Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold4156.1
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: 77663
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.31
Warning! 4547 characters in sequence are not A, C, G, or T
Found at i:1428 original size:2 final size:2
Alignment explanation
Indices: 1417--1452 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1407 ATCTGCAGCA
1417 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1453 TTTATCAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6791 original size:51 final size:51
Alignment explanation
Indices: 6731--6835 Score: 183
Period size: 51 Copynumber: 2.1 Consensus size: 51
6721 TTTGCATAGA
* * *
6731 CTCAAATTATGGATGTTTTGGACTATATGAAATTTAACTTTGGATTGAAGC
1 CTCAAATTATGAATGTTTTGGACTATATGAAATTCAACTTTAGATTGAAGC
6782 CTCAAATTATGAATGTTTTGGACTATATGAAATTCAACTTTAGATTGAAGC
1 CTCAAATTATGAATGTTTTGGACTATATGAAATTCAACTTTAGATTGAAGC
6833 CTC
1 CTC
6836 TTCACACAGG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (51 bp):
CTCAAATTATGAATGTTTTGGACTATATGAAATTCAACTTTAGATTGAAGC
Found at i:7997 original size:24 final size:24
Alignment explanation
Indices: 7952--8003 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
7942 TTTCTAGAAG
* *
7952 ATTTAGTATTTATTAATATAATAT
1 ATTTAGCATTTATTAACATAATAT
* *
7976 ATTTAGCATTTATTAGCGTAATAT
1 ATTTAGCATTTATTAACATAATAT
8000 ATTT
1 ATTT
8004 GACATTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGCATTTATTAACATAATAT
Found at i:8009 original size:24 final size:24
Alignment explanation
Indices: 7970--8015 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
7960 TTTATTAATA
*
7970 TAATATATTTAGCATTTATTAGCG
1 TAATATATTTAGCATTGATTAGCG
7994 TAATATATTT-GACATTGATTAG
1 TAATATATTTAG-CATTGATTAG
8016 AATTAGGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.46
Consensus pattern (24 bp):
TAATATATTTAGCATTGATTAGCG
Found at i:16534 original size:23 final size:22
Alignment explanation
Indices: 16467--16540 Score: 100
Period size: 21 Copynumber: 3.5 Consensus size: 22
16457 CCTGATCAGT
* *
16467 ATACGACACA-TAAGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
16488 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
16508 ATACGACACACGAGGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
16530 TATACGACACA
1 -ATACGACACA
16541 TAAAGTGCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.19
21 28 0.60
23 10 0.21
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:16548 original size:23 final size:23
Alignment explanation
Indices: 16466--16553 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 23
16456 ACCTGATCAG
*
16466 TATACGACACA-TAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
*
16488 -A-ACGACACACGAGGTGCCTG-
1 TATACGACACACGAAGTGCCTGA
*
16508 -ATACGACACACGAGGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
**
16530 TATACGACACATAAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
16553 T
1 T
16554 CGGCAAAGCC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.16
21 28 0.49
23 20 0.35
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (23 bp):
TATACGACACACGAAGTGCCTGA
Found at i:16549 original size:44 final size:41
Alignment explanation
Indices: 16467--16553 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
16457 CCTGATCAGT
* * *
16467 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACAGAAGTGCCTGAAACGACACACAAAGTGCCTG
* *
16508 ATACGACACACGAGGTGCCTGATATACGACACATAAAGTGCCTG
1 ATACGACACA-GAAGTGCCTGA-A-ACGACACACAAAGTGCCTG
16552 AT
1 AT
16554 CGGCAAAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 10 0.26
