336 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57790297 GAAATGTTTG
57790307 GTAGTGATGTGTCTA
1 GTAGTGATGTGTCTA
*
57790322 GTAGTGATTTGTCTA
1 GTAGTGATGTGTCTA
57790337 ATAGGATAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.07, G:0.30, T:0.43
Consensus pattern (15 bp):
GTAGTGATGTGTCTA
Found at i:57793825 original size:28 final size:29
Alignment explanation
Indices: 57793794--57793858 Score: 66
Period size: 28 Copynumber: 2.3 Consensus size: 29
57793784 ACATATACGT
57793794 ATATACATAT-ATAAG-CAAATATATAATA
1 ATATACATATAATAAGACAAATATATAA-A
* *
57793822 ATATTA-ATATAATAAGACACATATTTAAA
1 ATA-TACATATAATAAGACAAATATATAAA
57793851 AT-TACATA
1 ATATACATA
57793859 AGTAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
27 2 0.06
28 10 0.32
29 10 0.32
30 9 0.29
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (29 bp):
ATATACATATAATAAGACAAATATATAAA
Found at i:57793910 original size:3 final size:3
Alignment explanation
Indices: 57793888--57793934 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
57793878 ATATAATGAG
* * *
57793888 AAT AAC AAT GAT ATAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
57793934 A
1 A
57793935 TAAAATTTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:57795130 original size:17 final size:17
Alignment explanation
Indices: 57795108--57795143 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
57795098 ATTAGTTTTC
57795108 GGCTT-GTTGGGTATTTG
1 GGCTTGGTT-GGTATTTG
57795125 GGCTTGGTTGGTATTTG
1 GGCTTGGTTGGTATTTG
57795142 GG
1 GG
57795144 TTATGCTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.06, C:0.06, G:0.44, T:0.44
Consensus pattern (17 bp):
GGCTTGGTTGGTATTTG
Found at i:57795673 original size:46 final size:46
Alignment explanation
Indices: 57795605--57796541 Score: 1421
Period size: 46 Copynumber: 20.4 Consensus size: 46
57795595 CCATTGTATT
* * * * *
57795605 AGGAAGATAAGAT-TCACCATCTTTGATCTACTCCGCTGCCAAATAT
1 AGGAAGATAAGATCT-GCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * * *
57795651 AGGAAGACAAGACCTGCTATCTTCGATCTCCTCTGTTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
57795697 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * *
57795743 AGGAATATAAGATTTGCGATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
*
57795789 AGGAAGATAAGATCTGCTATCTTTGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
*
57795835 AGGAAGATAAGATCTGCTATCTTCGATATCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
57795881 AGGAAGACAACATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * *
57795927 AGGAAGACAAGATATGCTATCTTCGATCTCCTCCACTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
*
57795973 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCACTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
57796019 AGGAAGACAAGATCTGCTATCTTCGATCTCCTTCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
57796065 AGGAAGACT-AGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGA-TAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * *
57796111 ATGAAGATAAGATATGCTATCTTCGATCTCC-CCTGCTGCCAAATAT
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCC-GCTGCCAAATAC
*
57796157 AGGAAGATAAGATCTGTTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * * * * *
57796203 AGGAAGATAAGATATACCATTTTTGATCTCCTCTGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * * *
57796249 AGGAATACAAGATCTACTATCTTCGATCTCCTCTGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
*
57796295 AGGAAGATAAGATCTGCTATCTTTGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
57796341 AGGAAGATAAGATCTACTATCTTTGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* *
57796387 AGGAAGATAAGATCTGCTATCTTTGATCTCCTCCACTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
* * * *
57796433 AGGAAGATAAGATCTGCTATCTTTGATCTCCTCCACTGTCAAATAT
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
57796479 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
1 AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
57796525 AGGAAGATAAGATCTGC
1 AGGAAGATAAGATCTGC
57796542 AACTTCATTG
Statistics
Matches: 817, Mismatches: 69, Indels: 10
0.91 0.08 0.01
Matches are distributed among these distances:
45 3 0.00
46 811 0.99
47 3 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (46 bp):
AGGAAGATAAGATCTGCTATCTTCGATCTCCTCCGCTGCCAAATAC
Found at i:57797647 original size:21 final size:21
Alignment explanation
Indices: 57797621--57797667 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
57797611 TGTATAGCAA
57797621 GATCACCATATGCCCCAATCT
1 GATCACCATATGCCCCAATCT
** *
57797642 GATCACTTTATGCCCCATTCT
1 GATCACCATATGCCCCAATCT
57797663 GATCA
1 GATCA
57797668 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.30
Consensus pattern (21 bp):
GATCACCATATGCCCCAATCT
Found at i:57797772 original size:8 final size:8
Alignment explanation
Indices: 57797761--57797792 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
57797751 CCATTTTTAC
57797761 TTTTTCAT
1 TTTTTCAT
57797769 TTTTTCAT
1 TTTTTCAT
57797777 TTTTTCA-
1 TTTTTCAT
57797784 TTTTTCAT
1 TTTTTCAT
57797792 T
1 T
57797793 CATTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTCAT
Found at i:57797779 original size:15 final size:15
Alignment explanation
Indices: 57797752--57797792 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
57797742 TTAGCCTCTC
*
57797752 CATTTTT-ACTTTTT
1 CATTTTTCATTTTTT
57797766 CATTTTTTCATTTTTT
1 CA-TTTTTCATTTTTT
57797782 CATTTTTCATT
1 CATTTTTCATT
57797793 CATTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 2 0.08
15 14 0.58
16 8 0.33
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (15 bp):
CATTTTTCATTTTTT
Found at i:57798619 original size:21 final size:20
Alignment explanation
Indices: 57798593--57798631 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
57798583 TTTGACTTTG
*
57798593 ATTTTTTTGTTGTTTTTTTTT
1 ATTTTTTTATT-TTTTTTTTT
57798614 ATTTTTTTATTTTTTTTT
1 ATTTTTTTATTTTTTTTT
57798632 GAGTCTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.08, C:0.00, G:0.05, T:0.87
Consensus pattern (20 bp):
ATTTTTTTATTTTTTTTTTT
Found at i:57799679 original size:23 final size:23
Alignment explanation
Indices: 57799651--57799694 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
57799641 TTTTTTTACT
*
57799651 GTAGTAATTTTCGGGGTATTATA
1 GTAGTAATTTTCGGGATATTATA
57799674 GTAGTAATTTTCGGGATATTA
1 GTAGTAATTTTCGGGATATTA
57799695 CATACATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.05, G:0.25, T:0.43
Consensus pattern (23 bp):
GTAGTAATTTTCGGGATATTATA
Found at i:57802825 original size:6 final size:6
Alignment explanation
Indices: 57802788--57802830 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
57802778 CCAAACACAC
* *
57802788 CAGTATA CAGTAA TCAGTAA CGGTAG CAGTAA CAGTAA CAGTA
1 CAGTA-A CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
57802831 TTCAACACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
6 20 0.65
7 11 0.35
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (6 bp):
CAGTAA
Found at i:57802878 original size:45 final size:45
Alignment explanation
Indices: 57802814--57802993 Score: 254
Period size: 45 Copynumber: 4.0 Consensus size: 45
57802804 GTAACGGTAG
* ** *
57802814 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
* *
57802859 CAGTAACAGTAATAGTATTCGACACACAAAGTGCCGAATCGGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
57802904 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
* * * *
57802949 TCAGTAACAGTAACAGTAGTCGGCACA-TAAGTGCCTAATCAGTAA
1 -CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
57802994 GCCGGCAAAT
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
45 99 0.80
46 24 0.20
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
Found at i:57806867 original size:13 final size:13
Alignment explanation
Indices: 57806849--57806876 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57806839 GAATCATAAA
57806849 ATATAAAATACAT
1 ATATAAAATACAT
57806862 ATATAAAATACAT
1 ATATAAAATACAT
57806875 AT
1 AT
57806877 TTTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATAAAATACAT
Found at i:57807030 original size:12 final size:12
Alignment explanation
Indices: 57807015--57807044 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
57807005 GTATATAAGT
*
57807015 ATATATATAAAA
1 ATATATAAAAAA
57807027 ATATATAAAAAA
1 ATATATAAAAAA
57807039 ATATAT
1 ATATAT
57807045 GTATATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
ATATATAAAAAA
Found at i:57807071 original size:3 final size:3
Alignment explanation
Indices: 57807063--57807092 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
57807053 AAAAGCAATT
*
57807063 ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
57807093 TGAAATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:57808388 original size:28 final size:28
Alignment explanation
Indices: 57808356--57808419 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