42 9 0.24
43 1 0.03
44 18 0.47
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.17
Consensus pattern (41 bp):
ATACGACACAGAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:17537 original size:5 final size:5
Alignment explanation
Indices: 17529--17569 Score: 73
Period size: 5 Copynumber: 8.2 Consensus size: 5
17519 TATTTAATTT
*
17529 ATATA ATATA ATACA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
17570 AACATAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:22746 original size:7 final size:7
Alignment explanation
Indices: 22693--22758 Score: 52
Period size: 7 Copynumber: 10.0 Consensus size: 7
22683 AGTCCCCAAA
22693 TTATTAT
1 TTATTAT
* *
22700 TTTTTCT
1 TTATTAT
22707 TT-TT-T
1 TTATTAT
22712 TT-TTAT
1 TTATTAT
22718 TTATT-T
1 TTATTAT
*
22724 TGATT-T
1 TTATTAT
*
22730 TGATTTAT
1 TTA-TTAT
22738 TTATTAT
1 TTATTAT
22745 TTATTAT
1 TTATTAT
22752 TTATTAT
1 TTATTAT
22759 GCTTTAGGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 5 0.10
6 14 0.27
7 29 0.57
8 3 0.06
ACGTcount: A:0.20, C:0.02, G:0.03, T:0.76
Consensus pattern (7 bp):
TTATTAT
Found at i:24069 original size:7 final size:6
Alignment explanation
Indices: 24060--24111 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
24050 CCAAATAATT
* * *
24060 AATAAA TAATAAA ATAAAAA AATAAA AAAAAA CAAAAAA AATAAA AATAAA
1 AATAAA -AATAAA A-ATAAA AATAAA AATAAA -AATAAA AATAAA AATAAA
24111 A
1 A
24112 TTGGGTTACC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
6 22 0.56
7 17 0.44
ACGTcount: A:0.85, C:0.02, G:0.00, T:0.13
Consensus pattern (6 bp):
AATAAA
Found at i:24089 original size:8 final size:8
Alignment explanation
Indices: 24063--24111 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
24053 AATAATTAAT
*
24063 AAATAATA
1 AAATAAAA
24071 AAATAAAA
1 AAATAAAA
24079 AAATAAAA
1 AAATAAAA
24087 AAA-AACAA
1 AAATAA-AA
*
24095 AAAAAATAA
1 AAATAA-AA
24104 AAATAAAA
1 AAATAAAA
24112 TTGGGTTACC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
7 2 0.06
8 25 0.69
9 9 0.25
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:24090 original size:10 final size:10
Alignment explanation
Indices: 24075--24112 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
24065 ATAATAAAAT
24075 AAAAAAATAA
1 AAAAAAATAA
*
24085 AAAAAAA-CA
1 AAAAAAATAA
24094 AAAAAAATAA
1 AAAAAAATAA
24104 AAATAAAAT
1 AAA-AAAAT
24113 TGGGTTACCT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.33
10 11 0.46
11 5 0.21
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.11
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:26345 original size:73 final size:73
Alignment explanation
Indices: 26193--26336 Score: 261
Period size: 73 Copynumber: 2.0 Consensus size: 73
26183 TCTCGGATTT
* * *
26193 AAAAAAGGGATCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTCAATTCCCGAGATCGTTTAAAA
26258 CTTGAGAA
66 CTTGAGAA
26266 AAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTCAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTCAATTCCCGAGATCGTTTAAAA
26331 CTTGAG
66 CTTGAG
26337 TTTGAAAAGA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 68 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (73 bp):
AAAAAAGGGATCATGCCCAATAAGTTAGGACACGATCTCTTCTCAATTCCCGAGATCGTTTAAAA
CTTGAGAA
Found at i:26630 original size:24 final size:23
Alignment explanation
Indices: 26586--26630 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
26576 AATAAAAAGG
*
26586 ACAAATCAATAGCATACAAAATA
1 ACAAATCAATAGCAAACAAAATA
* *
26609 ACAAATCTATAAGCAAATAAAA