57808346 CCTCTTTCCC
* ** *
57808356 CTCCACTGGGTCTTGTTTCTTTGATCCA
1 CTCCACTGGATCTTGTCGCTTCGATCCA
*
57808384 CTCCACTGTATCTTGTCGCTTCGATCCA
1 CTCCACTGGATCTTGTCGCTTCGATCCA
*
57808412 CTTCACTG
1 CTCCACTG
57808420 CAACTTCTGA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.12, C:0.33, G:0.16, T:0.39
Consensus pattern (28 bp):
CTCCACTGGATCTTGTCGCTTCGATCCA
Found at i:57808974 original size:100 final size:100
Alignment explanation
Indices: 57808796--57808984 Score: 229
Period size: 100 Copynumber: 1.9 Consensus size: 100
57808786 CCGTTACGGT
* * * * *
57808796 TTCAATCTTTTAATTGCAATGTCGGGAAAGCAAGATTCGCCATTGTGACTTTAATCTATTCCATT
1 TTCAATCTTTTAACTGCAATATCGGGAAAGCAAGATTCGCCATCGTGACTTCAATCTATTCCACT
* * *
57808861 GCATCGCCAGGGAA-GTGAGATTCGCTGTTGTAGC
66 ACACCGCCAGGGAAGGTAAGATTCGCTGTTGTAGC
* * * *
57808895 TTCAATCTATTTAACTGCAATATCGGGGAAGCGAGATTCGTCATCGT-AGCTTCAATCTGTTCCA
1 TTCAATCT-TTTAACTGCAATATCGGGAAAGCAAGATTCGCCATCGTGA-CTTCAATCTATTCCA
*
57808959 CTACACCGCCTGGGAAGGTAAGATTC
64 CTACACCGCCAGGGAAGGTAAGATTC
57808985 ATCGTCTTCG
Statistics
Matches: 74, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
99 9 0.12
100 57 0.77
101 8 0.11
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (100 bp):
TTCAATCTTTTAACTGCAATATCGGGAAAGCAAGATTCGCCATCGTGACTTCAATCTATTCCACT
ACACCGCCAGGGAAGGTAAGATTCGCTGTTGTAGC
Found at i:57809052 original size:44 final size:44
Alignment explanation
Indices: 57808989--57809577 Score: 308
Period size: 44 Copynumber: 13.4 Consensus size: 44
57808979 AGATTCATCG
* * * *
57808989 TCTTCGATCTGCTCCACTACTACTCAGGGAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTATAA
* * * **
57809033 TCTTCAATCTATTCTACTACTGCCCAGGGAGAT-AGAAT-TATTG
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAG-ATCTATAA
* * * * * *
57809076 GCTTCAATGTACTCCACTGTAAC--CACAGGGAGGTAAAATCT-TCCA
1 TCTTCAATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTAT-AA
* * * *
57809121 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTATAA
* * **
57809165 TCTTCAATCTATTCCACTACTGCCCAGGGAGAT-AGAAT-TATTG
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAG-ATCTATAA
* * * * * ****
57809208 GCTTCAATGTACTCCACTGTAAC--CACAGGGAGGTAAAATCCGCCA
1 TCTTCAATCTACTCCAC--T-ACTGCTCAGGGAGATAAGATCTATAA
* * * *
57809253 TCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTATAA
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTATAA
* * * **
57809297 TCTTCAATCTATTCCACTACTGCCCAGGGAGATAGGAT-TATCG
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTATAA
* * * * * * *
57809340 GCTTCAATGTACTCCACT-GTAGCCACAGGGAGGTAAAATCCATAA
1 TCTTCAATCTACTCCACTACT-G-CTCAGGGAGATAAGATCTATAA
* * * *
57809385 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTATAA
* * ** **
57809429 TCTTCAATCTATTCCACTGCCAAC-CAGGGAGAT-AGAAT-TATCG
1 TCTTCAATCTACTCCACT-ACTGCTCAGGGAGATAAG-ATCTATAA
* * * * * *
57809472 GCTTCAATGTACTCCACTA-TAGCCACAGGGAGGTAAAATCCATAA
1 TCTTCAATCTACTCCACTACT-G-CTCAGGGAGATAAGATCTATAA
* * * *
57809517 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
1 TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTATAA
* *
57809561 TCTTTAATCTATTCCAC
1 TCTTCAATCTACTCCAC
57809578 AGCCAACCAG
Statistics
Matches: 391, Mismatches: 124, Indels: 60
0.68 0.22 0.10
Matches are distributed among these distances:
42 5 0.01
43 76 0.19
44 234 0.60
45 70 0.18
46 6 0.02
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
TCTTCAATCTACTCCACTACTGCTCAGGGAGATAAGATCTATAA
Found at i:57809133 original size:132 final size:132
Alignment explanation
Indices: 57808989--57809927 Score: 1439
Period size: 132 Copynumber: 7.1 Consensus size: 132
57808979 AGATTCATCG
* * * *
57808989 TCTTCGATCTGCTCCACTACTACTCAGGGAGATAAGATCTGTAATCTTCAATCTATTCTACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
** * * *
57809054 GCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTTC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
57809119 CA
131 CA
*
57809121 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
** * * *
57809186 GCCCAGGGAGATAGAATTATTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
57809251 CA
131 CA
* * *
57809253 TCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTACT
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
** * ***
57809318 GCCCAGGGAGATAGGATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCCAT
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
*
57809383 AA
131 CA
*
57809385 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
* ***
57809450 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTATAGCCACAGGGAGGTAAAATCCAT
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
*
57809515 AA
131 CA
*
57809517 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCAC-AGC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTA-C
* * *
57809581 CAACCAGGGAGATAGAATTACCGGCTTCAATGTACTCCACTATAGCCACAGGGAGGTAAAATCCG
65 CAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTG
57809646 CCA
130 CCA
* ** *
57809649 TTTTTTATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
57809714 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
57809779 CA
131 CA
* * * *
57809781 TCTTCGATCTGCTCCACTACTGCTTGGGGAGATAAGATTTGTAATCTTCAATTTATTCCACTGCC
1 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
* * *
57809846 AACCAGGGAGATAGAATTATCGGCTTCAATGTAATCCACTGTAGTCATAGGGAGGTAAAATCTGC
66 AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
57809911 CA
131 CA
*
57809913 TCTTCGATTTGCTCC
1 TCTTCGATCTGCTCC
57809928 GCTGTCGATG
Statistics
Matches: 760, Mismatches: 45, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
132 760 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACC
AACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTAGCCACAGGGAGGTAAAATCTGC
CA
Found at i:57809193 original size:88 final size:88
Alignment explanation
Indices: 57808989--57809842 Score: 344
Period size: 88 Copynumber: 9.7 Consensus size: 88
57808979 AGATTCATCG
* * * * * * * *
57808989 TCTTCGATCTGCTCCACTACTACTCAGGGAGATAAGATCTGTAATCTTCAATCTATTCTACTACT
1 TCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTACT
* * *
57809054 GCCCAGGGAGAT-AGA-AT-TAT
66 GCTCAGGGAGATAAGATCTGTAA
* * * * * * *
57809074 TGGCTTCAATGTACTCCACT-GTAACCACAGGGAGGTAAAATCT-TCCATCTTCGATCTGCTCCA
1 T--CTTCAATCTACTCCACTACT-GCC-CAGGGAGATAAAATCTAT-AATCTTCAATCTACTCCA
*
57809137 CTACTGCTTAGGGAGATAAGATCTGTAA
61 CTACTGCTCAGGGAGATAAGATCTGTAA
* * *** *
57809165 TCTTCAATCTATTCCACTACTGCCCAGGGAGATAGAAT-TATTGGCTTCAATGTACTCCACTGTA
1 TCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCAC--T-
* * * * **
57809229 AC--CACAGGGAGGTAAAATCCGCCA
63 ACTGCTCAGGGAGATAAGATCTGTAA
* * * ** * *
57809253 TCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATCTTCAATCTATTCCACTACT
1 TCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTACT
* * * **
57809318 GCCCAGGGAGATAGGAT-TATCG
66 GCTCAGGGAGATAAGATCTGTAA
* * * * * * *
57809340 GCTTCAATGTACTCCACT-GTAGCCACAGGGAGGTAAAATCCATAATCTTCGATCTGCTCCACTA
1 TCTTCAATCTACTCCACTACT-GCC-CAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTA
*
57809404 CTGCTTAGGGAGATAAGATCTGTAA
64 CTGCTCAGGGAGATAAGATCTGTAA
* * *** * *** *
57809429 TCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAAT-TATCGGCTTCAATGTACTCCACTA-T
1 TCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTACT
* * * **
57809492 AGCCACAGGGAGGTAAAATCCATAA
66 -G-CTCAGGGAGATAAGATCTGTAA
* * ** * * * *
57809517 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCAC-AGC
1 TCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTA--
** * *
57809581 CAAC-CAGGGAGAT-AGA-AT-TACCG
64 CTGCTCAGGGAGATAAGATCTGTA--A
* * * **** * ** *
57809604 GCTTCAATGTACTCCACTA-TAGCCACAGGGAGGTAAAATCCGCCATTTTTTATCTGCTCCACTA
1 TCTTCAATCTACTCCACTACT-GCC-CAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTA
*
57809668 CTGCTTAGGGAGATAAGATCTGTAA
64 CTGCTCAGGGAGATAAGATCTGTAA
* * *** * *** * *
57809693 TCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAAT-TATCGGCTTCAATGTACTCCACT-GT
1 TCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTACT
* * * **
57809756 AGCCACAGGGAGGTAAAATCTGCCA
66 -G-CTCAGGGAGATAAGATCTGTAA
* * *** * * * * *
57809781 TCTTCGATCTGCTCCACTACTGCTTGGGGAGATAAGATTTGTAATCTTCAATTTATTCCACT
1 TCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCACT
57809843 GCCAACCAGG
Statistics
Matches: 544, Mismatches: 186, Indels: 74
0.68 0.23 0.09
Matches are distributed among these distances:
85 3 0.01
86 7 0.01
87 102 0.19
88 313 0.58
89 109 0.20
90 5 0.01
91 5 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (88 bp):
TCTTCAATCTACTCCACTACTGCCCAGGGAGATAAAATCTATAATCTTCAATCTACTCCACTACT
GCTCAGGGAGATAAGATCTGTAA
Found at i:57809722 original size:44 final size:44
Alignment explanation
Indices: 57809674--57809858 Score: 110
Period size: 44 Copynumber: 4.2 Consensus size: 44
57809664 ACTACTGCTT
*
57809674 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCCAACC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCCAACC
* *** *
57809718 AGGGAGAT-AGAAT-TATCGGCTTCAATGTACTCCACTGTAGCC-A-C
1 AGGGAGATAAG-ATCTGTAATCTTCAATCTACTCCAC--T-GCCAACC
* * ** * * * ** *
57809762 AGGGAGGTAAAATCTGCCATCTTCGATCTGCTCCACT-ACTGCTT
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCCAAC-C
* * * *
57809806 GGGGAGATAAGATTTGTAATCTTCAATTTATTCCACTGCCAACC
1 AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCCAACC
57809850 AGGGAGATA
1 AGGGAGATA
57809859 GAATTATCGG
Statistics
Matches: 98, Mismatches: 33, Indels: 20
0.65 0.22 0.13
Matches are distributed among these distances:
41 1 0.01
43 19 0.19
44 55 0.56
45 20 0.20
46 3 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.28
Consensus pattern (44 bp):
AGGGAGATAAGATCTGTAATCTTCAATCTACTCCACTGCCAACC
Found at i:57810100 original size:44 final size:44
Alignment explanation
Indices: 57810045--57810139 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
57810035 AATATCTGCT
* *
57810045 ATCTTCAACCTACCCCACTACT-GTTCAGGGAGCTAGGACTTA-A
1 ATCTTCCACCTACCCCACCACTGGTT-AGGGAGCTAGGACTTACA
** * *
57810088 AGTCTTCCACCTATTCCACCGCTGGTTAGGGAGCTAGGATTTACA
1 A-TCTTCCACCTACCCCACCACTGGTTAGGGAGCTAGGACTTACA
57810133 ATCTTCC
1 ATCTTCC
57810140 TCGATTTGTT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.02
44 37 0.86
45 5 0.12
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (44 bp):
ATCTTCCACCTACCCCACCACTGGTTAGGGAGCTAGGACTTACA
Found at i:57810943 original size:4 final size:4
Alignment explanation
Indices: 57810934--57810967 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
57810924 AAGTTTTATT
57810934 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
57810968 AATTTTTATA
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:57810975 original size:22 final size:22
Alignment explanation
Indices: 57810917--57810976 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
57810907 AAGTGGCCCA
*
57810917 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
57810941 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
57810962 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
57810977 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:57813293 original size:18 final size:18
Alignment explanation
Indices: 57813266--57813345 Score: 51
Period size: 18 Copynumber: 4.5 Consensus size: 18
57813256 CAAGTGAGGA
57813266 AAAAGA-AAAAGAGAATG
1 AAAAGAGAAAAGAGAATG
*
57813283 AAAAGAGAAAAAGAGATTG
1 AAAAGAG-AAAAGAGAATG
* *
57813302 -AGAGTGAAAAG-GAATG
1 AAAAGAGAAAAGAGAATG
* * *
57813318 TGAAACAGAAAAGAAAATTG
1 -AAAAGAGAAAAGAGAA-TG
57813338 AAAA-AGAA
1 AAAAGAGAA
57813346 GTTGAAGAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 11
0.71 0.13 0.16
Matches are distributed among these distances:
16 4 0.08
17 11 0.23
18 16 0.33
19 15 0.31
20 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.25, T:0.10
Consensus pattern (18 bp):
AAAAGAGAAAAGAGAATG
Found at i:57814754 original size:4 final size:4
Alignment explanation
Indices: 57814745--57814778 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
57814735 AAGTTTTATT
57814745 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
57814779 AATTTTTATA
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:57814786 original size:22 final size:22
Alignment explanation
Indices: 57814728--57814787 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
57814718 AAGTGGCCCA
*
57814728 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
57814752 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
57814773 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
57814788 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:57816038 original size:42 final size:42
Alignment explanation
Indices: 57815979--57816090 Score: 170
Period size: 42 Copynumber: 2.6 Consensus size: 42
57815969 AAGATCACCA
*
57815979 TATGCCCCGATCTGATCAAAATTTGAGCTACTCCGATCGCCT
1 TATGCCCCAATCTGATCAAAATTTGAGCTACTCCGATCGCCT
* * *
57816021 TATGCCCCAATCTGATCAAAATTTGAGCTGCTCTGATTGCCT
1 TATGCCCCAATCTGATCAAAATTTGAGCTACTCCGATCGCCT
*
57816063 TATGCCCCAATTTGATCCAAAATTTGAG
1 TATGCCCCAATCTGAT-CAAAATTTGAG
57816091 TCGCCCTTTT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
42 53 0.83
43 11 0.17
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (42 bp):
TATGCCCCAATCTGATCAAAATTTGAGCTACTCCGATCGCCT
Found at i:57816190 original size:15 final size:16
Alignment explanation
Indices: 57816172--57816207 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
57816162 CTCTCTTTCC
57816172 TTTTTTTC-TTTTCTT
1 TTTTTTTCTTTTTCTT
*
57816187 TTTTCTTCTTTTTCTT
1 TTTTTTTCTTTTTCTT
57816203 TTTTT
1 TTTTT
57816208 CCCTCTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTCTTTTTCTT
Found at i:57821380 original size:13 final size:13
Alignment explanation
Indices: 57821362--57821389 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
57821352 GAATCATAAA
57821362 ATATAAAATACAT
1 ATATAAAATACAT
57821375 ATATAAAATACAT
1 ATATAAAATACAT
57821388 AT
1 AT
57821390 TTTAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATAAAATACAT
Found at i:57821548 original size:21 final size:21
Alignment explanation
Indices: 57821522--57821562 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
57821512 ATATAAGTAT
57821522 ATATATAAAAATATATAAAAA
1 ATATATAAAAATATATAAAAA
** *
57821543 ATATATGTATATATATAAAA
1 ATATATAAAAATATATAAAA
57821563 GCAATTATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
ATATATAAAAATATATAAAAA
Found at i:57822596 original size:15 final size:15
Alignment explanation
Indices: 57822576--57822606 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57822566 CAAATTGGTT
57822576 TTGGGCCTGAGGTAG
1 TTGGGCCTGAGGTAG
*
57822591 TTGGGCTTGAGGTAG
1 TTGGGCCTGAGGTAG
57822606 T
1 T
57822607 AATTGGGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.45, T:0.32
Consensus pattern (15 bp):
TTGGGCCTGAGGTAG
Found at i:57823731 original size:17 final size:17
Alignment explanation
Indices: 57823705--57823748 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
57823695 CGAGTTTTCA
57823705 TTATTCAGATAGTTCTC
1 TTATTCAGATAGTTCTC
*
57823722 TTATTTAGATAGTTCTC
1 TTATTCAGATAGTTCTC
* *
57823739 ATAGTCAGAT
1 TTATTCAGAT
57823749 GCAAAATCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (17 bp):
TTATTCAGATAGTTCTC
Found at i:57825685 original size:20 final size:20
Alignment explanation
Indices: 57825660--57825707 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
57825650 CAATTATGGG
* *
57825660 TAATTTTTATTAATCTATTT
1 TAATTTTTATAAATCAATTT
57825680 TAATTTTTATAAATCAATTT
1 TAATTTTTATAAATCAATTT
57825700 TAATTTTT
1 TAATTTTT
57825708 TGTTTACTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATTTTTATAAATCAATTT
Found at i:57827263 original size:3 final size:3
Alignment explanation
Indices: 57827255--57827294 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
57827245 TTAAATTTAA
57827255 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
57827295 GTAAGATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:57828290 original size:24 final size:25
Alignment explanation
Indices: 57828245--57828292 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
57828235 ACTTCCATCT
57828245 ACCTTTGCTCAACTCTCTTTTCTTA
1 ACCTTTGCTCAACTCTCTTTTCTTA
*
57828270 ACCTTT-CTCTACTCT-TATTTCTT
1 ACCTTTGCTCAACTCTCT-TTTCTT
57828293 GCAAGATGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 1 0.05
24 14 0.67
25 6 0.29
ACGTcount: A:0.15, C:0.31, G:0.02, T:0.52
Consensus pattern (25 bp):
ACCTTTGCTCAACTCTCTTTTCTTA
Found at i:57832366 original size:66 final size:66
Alignment explanation
Indices: 57832260--57832395 Score: 220
Period size: 66 Copynumber: 2.1 Consensus size: 66
57832250 GGAACCTCAA
*
57832260 TTCTCTCCAGGACTTGACTATCAAAAATTGCCCAAACCTCAAGACTCTTCCGGGAAATAATATGC
1 TTCTCTCCAGGACTTGACTATCAAAAATTGCCCAAACCTCAAGACTCTTCCGGGAAACAATATGC
57832325 T
66 T
* * *
57832326 TTCTCTCCAGTG-CTTGATTATCGAAAATTGCCCAAGCCTCAAGACTCTTCCGGGAAACAATATG
1 TTCTCTCCAG-GACTTGACTATCAAAAATTGCCCAAACCTCAAGACTCTTCCGGGAAACAATATG
57832390 CT
65 CT
57832392 TTCT
1 TTCT
57832396 TCGCTTTTGG
Statistics
Matches: 65, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
66 64 0.98
67 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (66 bp):
TTCTCTCCAGGACTTGACTATCAAAAATTGCCCAAACCTCAAGACTCTTCCGGGAAACAATATGC
T
Found at i:57838436 original size:25 final size:25
Alignment explanation
Indices: 57838402--57838452 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
57838392 GCTTGGTTTC
57838402 TGTAGTATATAATATATATAG-ATTT
1 TGTAGTATATAATATATA-AGTATTT
* *
57838427 TGTATTATATATTATATAAGTATTT
1 TGTAGTATATAATATATAAGTATTT
57838452 T
1 T
57838453 CAAACAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (25 bp):
TGTAGTATATAATATATAAGTATTT
Found at i:57840635 original size:29 final size:29
Alignment explanation
Indices: 57840546--57840670 Score: 96