1 ACAAATCAAT-AGCAAACAAAA
26631 ATAAAACATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 9 0.50
24 9 0.50
ACGTcount: A:0.62, C:0.16, G:0.04, T:0.18
Consensus pattern (23 bp):
ACAAATCAATAGCAAACAAAATA
Found at i:26672 original size:20 final size:19
Alignment explanation
Indices: 26647--26705 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
26637 CATTCTCTTA
26647 AAATAATAATGAATAAAAAT
1 AAATAATAAT-AATAAAAAT
26667 AAATAAGTAAATAA-AAAAAT
1 AAATAA-T-AATAATAAAAAT
* *
26687 GAATAAAAAT-ATAAAAAT
1 AAATAATAATAATAAAAAT
26705 A
1 A
26706 TAAAAAGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
17 1 0.03
18 9 0.27
20 17 0.52
21 3 0.09
22 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (19 bp):
AAATAATAATAATAAAAAT
Found at i:26726 original size:10 final size:10
Alignment explanation
Indices: 26713--26747 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
26703 ATATAAAAAG
26713 ATATATATGT
1 ATATATATGT
26723 ATATATATGT
1 ATATATATGT
26733 ATATATATGT
1 ATATATATGT
26743 ATATA
1 ATATA
26748 AAAAATTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.49
Consensus pattern (10 bp):
ATATATATGT
Found at i:26726 original size:20 final size:19
Alignment explanation
Indices: 26703--26777 Score: 73
Period size: 20 Copynumber: 3.9 Consensus size: 19
26693 AAATATAAAA
26703 ATATAAAAAGATATATATGT
1 ATATAAAAA-ATATATATGT
***
26723 ATATATATGTATATATATGT
1 ATATA-AAAAATATATATGT
*
26743 ATATAAAAAAT-TATA-GA
1 ATATAAAAAATATATATGT
26760 ATATAGAAAAATATATAT
1 ATATA-AAAAATATATAT
26778 AAGTATGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 8
0.75 0.12 0.14
Matches are distributed among these distances:
17 6 0.14
18 10 0.23
19 7 0.16
20 20 0.45
21 1 0.02
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (19 bp):
ATATAAAAAATATATATGT
Found at i:26825 original size:12 final size:12
Alignment explanation
Indices: 26810--26844 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
26800 ATGAAAAAAA
*
26810 ATATGCATATAG
1 ATATGTATATAG
*
26822 ATATATATATAG
1 ATATGTATATAG
26834 ATATGTATATA
1 ATATGTATATA
26845 AATTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (12 bp):
ATATGTATATAG
Found at i:26937 original size:31 final size:30
Alignment explanation
Indices: 26870--26951 Score: 112
Period size: 29 Copynumber: 2.7 Consensus size: 30
26860 AAATATATAT
* *
26870 AAGTATGTATATATATAAATAAATTATAAA
1 AAGTATGTATGTATATATATAAATTATAAA
* *
26900 AA-TATGTATGTGTATATATATATTATAAA
1 AAGTATGTATGTATATATATAAATTATAAA
26929 AATGTATGTATGTATATATATAA
1 AA-GTATGTATGTATATATATAA
26952 CGAAATTTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
29 25 0.57
30 2 0.05
31 17 0.39
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (30 bp):
AAGTATGTATGTATATATATAAATTATAAA
Found at i:34816 original size:48 final size:48
Alignment explanation
Indices: 34745--34842 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
34735 GTTTATAAAA
34745 TTGAGATCTTGATACCTCGTTTTCGAAACCAATTAACCTAATAATTCC
1 TTGAGATCTTGATACCTCGTTTTCGAAACCAATTAACCTAATAATTCC
34793 TTGAGATCTTGATACCTCGTTTTCGAAACCAATTAACCTAATAATTCC
1 TTGAGATCTTGATACCTCGTTTTCGAAACCAATTAACCTAATAATTCC
34841 TT
1 TT
34843 CTAAATTCAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.31, C:0.22, G:0.10, T:0.37
Consensus pattern (48 bp):
TTGAGATCTTGATACCTCGTTTTCGAAACCAATTAACCTAATAATTCC
Found at i:35019 original size:19 final size:19
Alignment explanation
Indices: 34995--35033 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
34985 CACTTCACCA
*
34995 TTTTCAACTTTTGTT-TTTT
1 TTTTCAA-TTTGGTTCTTTT
35014 TTTTCAATTTGGTTCTTTT