Period size: 29 Copynumber: 4.2 Consensus size: 29
57840536 ATTCAATACA
* *
57840546 TTTTTATAAAATTT-TACAATATTTAAAAT
1 TTTTTATAAAATTTATAAAAT-TTTATAAT
* * * *
57840575 ATTTGTTATTAATTTTAT-AATTTATTAGAAT
1 -TTT-TTATAAAATTTATAAAATT-TTATAAT
57840606 TTTTTATAAAATTTATAAAATTTTATAA-
1 TTTTTATAAAATTTATAAAATTTTATAAT
* *
57840634 TTTTTAT-AACTTTATATCAATTTTCATAAT
1 TTTTTATAAAATTTATA-AAATTTT-ATAAT
57840664 TTTTTAT
1 TTTTTAT
57840671 TTTTTTATCA
Statistics
Matches: 77, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
27 8 0.10
28 13 0.17
29 20 0.26
30 18 0.23
31 17 0.22
32 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (29 bp):
TTTTTATAAAATTTATAAAATTTTATAAT
Found at i:57840639 original size:19 final size:19
Alignment explanation
Indices: 57840585--57840642 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
57840575 ATTTGTTATT
*
57840585 AATTTTATAATTTATTAGAA
1 AATTTTATAATTT-TTATAA
** **
57840605 TTTTTTATAAAATTTATAA
1 AATTTTATAATTTTTATAA
57840624 AATTTTATAATTTTTATAA
1 AATTTTATAATTTTTATAA
57840643 CTTTATATCA
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 20 0.69
20 9 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
AATTTTATAATTTTTATAA
Found at i:57849061 original size:65 final size:65
Alignment explanation
Indices: 57848953--57849086 Score: 250
Period size: 65 Copynumber: 2.1 Consensus size: 65
57848943 TAAAACATTA
57848953 TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTAACACTGAATTCTCTTTGATTCACTGATG
1 TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTAACACTGAATTCTCTTTGATTCACTGATG
* *
57849018 TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTGAGACTGAATTCTCTTTGATTCACTGATG
1 TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTAACACTGAATTCTCTTTGATTCACTGATG
57849083 TCTA
1 TCTA
57849087 GTATTTGGTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.30
Consensus pattern (65 bp):
TCTAACATGAGAAGCTGCAAAACAAACTTCACATCTAACACTGAATTCTCTTTGATTCACTGATG
Found at i:57850710 original size:30 final size:29
Alignment explanation
Indices: 57850674--57850735 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 29
57850664 CCTTCTTTCA
*
57850674 CAAACCCAACTCCGTAAGGAGAAATGCTCG
1 CAAACCCAACTCCATAAGGAGAAATGCT-G
57850704 CAAACCCAACTCCATAAGGAGAAATGCTG
1 CAAACCCAACTCCATAAGGAGAAATGCTG
57850733 CAA
1 CAA
57850736 CATATACAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 4 0.13
30 27 0.87
ACGTcount: A:0.40, C:0.29, G:0.18, T:0.13
Consensus pattern (29 bp):
CAAACCCAACTCCATAAGGAGAAATGCTG
Found at i:57858194 original size:93 final size:93
Alignment explanation
Indices: 57858027--57858401 Score: 499
Period size: 93 Copynumber: 4.0 Consensus size: 93
57858017 TGATTGTCCA
* * * * * * *
57858027 CCAAAATTCTCTACATCTCTTGAGATGGAAATCATAGGCAAGGCATTTACCGCACAAGAACTATC
1 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACTCTC
* *
57858092 TGT-AGTTTGTATCAAGGCAGTCTTTTCT
66 T-TCATTTTGTATCAGGGCAGTCTTTTCT
* * * *
57858120 CCAACATTCTCCACATCTCTTGGGTTGGAAGTTATAGGCATAGCATTTACCCCACAAGCACTCTC
1 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACTCTC
57858185 TTCATTTTGTATCAGGGCAGTCTTTTC-
66 TTCATTTTGTATCAGGGCAGTCTTTTCT
* *
57858212 CGCAACATTCTCCATATCTCTTGGGATGGAAATTATAGGCAAAGCATTTACCCCACAAGCACTAC
1 C-CAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACT-C
57858277 -CTTCATTTTGTATCAGGGCAGTCTTTTCT
64 TCTTCATTTTGTATCAGGGCAGTCTTTTCT
* *
57858306 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTAACCAACAAGCAC-CAT
1 CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACTC-T
* *
57858370 CTTCATTTTGTA-CTGGGTCATTCTTTTCT
65 CTTCATTTTGTATCAGGG-CAGTCTTTTCT
57858399 CCA
1 CCA
57858402 GCTGGTATTT
Statistics
Matches: 252, Mismatches: 23, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
91 1 0.00
92 6 0.02
93 243 0.96
94 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (93 bp):
CCAACATTCTCCACATCTCTTGGGATGGAAATCATAGGCAAAGCATTTACCCCACAAGCACTCTC
TTCATTTTGTATCAGGGCAGTCTTTTCT
Found at i:57860181 original size:23 final size:23
Alignment explanation
Indices: 57860155--57860198 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
57860145 GTAACATTAA
57860155 TATAATTATTTT-AATTATTTATT
1 TATAA-TATTTTCAATTATTTATT
*
57860178 TATAATATTTTCTATTATTTA
1 TATAATATTTTCAATTATTTA
57860199 ATTTTTTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
TATAATATTTTCAATTATTTATT
Found at i:57871374 original size:14 final size:16
Alignment explanation
Indices: 57871355--57871386 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
57871345 TGCCTTTCTG
57871355 ATTA-TTTTAA-ATAA
1 ATTATTTTTAATATAA
57871369 ATTATTTTTAATATAA
1 ATTATTTTTAATATAA
57871385 AT
1 AT
57871387 GCGTTGCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 6 0.38
16 6 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTATTTTTAATATAA
Found at i:57876222 original size:22 final size:22
Alignment explanation
Indices: 57876197--57876244 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
57876187 TAAGACAAGT
*
57876197 AAAGAAATTATTACAGGAGATG
1 AAAGAAATTATTACAAGAGATG
57876219 AAAGAAATTATTACAAGAGATG
1 AAAGAAATTATTACAAGAGATG
57876241 AAAG
1 AAAG
57876245 GGAAAGGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.54, C:0.04, G:0.21, T:0.21
Consensus pattern (22 bp):
AAAGAAATTATTACAAGAGATG
Found at i:57883643 original size:20 final size:20
Alignment explanation
Indices: 57883615--57883652 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57883605 TAAATCATTT
*
57883615 TAAACCCTTTTTAAAAAAAA
1 TAAAACCTTTTTAAAAAAAA
57883635 TAAAACCTTTTTAAAAAA
1 TAAAACCTTTTTAAAAAA
57883653 TCCTCTCCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAACCTTTTTAAAAAAAA
Found at i:57885673 original size:22 final size:22
Alignment explanation
Indices: 57885648--57885693 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
57885638 TCAAAAACAC
*
57885648 TTTTCATCGGTTTCGTCAATTT
1 TTTTCATCGGTTTCATCAATTT
*
57885670 TTTTCATCGGTTTCATCGATTT
1 TTTTCATCGGTTTCATCAATTT
57885692 TT
1 TT
57885694 CTTTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.17, G:0.13, T:0.57
Consensus pattern (22 bp):
TTTTCATCGGTTTCATCAATTT
Found at i:57885750 original size:22 final size:23
Alignment explanation
Indices: 57885724--57885789 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
57885714 AAAAAAAAGC
57885724 AAAAAGCGCAAAAAAAAGTTGAG
1 AAAAAGCGCAAAAAAAAGTTGAG
* * **
57885747 AAAAATCGTAAAAAAAA--AAAG
1 AAAAAGCGCAAAAAAAAGTTGAG
*
57885768 CAAACAGCGCAAAAAAAAGTTG
1 -AAAAAGCGCAAAAAAAAGTTG
57885790 TCTACCTCTC
Statistics
Matches: 31, Mismatches: 9, Indels: 5
0.69 0.20 0.11
Matches are distributed among these distances:
21 2 0.06
22 14 0.45
23 15 0.48
ACGTcount: A:0.64, C:0.11, G:0.17, T:0.09
Consensus pattern (23 bp):
AAAAAGCGCAAAAAAAAGTTGAG
Found at i:57902850 original size:23 final size:23
Alignment explanation
Indices: 57902796--57902840 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
57902786 AATTTACTTC
57902796 AAATATATAAT--TTATATATTT
1 AAATATATAATGGTTATATATTT
57902817 AAATATATAATGGTTATAT-TTT
1 AAATATATAATGGTTATATATTT
57902839 AA
1 AA
57902841 TATTTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 11 0.50
22 5 0.23
23 6 0.27
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (23 bp):
AAATATATAATGGTTATATATTT
Found at i:57903009 original size:22 final size:23
Alignment explanation
Indices: 57902981--57903028 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
57902971 AGTTGATTGC
* *
57902981 ATTAAAGGATGAGAGG-TGAAGT
1 ATTAAAGGATGAAAGGAGGAAGT
57903003 ATTAAAGGATGAAAGGAGGAAGT
1 ATTAAAGGATGAAAGGAGGAAGT
57903026 ATT
1 ATT
57903029 TTCGAAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (23 bp):
ATTAAAGGATGAAAGGAGGAAGT
Found at i:57904271 original size:26 final size:25
Alignment explanation
Indices: 57904216--57904271 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
57904206 TTTTAGGGAT
**
57904216 AATTTTTTAGAATTAAAATTCCGCC
1 AATTTTTTAGAATTAAAATTCAACC
* * *
57904241 TATTTTTTAGAATTCAAATTTAACTC
1 AATTTTTTAGAATTAAAATTCAAC-C
57904267 AATTT
1 AATTT
57904272 CTACCACATA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (25 bp):
AATTTTTTAGAATTAAAATTCAACC
Found at i:57911528 original size:25 final size:26
Alignment explanation
Indices: 57911500--57911557 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
57911490 AAAAAAAGAG
*
57911500 AAAATTTTAAAGAACATAAAA-GAAA
1 AAAATATTAAAGAACATAAAACGAAA
* ** *
57911525 AAAAAATTAAATTACTTAAAACGAAA
1 AAAATATTAAAGAACATAAAACGAAA
57911551 AAAATAT
1 AAAATAT
57911558 AGAAATCAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 16 0.62
26 10 0.38
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (26 bp):
AAAATATTAAAGAACATAAAACGAAA
Found at i:57915484 original size:16 final size:18
Alignment explanation
Indices: 57915457--57915489 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
57915447 TATAATTCGG
57915457 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