1 TTTTCAATTTGGTTCTTTT
35033 T
1 T
35034 CCTAAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTCAATTTGGTTCTTTT
Found at i:35032 original size:18 final size:19
Alignment explanation
Indices: 34995--35033 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
34985 CACTTCACCA
* *
34995 TTTTCAACTTTTGTTTTTT
1 TTTTCAACTTTGGTTCTTT
35014 TTTTCAA-TTTGGTTCTTT
1 TTTTCAACTTTGGTTCTTT
35032 TT
1 TT
35034 CCTAAATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.10, C:0.10, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTCAACTTTGGTTCTTT
Found at i:36006 original size:22 final size:23
Alignment explanation
Indices: 35955--36027 Score: 76
Period size: 23 Copynumber: 3.0 Consensus size: 23
35945 TAATTAAAAT
* *
35955 TAAAATTAAAATTATTTTTTTAA
1 TAAAATTAAAATTATATTGTTAA
*
35978 TAAAATTAAAATTA-ATTGTTAG
1 TAAAATTAAAATTATATTGTTAA
36000 TAAAATTATCAAATTATTAATTGTTAA
1 TAAAATTA--AAATTA-T-ATTGTTAA
36027 T
1 T
36028 TGTATTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 13 0.32
23 14 0.34
24 6 0.15
27 8 0.20
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAAATTAAAATTATATTGTTAA
Found at i:36075 original size:66 final size:59
Alignment explanation
Indices: 36010--36129 Score: 197
Period size: 59 Copynumber: 2.1 Consensus size: 59
36000 TAAAATTATC
* * *
36010 AAATTAT-TAATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
*
36068 AATTTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
1 AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
36127 AAA
1 AAA
36130 CAAACTTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 6 0.11
59 50 0.89
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (59 bp):
AAATTATCAAATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTA
Found at i:36235 original size:22 final size:24
Alignment explanation
Indices: 36195--36238 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
36185 AAATAAACTT
36195 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
36219 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
36239 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:38366 original size:41 final size:41
Alignment explanation
Indices: 38289--38366 Score: 93
Period size: 41 Copynumber: 1.9 Consensus size: 41
38279 CCTGATTCAG
* * *
38289 TTCACCGGCATAAAGTCTGCTAGACATAAAGTCTGAAATAA
1 TTCACCGGCATAAAGCCTGCCAGACATAAAGCCTGAAATAA
* * **
38330 TTCACCGGCATTAAGCCTGCCAGGCATCGAGCCTGAA
1 TTCACCGGCATAAAGCCTGCCAGACATAAAGCCTGAA
38367 TATCACAGAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 30 1.00
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.22
Consensus pattern (41 bp):
TTCACCGGCATAAAGCCTGCCAGACATAAAGCCTGAAATAA
Found at i:41385 original size:25 final size:26
Alignment explanation
Indices: 41348--41400 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
41338 TTAACATGAT
**
41348 TTTTGGTTGTTTA-ATTAAAGGTTAA
1 TTTTGGTTGTTTATAAGAAAGGTTAA
41373 TTTTGGTAT-TTTATAAGAAAGGTTAA
1 TTTTGGT-TGTTTATAAGAAAGGTTAA
41399 TT
1 TT
41401 AAGTAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (26 bp):
TTTTGGTTGTTTATAAGAAAGGTTAA
Found at i:42096 original size:20 final size:20
Alignment explanation
Indices: 42073--42138 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
42063 AATAAATACC
* *
42073 AAAAATTTATTTTAAAAATT
1 AAAAATATATTTTAAAATTT
*
42093 AAAAAAATATTTTAAAATTT
1 AAAAATATATTTTAAAATTT
*
42113 AAAAA-GTATTTTAAAATTT
1 AAAAATATATTTTAAAATTT
42132 AAAAATA
1 AAAAATA
42139 AAAAAAAAGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 18 0.45
20 22 0.55