57915474 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
57915490 TTTAGCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:57916830 original size:29 final size:29
Alignment explanation
Indices: 57916796--57916851 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
57916786 CGCGGAAAAT
*
57916796 GGCCCATTCCGGTAAATAATT-AAAAAACC
1 GGCCCATTCCAGTAAAT-ATTGAAAAAACC
*
57916825 GGCCCATTTCAGTAAATATTGAAAAAA
1 GGCCCATTCCAGTAAATATTGAAAAAA
57916852 AAGGGCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (29 bp):
GGCCCATTCCAGTAAATATTGAAAAAACC
Found at i:57918299 original size:21 final size:20
Alignment explanation
Indices: 57918251--57918300 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
57918241 TTTTAAAATA
57918251 TTTTTAAAATTCTTTTTTAT
1 TTTTTAAAATTCTTTTTTAT
*
57918271 TTTTTAAAATT-TTTTTGTGT
1 TTTTTAAAATTCTTTTT-TAT
57918291 TTATTTAAAA
1 TT-TTTAAAA
57918301 AACGGGTCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 15 0.56
21 7 0.26
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTTAAAATTCTTTTTTAT
Found at i:57920392 original size:24 final size:24
Alignment explanation
Indices: 57920358--57920409 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
57920348 TTTCTAGAAG
*
57920358 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGTATAATAT
*
57920382 ATTTAGCATTTATTAGTATAATTT
1 ATTTAGCATTTATTAGTATAATAT
57920406 ATTT
1 ATTT
57920410 GACCTATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (24 bp):
ATTTAGCATTTATTAGTATAATAT
Found at i:57921471 original size:25 final size:27
Alignment explanation
Indices: 57921438--57921487 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
57921428 ATTATGATAT
* *
57921438 GCAAGTAAAA-AT-AATAAGAGTCACA
1 GCAAATAAAAGATAAATAAAAGTCACA
57921463 GCAAATAAAAGATAAATAAAAGTCA
1 GCAAATAAAAGATAAATAAAAGTCA
57921488 AATTAATTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 9 0.43
26 2 0.10
27 10 0.48
ACGTcount: A:0.60, C:0.10, G:0.14, T:0.16
Consensus pattern (27 bp):
GCAAATAAAAGATAAATAAAAGTCACA
Found at i:57921916 original size:10 final size:10
Alignment explanation
Indices: 57921887--57921917 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
57921877 ATATGTAAGT
*
57921887 ATGTATATAT
1 ATGTATATAA
57921897 ATGTATATAA
1 ATGTATATAA
57921907 ATGTATATAA
1 ATGTATATAA
57921917 A
1 A
57921918 AATTATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (10 bp):
ATGTATATAA
Found at i:57921931 original size:25 final size:26
Alignment explanation
Indices: 57921903--57921967 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 26
57921893 ATATATGTAT
*
57921903 ATAAATGTATATAAAAAT-TATGAAA
1 ATAAATGTATATAAAAATATATAAAA
*
57921928 ATAAAAT-AATATAAAAAATATATAAAA
1 AT-AAATGTATAT-AAAAATATATAAAA
**
57921955 ATATGTGTATATA
1 ATAAATGTATATA
57921968 TATTTTTACA
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
25 6 0.19
26 13 0.42
27 12 0.39
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (26 bp):
ATAAATGTATATAAAAATATATAAAA
Found at i:57922014 original size:33 final size:33
Alignment explanation
Indices: 57921950--57922015 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
57921940 AAAAAATATA
*
57921950 TAAAAATATGTGTATATATATTTTTACAAAAGT
1 TAAAAATATGTGTATATATATTTATACAAAAGT
57921983 TAAAAATATGTACGTATATATA-TTATA-AAAAGT
1 TAAAAATATGT--GTATATATATTTATACAAAAGT
57922016 ATGTATATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 17 0.57
34 4 0.13
35 9 0.30
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.39
Consensus pattern (33 bp):
TAAAAATATGTGTATATATATTTATACAAAAGT
Found at i:57922022 original size:18 final size:18
Alignment explanation
Indices: 57921996--57922031 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
57921986 AAATATGTAC
57921996 GTATATATATTATAAAAA
1 GTATATATATTATAAAAA
*
57922014 GTATGTATATTATAAAAA
1 GTATATATATTATAAAAA
57922032 TATTGCATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
GTATATATATTATAAAAA
Found at i:57922164 original size:26 final size:27
Alignment explanation
Indices: 57922113--57922164 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
57922103 TAATAAGGTA
*
57922113 AGTAATAATAAATACAATAATAGTAAT
1 AGTAATAATAAATAAAATAATAGTAAT
*
57922140 AGTAATATTAAA-AAAATAATAGTAA
1 AGTAATAATAAATAAAATAATAGTAA
57922165 AAATAATGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (27 bp):
AGTAATAATAAATAAAATAATAGTAAT
Found at i:57922820 original size:2 final size:2
Alignment explanation
Indices: 57922815--57922840 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
57922805 TATATATATA
57922815 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
57922841 CGATTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:57923228 original size:13 final size:13
Alignment explanation
Indices: 57923210--57923236 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57923200 TTTTCTGATT
57923210 TGATGCTTTGGGC
1 TGATGCTTTGGGC
57923223 TGATGCTTTGGGC
1 TGATGCTTTGGGC
57923236 T
1 T
57923237 ATTAGGGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.15, G:0.37, T:0.41
Consensus pattern (13 bp):
TGATGCTTTGGGC
Found at i:57934097 original size:1 final size:1
Alignment explanation
Indices: 57934093--57934127 Score: 52
Period size: 1 Copynumber: 35.0 Consensus size: 1
57934083 ATTTTTCCTC
* *
57934093 TTTTTTCTTTTTCTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
57934128 GCCAATATGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:57934109 original size:13 final size:12
Alignment explanation
Indices: 57934091--57934127 Score: 58
Period size: 11 Copynumber: 3.1 Consensus size: 12
57934081 AAATTTTTCC
57934091 TCTTTTTTCTTTT
1 TCTTTTTT-TTTT
57934104 TCTTTTTTTTTT
1 TCTTTTTTTTTT
57934116 T-TTTTTTTTTT
1 TCTTTTTTTTTT
57934127 T
1 T
57934128 GCCAATATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.46
12 5 0.21
13 8 0.33
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:57934226 original size:11 final size:12
Alignment explanation
Indices: 57934207--57934241 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
57934197 TTTGATATTG
57934207 TTCTCTTTTTTT
1 TTCTCTTTTTTT
57934219 TT-TCTTTTTTT
1 TTCTCTTTTTTT
*
57934230 TTCCCTTTTTTT
1 TTCTCTTTTTTT
57934242 ACTATTAAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTCTCTTTTTTT
Found at i:57936176 original size:15 final size:16
Alignment explanation
Indices: 57936156--57936193 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
57936146 GAAAAATTAT
57936156 AAACTAAATAAATA-A
1 AAACTAAATAAATACA
57936171 AAACT-AATAAATACA
1 AAACTAAATAAATACA
*
57936186 TAACTAAA
1 AAACTAAA
57936194 AGGTAACACC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 10 0.50
16 2 0.10
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (16 bp):
AAACTAAATAAATACA
Found at i:57936935 original size:20 final size:20
Alignment explanation
Indices: 57936906--57936946 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
57936896 TGACTATCTT
57936906 AGTAAAAAATTCC-ACAAAA
1 AGTAAAAAATTCCAACAAAA
57936925 AGTACAAAAATTCCAACAAAA
1 AGTA-AAAAATTCCAACAAAA
57936946 A
1 A
57936947 AAAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 9 0.45
21 7 0.35
ACGTcount: A:0.63, C:0.17, G:0.05, T:0.15
Consensus pattern (20 bp):
AGTAAAAAATTCCAACAAAA
Found at i:57937577 original size:24 final size:24
Alignment explanation
Indices: 57937550--57937632 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 24
57937540 ATAGTTTCTT
57937550 TCTATATAAATTATTTAAAAAATC
1 TCTATATAAATTATTTAAAAAATC
57937574 TCTATAT---TT-TTTAAAAAAATAGTTTC
1 TCTATATAAATTATTT--AAAAA-A---TC
57937600 TTTCTATATAAATTATTTAAAAAATC
1 --TCTATATAAATTATTTAAAAAATC
57937626 TCTATAT
1 TCTATAT
57937633 TTTTTAAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 24
0.66 0.00 0.34
Matches are distributed among these distances:
20 3 0.06
21 2 0.04
22 5 0.11
23 1 0.02
24 14 0.30
26 4 0.09
28 7 0.15
29 1 0.02
30 5 0.11
31 2 0.04
32 3 0.06
ACGTcount: A:0.43, C:0.08, G:0.01, T:0.47
Consensus pattern (24 bp):
TCTATATAAATTATTTAAAAAATC
Found at i:57937636 original size:51 final size:51
Alignment explanation
Indices: 57937509--57937675 Score: 271
Period size: 52 Copynumber: 3.2 Consensus size: 51
57937499 AAATTATTTA
*
57937509 TATTTAAAAAATCTCTATATTTTAAAAAAAAATAGTTTCTTTCTATATAAAT
1 TATTTAAAAAATCTCTATATTTT-TAAAAAAATAGTTTCTTTCTATATAAAT
57937561 TATTTAAAAAATCTCTATATTTTTTAAAAAAATAGTTTCTTTCTATATAAAT
1 TATTTAAAAAATCTCTATA-TTTTTAAAAAAATAGTTTCTTTCTATATAAAT
* * *
57937613 TATTTAAAAAATCTCTATATTTTTTAAAAAATAGTTACTTTATATATAAAT
1 TATTTAAAAAATCTCTATATTTTTAAAAAAATAGTTTCTTTCTATATAAAT
57937664 TATTTAATAAAA
1 TATTTAA-AAAA
57937676 ACATTTCTTA
Statistics
Matches: 109, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
51 36 0.33
52 69 0.63
53 4 0.04
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (51 bp):
TATTTAAAAAATCTCTATATTTTTAAAAAAATAGTTTCTTTCTATATAAAT
Found at i:57940273 original size:21 final size:21
Alignment explanation