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AAAAATATATTTTAAAATTT
Found at i:42109 original size:19 final size:19
Alignment explanation
Indices: 42080--42136 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
42070 ACCAAAAATT
42080 TATTTTAAAAATTAAAAAAA
1 TATTTT-AAAATTAAAAAAA
* *
42100 TATTTTAAAATTTAAAAAG
1 TATTTTAAAATTAAAAAAA
42119 TATTTTAAAATTTAAAAA
1 TATTTTAAAA-TTAAAAA
42137 TAAAAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 21 0.64
20 12 0.36
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TATTTTAAAATTAAAAAAA
Found at i:42172 original size:17 final size:17
Alignment explanation
Indices: 42152--42198 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
42142 AAAAAGTATT
*
42152 TTAAAAATATTTTAAAA
1 TTAAAAATATTTAAAAA
42169 TTAACAAA-ATTTAAAAA
1 TTAA-AAATATTTAAAAA
* *
42186 ATAAATATATTTA
1 TTAAAAATATTTA
42199 TTATATGGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 2 0.08
17 20 0.80
18 3 0.12
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
TTAAAAATATTTAAAAA
Found at i:42374 original size:11 final size:11
Alignment explanation
Indices: 42358--42383 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
42348 ATTTTTTTAA
42358 TTTTAAAATAC
1 TTTTAAAATAC
42369 TTTTAAAATAC
1 TTTTAAAATAC
42380 TTTT
1 TTTT
42384 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:42394 original size:11 final size:11
Alignment explanation
Indices: 42380--42440 Score: 51
Period size: 11 Copynumber: 5.8 Consensus size: 11
42370 TTTAAAATAC
42380 TTTTTTTAAAA
1 TTTTTTTAAAA
42391 -TTTTTT-AAA
1 TTTTTTTAAAA
42400 ---TTTTAAAA
1 TTTTTTTAAAA
42408 TTTTTTTAAAA
1 TTTTTTTAAAA
**
42419 TACTTTTTTAATT
1 T--TTTTTTAAAA
42432 TTTTTTTAA
1 TTTTTTTAA
42441 TTTTAAAATA
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
7 4 0.10
8 3 0.07
9 3 0.07
10 6 0.14
11 17 0.40
13 9 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTTTTTAAAA
Found at i:42402 original size:42 final size:42
Alignment explanation
Indices: 42347--42494 Score: 199
Period size: 41 Copynumber: 3.5 Consensus size: 42
42337 TATTATTTTT
* *
42347 TATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAA
1 TATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAA
* *
42389 AATTTTTTAAATTTTAAAATTTTTTTAAAATAC-TTTTTTAA
1 TATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAA
* *
42430 TTTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAA
* *
42472 TTTTTATTTTAATTTTTAAAATA
1 -TATT-TTTTAAATTTTAAAATA
42495 AATTTTTGGT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
41 37 0.40
42 37 0.40
43 4 0.04
44 15 0.16
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (42 bp):
TATTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAA
Found at i:42426 original size:41 final size:41
Alignment explanation
Indices: 42348--42494 Score: 195
Period size: 42 Copynumber: 3.5 Consensus size: 41
42338 ATTATTTTTT
*
42348 ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTAAA
* * *
42390 ATTTTTTAAATTTTAAAATTTTTTTAAAATACTTTTTTAAT
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
* *
42431 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTAAT
1 ATTTTTTTAATTTTAAAATATTTTTAAAATAC-TTTTTTAAA
*
42473 TTTTATTTTAATTTTTAAAATA
1 ATTT-TTTTAA-TTTTAAAATA
42495 AATTTTTGGT
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
41 37 0.39
42 42 0.44
43 6 0.06
44 10 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (41 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTAAA
Found at i:47953 original size:5 final size:5
Alignment explanation
Indices: 47943--48028 Score: 81
Period size: 5 Copynumber: 17.0 Consensus size: 5
47933 ATTTAAAATA
*
47943 TATAT TATAT TATAT T-TACT TA-AT TA-AT AAGTAT GT-TAT TATAT
1 TATAT TATAT TATAT TATA-T TATAT TATAT TA-TAT -TATAT TATAT
*
47987 TATAT TATTAT AATAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TA-TAT TATAT TATAT TATAT TATAT TA-TAT TATAT
48029 AAAACAACAG
Statistics
Matches: 69, Mismatches: 4, Indels: 16
0.78 0.04 0.18
Matches are distributed among these distances:
4 9 0.13
5 49 0.71
6 11 0.16
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (5 bp):
TATAT
Found at i:47995 original size:8 final size:8
Alignment explanation
Indices: 47984--48023 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
47974 TATGTTATTA
47984 TATTATAT
1 TATTATAT
*
47992 TATTATAA
1 TATTATAT
48000 TATTATATT
1 TATTATA-T
48009 ATATTATAT
1 -TATTATAT
48018 TATTAT
1 TATTAT
48024 TATATAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 20 0.71
9 1 0.04
10 7 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:48003 original size:21 final size:21
Alignment explanation
Indices: 47979--48028 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
47969 ATAAGTATGT
47979 TATTATATTATATTAT-TATAA
1 TATTATATTATATTATAT-TAA
*
48000 TATTATATTATATTATATTAT
1 TATTATATTATATTATATTAA
48021 TATTATAT
1 TATTATAT
48029 AAAACAACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATATTATATTATATTAA
Found at i:48022 original size:29 final size:29
Alignment explanation
Indices: 47939--48027 Score: 89
Period size: 29 Copynumber: 3.0 Consensus size: 29
47929 TTAAATTTAA
47939 AATA-TATATTATATTATATTTACTTAATTAAT
1 AATATTATATTATATTATA-TTA-TT-ATT-AT
47971 AAGTATGT-TATTATA-T-TA-TATTATTAT
1 AA-TAT-TATATTATATTATATTATTATTAT
47998 AATATTATATTATATTATATTATTATTAT
1 AATATTATATTATATTATATTATTATTAT
48027 A
1 A
48028 TAAAACAACA
Statistics
Matches: 50, Mismatches: 0, Indels: 17
0.75 0.00 0.25
Matches are distributed among these distances:
25 1 0.02
26 10 0.20
27 5 0.10
28 5 0.10
29 12 0.24
30 2 0.04
32 4 0.08
33 3 0.06
34 7 0.14
35 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (29 bp):
AATATTATATTATATTATATTATTATTAT
Found at i:48029 original size:13 final size:13
Alignment explanation
Indices: 47943--48023 Score: 69
Period size: 13 Copynumber: 6.2 Consensus size: 13
47933 ATTTAAAATA
47943 TATATTATATTAT
1 TATATTATATTAT
* *
47956 ATTTACTTA-ATTAA
1 -TATA-TTATATTAT
* *
47970 TA-AGTATGTTAT
1 TATATTATATTAT
47982 TATATTATATTAT
1 TATATTATATTAT
*
47995 TATAATAT-TATAT
1 TATATTATAT-TAT
48008 TATATTATATTAT
1 TATATTATATTAT
48021 TAT
1 TAT
48024 TATATAAAAC
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
11 2 0.04
12 7 0.13
13 32 0.62
14 8 0.15
15 3 0.06
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (13 bp):
TATATTATATTAT
Found at i:49159 original size:47 final size:47
Alignment explanation
Indices: 49088--49197 Score: 152
Period size: 47 Copynumber: 2.3 Consensus size: 47
49078 ACTCTAGCGC
*
49088 GCTCTCTGA-TATTTAGCACGTCAGTGCTCTCTGGTTAGCACATCTGT
1 GCTCTCTGATTA-TTAGCACGTCAGTGCTCTCTGGTTAGCACATCTAT
* * *
49135 GCTCTCTGATTATTAGCACTTCAGTGCTCTCTGTTTAGCACTTCTAT
1 GCTCTCTGATTATTAGCACGTCAGTGCTCTCTGGTTAGCACATCTAT
49182 GCTCTCTG-TTCATTAG
1 GCTCTCTGATT-ATTAG
49198 TGCATAATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
46 2 0.04
47 53 0.93
48 2 0.04
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.40
Consensus pattern (47 bp):
GCTCTCTGATTATTAGCACGTCAGTGCTCTCTGGTTAGCACATCTAT
Found at i:49161 original size:25 final size:23
Alignment explanation
Indices: 49088--49190 Score: 104