Indices: 57940249--57940289 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
57940239 TTATGTGTTA
57940249 ACCTCTTGGAA-TACAGTGCAG
1 ACCT-TTGGAATTACAGTGCAG
57940270 ACCTTTGGAATTTACAGTGC
1 ACCTTTGGAA-TTACAGTGC
57940290 TATAGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 8 0.44
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (21 bp):
ACCTTTGGAATTACAGTGCAG
Found at i:57944414 original size:13 final size:13
Alignment explanation
Indices: 57944396--57944483 Score: 54
Period size: 13 Copynumber: 7.5 Consensus size: 13
57944386 AGTATTAGAA
57944396 TTTATTTATATAT
1 TTTATTTATATAT
57944409 TTTA--T-TA-A-
1 TTTATTTATATAT
57944417 TTTATTTATATAT
1 TTTATTTATATAT
57944430 TTTATTTATA-A-
1 TTTATTTATATAT
* * *
57944441 TATATTAAAATAT
1 TTTATTTATATAT
*
57944454 TATA-TTA-ATA-
1 TTTATTTATATAT
57944464 -TTATTTATATAT
1 TTTATTTATATAT
57944476 TTCTATTT
1 TT-TATTT
57944484 CATTTGCATT
Statistics
Matches: 58, Mismatches: 5, Indels: 23
0.67 0.06 0.27
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 6 0.10
11 16 0.28
12 5 0.09
13 19 0.33
14 5 0.09
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATTTATATAT
Found at i:57944420 original size:21 final size:21
Alignment explanation
Indices: 57944394--57944482 Score: 97
Period size: 21 Copynumber: 4.0 Consensus size: 21
57944384 TTAGTATTAG
57944394 AATTTATTTATATATTTTATT
1 AATTTATTTATATATTTTATT
57944415 AATTTATTTATATATTTTATTTAT
1 AATTTATTTATATATTTTA--T-T
* * * *
57944439 AATATATTAAAATATTATATT
1 AATTTATTTATATATTTTATT
57944460 AATATTATTTATATATTTCTATT
1 AAT-TTATTTATATATTT-TATT
57944483 TCATTTGCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
21 23 0.42
22 11 0.20
23 5 0.09
24 16 0.29
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (21 bp):
AATTTATTTATATATTTTATT
Found at i:57954996 original size:456 final size:455
Alignment explanation
Indices: 57954139--57955036 Score: 1760
Period size: 456 Copynumber: 2.0 Consensus size: 455
57954129 AAGCTGAGTT
57954139 TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
1 TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
*
57954204 TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATTT
66 TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATCT
57954269 ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAATT
131 ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAATT
57954334 TTTTTTCCAAATTTCTTGATTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGTG
196 TTTTTTCCAAATTTCTTGATTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGTG
57954399 ACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAATC
261 ACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAATC
57954464 TCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAAA
326 TCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAAA
*
57954529 ATTTGTACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGCACAAAACTAATCC
391 ATTTATACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGCACAAAACTAATCC
57954594 TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
1 TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
57954659 TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATCT
66 TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATCT
57954724 ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAATT
131 ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAA-T
*
57954789 TTTTTTTCCAAATTTCTTGTTTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGT
195 TTTTTTTCCAAATTTCTTGATTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGT
57954854 GACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAAT
260 GACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAAT
57954919 CTCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAA
325 CTCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAA
57954984 AATTTATACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGC
390 AATTTATACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGC
57955037 TTAATCCATT
Statistics
Matches: 439, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
455 192 0.44
456 247 0.56
ACGTcount: A:0.28, C:0.13, G:0.18, T:0.41
Consensus pattern (455 bp):
TTGTTTACTATAGGGAGGTAAGGTTTTCTTCTTTTAGCTTCGTTTTTTAACCAAACGTCGAACTC
TGTTGATAGTAACTTTAAACTGGTTTACGCTTGTGAAAAAAATGGTCTCTGTACCTTATAGATCT
ATGTTTTCTTGATTGCCACTGATTGTTTTAGAGTCTAGAGTTGCAATGATTTTGTCTCATTAATT
TTTTTTCCAAATTTCTTGATTTTCCTTTAAAATCTGGTTGTTCTCTATAATAAATTGTGCAAGTG
ACGATAAAGATAGACAGGGACATCAGTACCCATTGGAGGATGATGAGTTGTCTAAAATGGGAATC
TCTCTGATGCACAAAACTAATTGGTTTTATTTCATGCATGAGTTTCTTTTTCATGATTTGATAAA
ATTTATACAAAATTTTAGATGAAAGGTTTCTAAGGAGTATTTTGGTGTATGCACAAAACTAATCC
Found at i:57958190 original size:18 final size:17
Alignment explanation
Indices: 57958160--57958202 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 17
57958150 TTAATTATAT
57958160 TTAAATATA-ATAATTA
1 TTAAATATATATAATTA
57958176 TTAAATATATTATAATTA
1 TTAAATATA-TATAATTA
57958194 --AAATATATA
1 TTAAATATATA
57958203 ATTTAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 2 0.08
16 16 0.64
18 7 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAATATATATAATTA
Found at i:57958209 original size:18 final size:20
Alignment explanation
Indices: 57958188--57958236 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 20
57958178 AAATATATTA
57958188 TAATTAAAATATA-T-AATT
1 TAATTAAAATATATTAAATT
57958206 TAA-TAAAAT-TATTAAATT
1 TAATTAAAATATATTAAATT
* *
57958224 TATTTAAATTATA
1 TAATTAAAATATA
57958237 ATATATGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 2 0.08
17 7 0.28
18 9 0.36
19 5 0.20
20 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TAATTAAAATATATTAAATT
Found at i:57958284 original size:100 final size:101
Alignment explanation
Indices: 57958166--57958540 Score: 314
Period size: 100 Copynumber: 3.5 Consensus size: 101
57958156 ATATTTAAAT
*
57958166 ATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAAATTTATTTAA
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAAA-TTATTTAA
57958231 ATTATAATATATGATATTA-T-AAAATATAATTTAAC
65 ATTATAATATATGATATTACTCAAAATATAATTTAAC
* * *
57958266 ATAATTATTATTAAATATATTATAATTAAAATATATGATTTAATAAATTTATT-AA-TAATTAAT
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAAATTATTTAA-
* * * *
57958329 ATTCTTATATA-AAT-TTACTCAAATTATAATATATGATAC
65 ATTATAATATATGATATTACTCAAAATATAAT-T-T-A-AC
* * * * * *
57958368 TATAAAATATAATTTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAA
1 -AT-AATTATTATTAAATAT-ATTATAATTAAA-ATA-TATAATT-TAATA-A-AA-TT-ATTAA
* * * * *
57958433 ATTCTTAATAATTAATATTCTTATATGA-ATTTACTCAAATAAGATAATTTAAT
56 ATTATTTA-AATT-ATA---ATATATGATA-TTACTC-AA-AATATAATTTAAC
57958486 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAA
1 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAA
57958541 TAATCAATAT
Statistics
Matches: 214, Mismatches: 32, Indels: 50
0.72 0.11 0.17
Matches are distributed among these distances:
96 3 0.01
97 9 0.04
98 18 0.08
99 3 0.01
100 51 0.24
101 1 0.00
102 2 0.01
103 2 0.01
104 13 0.06
105 11 0.05
106 3 0.01
107 6 0.03
108 8 0.04
109 3 0.01
110 3 0.01
111 3 0.01
112 6 0.03
113 9 0.04
114 9 0.04
115 13 0.06
116 13 0.06
117 2 0.01
118 5 0.02
119 2 0.01
120 7 0.03
121 3 0.01
122 6 0.03
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.45
Consensus pattern (101 bp):
ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAAATTATTTAAA
TTATAATATATGATATTACTCAAAATATAATTTAAC
Found at i:57958318 original size:44 final size:44
Alignment explanation
Indices: 57958231--57958428 Score: 135
Period size: 44 Copynumber: 4.8 Consensus size: 44
57958221 ATTTATTTAA
57958231 ATTATAATATATGATATTATAAAATATAATTTAACATAATTATT
1 ATTATAATATATGATATTATAAAATATAATTTAACATAATTATT
* * *
57958275 ATTA-AATATATTATAATTA-AAATATATGATTT-A-ATAAAT-TT
1 ATTATAATATATGAT-ATTATAAA-ATATAATTTAACATAATTATT
* * *
57958316 ATTAATAAT-TA--ATATTCTTATATA-AATTT-AC-TCAA--ATT
1 ATT-ATAATATATGATATTATAAAATATAATTTAACAT-AATTATT
* *
57958354 A-T--AATATATGATACTATAAAATATAATTTAATATAATTATT
1 ATTATAATATATGATATTATAAAATATAATTTAACATAATTATT
*
57958395 ATTA-AATATATTATAATTA-AAATATATAATTTAA
1 ATTATAATATATGAT-ATTATAAA-ATATAATTTAA
57958429 TAAAATTCTT
Statistics
Matches: 120, Mismatches: 14, Indels: 40
0.69 0.08 0.23
Matches are distributed among these distances:
34 3 0.03
35 2 0.02
37 10 0.08
38 14 0.12
39 11 0.09
40 4 0.03
41 9 0.08
42 9 0.08
43 28 0.23
44 30 0.25
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (44 bp):
ATTATAATATATGATATTATAAAATATAATTTAACATAATTATT
Found at i:57958360 original size:61 final size:60
Alignment explanation
Indices: 57958289--57958472 Score: 189
Period size: 61 Copynumber: 3.0 Consensus size: 60
57958279 AATATATTAT
57958289 AATTAAAATATATGATTTAATAAATTTATTAATAATTAATATTCTTATATAAATTTACTCA
1 AATTAAAATATATGATTTAATAAA-TTATTAATAATTAATATTCTTATATAAATTTACTCA
* * * ** * *
57958350 AATTATAATATATGATACT-ATAAAATA-TAAT--TTAATATAATTATTATTAAATATA-TTA