Period size: 22 Copynumber: 4.4 Consensus size: 23
49078 ACTCTAGCGC
*
49088 GCTCTCTGATATTTAGCACGTCAGT
1 GCTCTCTG-TA-TTAGCACTTCAGT
* * *
49113 GCTCTCTG-GTTAGCACATCTGT
1 GCTCTCTGTATTAGCACTTCAGT
49135 GCTCTCTGATTATTAGCACTTCAGT
1 GCTCTCTG--TATTAGCACTTCAGT
49160 GCTCTCTGT-TTAGCACTTCTA-T
1 GCTCTCTGTATTAGCACTTC-AGT
49182 GCTCTCTGT
1 GCTCTCTGT
49191 TCATTAGTGC
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
22 39 0.57
23 2 0.03
25 27 0.40
ACGTcount: A:0.16, C:0.26, G:0.18, T:0.40
Consensus pattern (23 bp):
GCTCTCTGTATTAGCACTTCAGT
Found at i:49190 original size:22 final size:22
Alignment explanation
Indices: 49099--49191 Score: 107
Period size: 22 Copynumber: 4.1 Consensus size: 22
49089 CTCTCTGATA
*
49099 TTTAGCACGTCAGTGCTCTCTG
1 TTTAGCACTTCAGTGCTCTCTG
* * *
49121 GTTAGCACATCTGTGCTCTCTG
1 TTTAGCACTTCAGTGCTCTCTG
49143 ATTATTAGCACTTCAGTGCTCTCTG
1 --T-TTAGCACTTCAGTGCTCTCTG
49168 TTTAGCACTTCTA-TGCTCTCTG
1 TTTAGCACTTC-AGTGCTCTCTG
49190 TT
1 TT
49192 CATTAGTGCA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
22 40 0.66
23 2 0.03
25 19 0.31
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.41
Consensus pattern (22 bp):
TTTAGCACTTCAGTGCTCTCTG
Found at i:50144 original size:32 final size:31
Alignment explanation
Indices: 50103--50167 Score: 121
Period size: 32 Copynumber: 2.1 Consensus size: 31
50093 TTTAGCCAGG
50103 TAAGTTCGTATCAATAGAATCGAACTTTATGT
1 TAAGTTCGTATCAATAGAATCGAACTTTA-GT
50135 TAAGTTCGTATCAATAGAATCGAACTTTAGT
1 TAAGTTCGTATCAATAGAATCGAACTTTAGT
50166 TA
1 TA
50168 TGTGAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.12
32 29 0.88
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (31 bp):
TAAGTTCGTATCAATAGAATCGAACTTTAGT
Found at i:50332 original size:7 final size:7
Alignment explanation
Indices: 50311--50375 Score: 69
Period size: 7 Copynumber: 9.3 Consensus size: 7
50301 TACAAGTCAC
50311 TAGGG-T
1 TAGGGTT
*
50317 TATGGTT
1 TAGGGTT
50324 TAGGGTT
1 TAGGGTT
*
50331 TATGGTT
1 TAGGGTT
50338 TAGGGTT
1 TAGGGTT
*
50345 TAGGATTT
1 TAGG-GTT
50353 TAGGGTT
1 TAGGGTT
**
50360 TAATGTT
1 TAGGGTT
50367 TAGGGTT
1 TAGGGTT
50374 TA
1 TA
50376 AGATAGATGC
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
6 4 0.09
7 37 0.79
8 6 0.13
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.48
Consensus pattern (7 bp):
TAGGGTT
Found at i:50335 original size:14 final size:14
Alignment explanation
Indices: 50311--50375 Score: 82
Period size: 14 Copynumber: 4.6 Consensus size: 14
50301 TACAAGTCAC
50311 TAGGG-TTATGGTT
1 TAGGGTTTATGGTT
50324 TAGGGTTTATGGTT
1 TAGGGTTTATGGTT
50338 TAGGGTTTA-GGATTT
1 TAGGGTTTATGG--TT
50353 TAGGGTTTAAT-GTT
1 TAGGGTTT-ATGGTT
50367 TAGGGTTTA
1 TAGGGTTTA
50376 AGATAGATGC
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
13 8 0.17
14 27 0.57
15 10 0.21
16 2 0.04
ACGTcount: A:0.18, C:0.00, G:0.34, T:0.48
Consensus pattern (14 bp):
TAGGGTTTATGGTT
Found at i:51513 original size:23 final size:26
Alignment explanation
Indices: 51451--51517 Score: 72
Period size: 26 Copynumber: 2.7 Consensus size: 26
51441 AGACTCAACA
51451 CAGCTC-GTATGAGCTTACCAATATAT
1 CAGCTCTG-ATGAGCTTACCAATATAT
*
51477 CAGCTCTTATGAGCTTACC-AT-T-T
1 CAGCTCTGATGAGCTTACCAATATAT
51500 CAGCT-TGATAGAGCTTAC
1 CAGCTCTGAT-GAGCTTAC
51518 TGTTCATCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
22 3 0.08
23 14 0.38
24 1 0.03
25 2 0.05
26 17 0.46
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (26 bp):
CAGCTCTGATGAGCTTACCAATATAT
Found at i:51743 original size:20 final size:20
Alignment explanation