1 AATTAAAATATATGAT-TTAATAAATTATTAATAATTAATATTCTTA-TA-TAAATTTACTCA
* * *
57958408 TAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCA
1 -AATTAAAATATATGATTTAAT-AAATTATTAATAATTAATATTCTTATATAAATTTACTCA
57958470 AAT
1 AAT
57958473 AAGATAATTT
Statistics
Matches: 96, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
57 10 0.10
58 5 0.05
59 27 0.28
60 6 0.06
61 33 0.34
62 5 0.05
63 10 0.10
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (60 bp):
AATTAAAATATATGATTTAATAAATTATTAATAATTAATATTCTTATATAAATTTACTCA
Found at i:57958363 original size:120 final size:117
Alignment explanation
Indices: 57958214--57958634 Score: 468
Period size: 120 Copynumber: 3.7 Consensus size: 117
57958204 TTTAATAAAA
* * *
57958214 TTAT-TAAATTTATTTAAATTATAATATATGATATTATAAAATATAATTTAACATAATTATTATT
1 TTATATAAATTTACTCAAATTATAATATATGATACTATAAAATATAATTTAA-ATAATTATTATT
57958278 AAATATATTATAATTAAAATATATGATTTAATAAATTTATTAATAATTAATATTC
65 AAATATATTATAATTAAAATATAT-ATTTAATAAA-TTATTAATAATTAATATTC
57958333 TTATATAAATTTACTCAAATTATAATATATGATACTATAAAATATAATTTAATATAATTATTATT
1 TTATATAAATTTACTCAAATTATAATATATGATACTATAAAATATAATTTAA-ATAATTATTATT
*
57958398 AAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTC
65 AAATATATTATAATTAAAATATAT-ATTTAAT-AAATTATTAATAATTAATATTC
* * * * *
57958453 TTATATGAATTTACTCAAA-TA-AGATA-AT-TTAATAT-AATTATTA-TTAAAT-A-TATTA-T
1 TTATATAAATTTACTCAAATTATA-ATATATGATACTATAAAATATAATTTAAATAATTATTATT
* *
57958509 -AAT-TA--A-AA-T---ATATA-ATTTAATAAAATTATTAATAATCAATATGC
65 AAATATATTATAATTAAAATATATATTTAAT-AAATTATTAATAATTAATATTC
* * * * *
57958553 ATATATGAATTTACTAAAATTATAATATATGATGCTATAAAATATAATTTGAAATAATTAATATT
1 TTATATAAATTTACTCAAATTATAATATATGATACTATAAAATATAATTT-AAATAATTATTATT
*
57958618 AAATATATTTTAATTAA
65 AAATATATTATAATTAA
57958635 TATTAAATAA
Statistics
Matches: 258, Mismatches: 23, Indels: 44
0.79 0.07 0.14
Matches are distributed among these distances:
100 44 0.17
101 5 0.02
102 8 0.03
103 4 0.02
104 6 0.02
105 3 0.01
106 6 0.02
107 2 0.01
108 4 0.02
109 3 0.01
110 6 0.02
111 3 0.01
112 5 0.02
113 1 0.00
114 4 0.02
115 5 0.02
116 6 0.02
117 5 0.02
118 3 0.01
119 9 0.03
120 123 0.48
121 3 0.01
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (117 bp):
TTATATAAATTTACTCAAATTATAATATATGATACTATAAAATATAATTTAAATAATTATTATTA
AATATATTATAATTAAAATATATATTTAATAAATTATTAATAATTAATATTC
Found at i:57958504 original size:16 final size:17
Alignment explanation
Indices: 57958483--57958520 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
57958473 AAGATAATTT
*
57958483 AATATAATTATTATT-A
1 AATATAATTATAATTAA
57958499 AATAT-ATTATAATTAA
1 AATATAATTATAATTAA
57958515 AATATA
1 AATATA
57958521 TAATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAATTATAATTAA
Found at i:57958528 original size:14 final size:15
Alignment explanation
Indices: 57958476--57958530 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
57958466 CTCAAATAAG
*
57958476 ATAATTTAATATAATT
1 ATAATTAAATAT-ATT
*
57958492 ATTATTAAATATATT
1 ATAATTAAATATATT
57958507 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
57958520 ATAATTTAATA
1 ATAATTAAATA
57958531 AAATTATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 9 0.26
14 4 0.12
15 11 0.32
16 10 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:57958550 original size:100 final size:100
Alignment explanation
Indices: 57958376--57958572 Score: 349
Period size: 100 Copynumber: 2.0 Consensus size: 100
57958366 ACTATAAAAT
*
57958376 ATAATTTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA
1 ATAATTTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAA
* * * *
57958441 TAATTAATATTCTTATATGAATTTACTCAAATAAG
66 TAATCAATATGCATATATGAATTTACTAAAATAAG
57958476 ATAATTTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAA
1 ATAATTTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAA
57958541 TAATCAATATGCATATATGAATTTACTAAAAT
66 TAATCAATATGCATATATGAATTTACTAAAAT
57958573 TATAATATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (100 bp):
ATAATTTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAA
TAATCAATATGCATATATGAATTTACTAAAATAAG
Found at i:57958566 original size:220 final size:219
Alignment explanation
Indices: 57958158--57958634 Score: 687
Period size: 220 Copynumber: 2.2 Consensus size: 219
57958148 ATTTAATTAT
*
57958158 ATTTAAATATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAAAT
1 ATTTAAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAAA-
* *
57958223 TTATTTAAATTATAATATATGATATTATAAAATATAATTTAACATAATTATTATTAAATATATTA
65 TTAATTAAATTAT-ATATATGATATTATAAAAGATAATTTAACATAATTATTATTAAATATATTA
* * * * * *
57958288 TAATTAAAATATATGATTTAATAAATTTATTAATAATTAATATTCTTATATAAATTTACTCAAAT
129 TAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATGCATATATAAATTTACTAAAAT
57958353 TATAATATATGATACTATAAAATATA
194 TATAATATATGATACTATAAAATATA
*
57958379 ATTT-AATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTT-AA-
1 ATTTAAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAAAT
* *
57958441 TAATTAATATTCT-TATATGA-ATTTACTCAAATAAGATAATTTAATATAATTATTATTAAATAT
66 TAATTAA-ATTATATATATGATA-TTA-T--AA-AAGATAATTTAACATAATTATTATTAAATAT
*
57958504 ATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATGCATATATGAATTTACTA
125 ATTATAATTAAAATATATAATTTAATAAAATTATTAATAATCAATATGCATATATAAATTTACTA
*
57958569 AAATTATAATATATGATGCTATAAAATATA
190 AAATTATAATATATGATACTATAAAATATA
* * *
57958599 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAA
1 ATTTAAATATAATTATTATTAAATATATTATAATTAA
57958635 TATTAAATAA
Statistics
Matches: 233, Mismatches: 16, Indels: 15
0.88 0.06 0.06
Matches are distributed among these distances:
215 1 0.00
216 10 0.04
217 7 0.03
218 4 0.02
219 4 0.02
220 201 0.86
221 6 0.03
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (219 bp):
ATTTAAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTATTAAAT
TAATTAAATTATATATATGATATTATAAAAGATAATTTAACATAATTATTATTAAATATATTATA
ATTAAAATATATAATTTAATAAAATTATTAATAATCAATATGCATATATAAATTTACTAAAATTA
TAATATATGATACTATAAAATATA
Found at i:57959873 original size:137 final size:138
Alignment explanation
Indices: 57959624--57959894 Score: 447
Period size: 137 Copynumber: 2.0 Consensus size: 138
57959614 AACTTAAAAT
* * *
57959624 TGAAATCAATTATGGAATGCGTTACATTCAAAATAACAATAAACAAAATATGGATATAACACTAG
1 TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
* * *
57959689 CTACAAAAGTAATTTAACAATATCATGTGGTAACAAGTTCACCTGAAAGTG-AGATATGAAAGAT
66 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCA-ATATGAAAGAC
57959753 ATGCCCAAA
130 ATGCCCAAA
* *
57959762 TGAAATCATTTATGGCATGAGTTACATTCAAAATAACAAT-AACAAAAGATGGATATAACACTAA
1 TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
57959826 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
66 CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
57959891 TGCC
131 TGCC
57959895 ATTTTCTGAA
Statistics
Matches: 124, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
137 86 0.69
138 38 0.31
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (138 bp):
TGAAATCAATTATGGAATGAGTTACATTCAAAATAACAATAAACAAAAGATGGATATAACACTAA
CTACAAAAGTAATTTAACAATATCATGTAGTAACAAGTTCACATGAAAGTGCAATATGAAAGACA
TGCCCAAA
Found at i:57967291 original size:12 final size:12
Alignment explanation
Indices: 57967282--57967307 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
57967272 TTTCAAAATA
57967282 GAAATTAAAAGT
1 GAAATTAAAAGT
57967294 GAAATTAAAAGT
1 GAAATTAAAAGT
57967306 GA
1 GA
57967308 GATTTTCAAA
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:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (12 bp):
GAAATTAAAAGT
Found at i:57975571 original size:25 final size:25
Alignment explanation
Indices: 57975541--57975590 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
57975531 ACTATGTTAA
57975541 CAAACGATTGTGTGCAAATCTCTTC
1 CAAACGATTGTGTGCAAATCTCTTC
57975566 CAAACGATTGTGTGCAAATCTCTTC
1 CAAACGATTGTGTGCAAATCTCTTC
57975591 TTACCTTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (25 bp):
CAAACGATTGTGTGCAAATCTCTTC
Found at i:57991003 original size:41 final size:41
Alignment explanation
Indices: 57990953--57991051 Score: 155
Period size: 41 Copynumber: 2.4 Consensus size: 41
57990943 ATTGATCTCG
*
57990953 GTTTCGCACACTTAGTGCCCGTTATTTAACATCATTATTTA
1 GTTTCGCACACTTAGTGCCCGTTATTTAACATCATCATTTA
* *
57990994 GTTTTGCACACTTAGTGCTCGTTATTTAACATCATCATTTA
1 GTTTCGCACACTTAGTGCCCGTTATTTAACATCATCATTTA
*
57991035 -ATTCGCACACTTAGTGC
1 GTTTCGCACACTTAGTGC
57991052 TAATCATATA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 15 0.28
41 38 0.72
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (41 bp):
GTTTCGCACACTTAGTGCCCGTTATTTAACATCATCATTTA
Found at i:57997822 original size:27 final size:28
Alignment explanation
Indices: 57997768--57997823 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 28
57997758 AAAATTAGCC
*
57997768 ATCATCAAATAATTTAAAATTTATAAAA
1 ATCATCAAATAATTTAAAATTTAAAAAA
* *
57997796 ATCATCAAA-AA-TTATAATTTTAAAAA
1 ATCATCAAATAATTTAAAATTTAAAAAA
57997822 AT
1 AT
57997824 ATATAAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 14 0.56
27 2 0.08
28 9 0.36
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (28 bp):
ATCATCAAATAATTTAAAATTTAAAAAA
Found at i:57997823 original size:26 final size:28
Alignment explanation
Indices: 57997768--57997821 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
57997758 AAAATTAGCC
57997768 ATCATCAAATAATTTAAAATTTATAAAA
1 ATCATCAAATAATTTAAAATTTATAAAA
*
57997796 ATCATCAAA-AA-TTATAATTT-TAAAA
1 ATCATCAAATAATTTAAAATTTATAAAA
57997821 A
1 A
57997822 ATATATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 6 0.24
26 8 0.32
27 2 0.08
28 9 0.36
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (28 bp):
ATCATCAAATAATTTAAAATTTATAAAA
Found at i:58002508 original size:45 final size:44
Alignment explanation
Indices: 58002444--58002536 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
58002434 ATAAAAGTAT
*
58002444 AATGGAATAGAGGCGTAATAATAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAAGCGTAATAAT-ATT-AATGTGTTTGGTTGAATGG
** * **
58002489 AATGGAATAGAATTGTAATAGTATTTTTGTGTTTGGTTGAATGG
1 AATGGAATAGAAGCGTAATAATATTAATGTGTTTGGTTGAATGG
58002533 AATG
1 AATG
58002537 AAGTTGTAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.54
45 18 0.44
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAAGCGTAATAATATTAATGTGTTTGGTTGAATGG
Found at i:58002796 original size:21 final size:21
Alignment explanation
Indices: 58002753--58002796 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
58002743 TATATGAATT
*
58002753 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATAAAA
*
58002774 TACTATAAAT-ATAATTTAAAA
1 TACTA-AAATCATAATATAAAA
58002795 TA
1 TA
58002797 ATTATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (21 bp):
TACTAAAATCATAATATAAAA
Found at i:58002830 original size:17 final size:17
Alignment explanation
Indices: 58002808--58002841 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
58002798 TTATTATTAA
58002808 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
58002825 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
58002842 TCTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:58002915 original size:106 final size:106
Alignment explanation
Indices: 58002790--58003106 Score: 465
Period size: 107 Copynumber: 3.0 Consensus size: 106
58002780 AAATATAATT
*
58002790 TAAAATAATTATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAAAATTAAA
1 TAAAATAA-TATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATTAAA
*
58002855 TATTTTTATATGAATTTAC-AAAATCATAATATATAATACTA
65 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
*
58002896 TAAAATAACTGTTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTAA
1 TAAAATAA-TATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAATATTAA
58002961 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
64 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
* * * *
58003004 TAAAAT-ATAATT-TTAAAAATTA-TT-AT-TAA-ATATAATTTAATAAAATTC--AATA-TAAT
1 TAAAATAAT-ATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATTAAA
58003060 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
65 TATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
58003102 TAAAA
1 TAAAA
58003107 CATAATCTAC
Statistics
Matches: 199, Mismatches: 9, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
98 50 0.25
99 4 0.02
101 19 0.10
102 2 0.01
104 2 0.01
105 2 0.01
106 37 0.19
107 55 0.28
108 28 0.14
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (106 bp):
TAAAATAATATTATTAAATATAATTTAATAAAATATATAATTTAATAAAATTCTTAATATTAAAT
ATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
Found at i:58003084 original size:98 final size:106
Alignment explanation
Indices: 58002790--58003112 Score: 443
Period size: 98 Copynumber: 3.1 Consensus size: 106
58002780 AAATATAATT
* *
58002790 TAAAATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAATAAAATTCTTAAAATTAA
1 TAAAAT-ATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC-TAATATTAA
*
58002854 ATATTTTTATATGAATTTAC-AAAATCATAATATATAATACTA
64 ATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
*
58002896 TAAAATA-ACTGTTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTA
1 TAAAATATA--ATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC-TAATATTA
58002960 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
63 AATATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
* ** *
58003004 TAAAATATAATT-TT-AA-A-AA-TTATTATTAA-ATATAATTTAATAAAATTC-AATA-TAATT
1 TAAAATATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTAATATTAAAT
58003061 ATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
66 ATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
*
58003102 TAAAACATAAT
1 TAAAATATAAT
58003113 CTACTTTATT
Statistics
Matches: 202, Mismatches: 10, Indels: 18
0.88 0.04 0.08
Matches are distributed among these distances:
98 55 0.27
99 4 0.02
101 19 0.09
102 7 0.03
103 2 0.01
104 1 0.00
105 3 0.01
106 27 0.13
107 54 0.27
108 29 0.14
109 1 0.00
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (106 bp):
TAAAATATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTAATATTAAAT
ATTCTTATATGAATTTACTAAAATCATAATATATAATACTA
Found at i:58004600 original size:50 final size:50
Alignment explanation
Indices: 58004541--58004639 Score: 162
Period size: 50 Copynumber: 2.0 Consensus size: 50
58004531 ATAAATGCTT
* * *
58004541 GACATAAAGTGTTGAACTTTTGATTCATGATATTGAACTTAATTTTAATA
1 GACACAAAGTGTTCAACTTTTGATTCATGATATTAAACTTAATTTTAATA
*
58004591 GACACAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTTTAAT
1 GACACAAAGTGTTCAACTTTTGATTCATGATATTAAACTTAATTTTAAT
58004640 TTGTTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.41
Consensus pattern (50 bp):
GACACAAAGTGTTCAACTTTTGATTCATGATATTAAACTTAATTTTAATA
Found at i:58006145 original size:105 final size:109
Alignment explanation
Indices: 58006014--58006346 Score: 487
Period size: 120 Copynumber: 3.0 Consensus size: 109
58006004 TAAAGTAGAT
*
58006014 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAATT-ATATT-GAAT
1 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAGAAT
*
58006077 TTTATTAAATTATATATTTTTATTAAATTATATTTAATAA-CAA
66 TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAAA
* *
58006120 -CTATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATTTTAAGAA
1 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT-AGAA
58006184 TTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
65 TTTTATTAAATTATATATTTTTATTAAATTATA-TT--TAAT-A--A---TAAA
58006238 TTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 -TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATT-AGA
58006303 ATTTTATTAAATTATATA-TTTTATTAAATTATATTTAATAATAA
64 ATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAA
58006347 TTATGTTAAA
Statistics
Matches: 206, Mismatches: 6, Indels: 26
0.87 0.03 0.11
Matches are distributed among these distances:
105 51 0.25
106 4 0.02
108 36 0.17
109 2 0.01
110 3 0.01
111 4 0.02
112 1 0.00
113 1 0.00
114 1 0.00
115 1 0.00
116 4 0.02
118 4 0.02
119 15 0.07
120 79 0.38
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (109 bp):
TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAGAAT
TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAAA
Found at i:58006187 original size:61 final size:60
Alignment explanation
Indices: 58006122--58006322 Score: 209
Period size: 61 Copynumber: 3.3 Consensus size: 60
58006112 AATAACAACT
58006122 ATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATTTTAAGA
1 ATTTTATA-TATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATTTTAAGA
* * * * *
58006183 ATTTTAT-TA-AAT-TA-TAT-ATTTTTATTAAATT-ATATTTAATAATAATT-ATTTTAAATTA
1 ATTTTATATATTATATATTATGA-TTTTAGTAAATTCATA--TAAGAATATTTAATTTT-AA-GA
*
58006241 TATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGA
1 -ATTTTATA-TATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATTTTAAGA
*
58006303 ATTTTATTAAATTATATATT
1 ATTTTA-TATATTATATATT
58006323 TTATTAAATT
Statistics
Matches: 113, Mismatches: 12, Indels: 30
0.73 0.08 0.19
Matches are distributed among these distances:
55 4 0.04
56 19 0.17
57 13 0.12
58 3 0.03
59 9 0.08
61 25 0.22
62 5 0.04
63 13 0.12
64 18 0.16
65 4 0.04
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (60 bp):
ATTTTATATATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATTTTAAGA
Found at i:58006323 original size:17 final size:17
Alignment explanation
Indices: 58006303--58006336 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
58006293 AATATTAAGA
58006303 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
58006320 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
58006337 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Done.