Indices: 51705--51743 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
51695 TATGGATGAA
* *
51705 TTACTATTGATATGTATAAG
1 TTACTATTGATACGGATAAG
*
51725 TTACTGTTGATACGGATAA
1 TTACTATTGATACGGATAA
51744 ATTTCTGTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (20 bp):
TTACTATTGATACGGATAAG
Found at i:53457 original size:592 final size:593
Alignment explanation
Indices: 52332--53526 Score: 2358
Period size: 592 Copynumber: 2.0 Consensus size: 593
52322 TTTAAGTTGT
52332 GAATAAATTGTTAAATTATTTATAATACTGATAATCATACGGCTTACTAAGCTTATTAGCTTACT
1 GAATAAATTGTTAAATTATTTATAATACTGATAATCATACGGCTTACTAAGCTTATTAGCTTACT
52397 CTATTTATTTTTCGTATTTTTTTCAGTGATTTGAAAGCTCGCTCGGGTTGGAAGTCATTGAAGAT
66 CTATTTATTTTTCGTATTTTTTTCAGTGATTTGAAAGCTCGCTCGGGTTGGAAGTCATTGAAGAT
52462 TTCATCACACTATCCAGGAGTTGATTTGGTATTTTTTATCTCTTTGAAATTGGTAATATGGCATG
131 TTCATCACACTATCCAGGAGTTGATTTGGTATTTTTTATCTCTTTGAAATTGGTAATATGGCATG
52527 TATAGGCTAGTTGATTATATGAGATGTAACGACCCAAAATCCGTGGGCACCGGAAAAGTATATTA
196 TATAGGCTAGTTGATTATATGAGATGTAACGACCCAAAATCCGTGGGCACCGGAAAAGTATATTA
52592 TCGGGCTTCCGTCTTAGTAAACTGAGTCATAAATAATTATTAGAAGTAATTATGAGTTTAATTGA
261 TCGGGCTTCCGTCTTAGTAAACTGAGTCATAAATAATTATTAGAAGTAATTATGAGTTTAATTGA
52657 GTGCTTAATTAGGTGAATTTAGTCTAATTAAGAATAATTAGGAGAAAAGGATCAAATCGAATAAA
326 GTGCTTAATTAGGTGAATTTAGTCTAATTAAGAATAATTAGGAGAAAAGGATCAAATCGAATAAA
52722 GAGTGAAAGTCTAATTATAAATTAAAAGAAAGTAAAAAGGGCTAAAGTGGCAATTAAGCCACTTA
391 GAGTGAAAGTCTAATTATAAATTAAAAGAAAGTAAAAAGGGCTAAAGTGGCAATTAAGCCACTTA
52787 CATGGAAAGAGGCGGCATATATGCGTTAAATTCAAGACTTATTTAAGTTATATATAAATATTATA
456 CATGGAAAGAGGCGGCATATATGCGTTAAATTCAAGACTTATTTAAGTTATATATAAATATTATA
52852 TGTATATAATAAT-A-ATTATTATTATTATTTATTTAAATTGCAATTTATATTAATTGTATTATT
521 TGTATATAATAATAATATTATTATTATTATTTATTTAAATTGCAATTTATATTAATTGTATTATT
52915 TTATTATG
586 TTATTATG
52923 GCAATAAATTGTTAAATTATTTATAATACTGATAATCATACGGCTTACTAAGCTTATTAGCTTAC
1 G-AATAAATTGTTAAATTATTTATAATACTGATAATCATACGGCTTACTAAGCTTATTAGCTTAC
52988 TCTATTTATTTTTCGTATTTTTTTCAGTGATTTGAAAGCTCGCTCGGGTTGGAAGTCATTGAAGA
65 TCTATTTATTTTTCGTATTTTTTTCAGTGATTTGAAAGCTCGCTCGGGTTGGAAGTCATTGAAGA
53053 TTTCATCACACTATCCAGGAGTTGATTTGGTATTTTTTATCTCTTTGAAATTGGTAATATGGCAT
130 TTTCATCACACTATCCAGGAGTTGATTTGGTATTTTTTATCTCTTTGAAATTGGTAATATGGCAT
53118 GTATAGGCTAGTTGATTATATGAGATGTAACGACCCAAAATCCGTGGGCACCGGAAAAGTATATT
195 GTATAGGCTAGTTGATTATATGAGATGTAACGACCCAAAATCCGTGGGCACCGGAAAAGTATATT
53183 ATCGGGCTTCCGTCTTAGTAAACTGAGTCATAAATAATTATTAGAAGTAATTATGAGTTTAATTG
260 ATCGGGCTTCCGTCTTAGTAAACTGAGTCATAAATAATTATTAGAAGTAATTATGAGTTTAATTG
53248 AGTGCTTAATTAGGTGAATTTAGTCTAATTAAGAATAATTAGGAGAAAAGGATCAAATCGAATAA
325 AGTGCTTAATTAGGTGAATTTAGTCTAATTAAGAATAATTAGGAGAAAAGGATCAAATCGAATAA
53313 AGAGTGAAAGTCTAATTATAAATTAAAAGAAAGTAAAAAGGGCTAAAGTGGCAATTAAGCCACTT
390 AGAGTGAAAGTCTAATTATAAATTAAAAGAAAGTAAAAAGGGCTAAAGTGGCAATTAAGCCACTT
53378 ACATGGAAAGAGGCGGCATATATGCGTTAAATTCAAGACTTATTTAAGTTATATATAAATATTAT
455 ACATGGAAAGAGGCGGCATATATGCGTTAAATTCAAGACTTATTTAAGTTATATATAAATATTAT
53443 ATGTATATAATAATAATTATTATTATTATTATTTATTTAAATTGCAATTTATATTAATTGTATTA
520 ATGTATATAATAATAA-TATTATTATTATTATTTATTTAAATTGCAATTTATATTAATTGTATTA
53508 TTTTATTATG
584 TTTTATTATG
53518 GAATAAATT
1 GAATAAATT
53527 AAAATTAAGA
Statistics
Matches: 600, Mismatches: 0, Indels: 5
0.99 0.00 0.01
Matches are distributed among these distances:
591 1 0.00
592 532 0.89
593 1 0.00
594 8 0.01
595 58 0.10
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (593 bp):
GAATAAATTGTTAAATTATTTATAATACTGATAATCATACGGCTTACTAAGCTTATTAGCTTACT
CTATTTATTTTTCGTATTTTTTTCAGTGATTTGAAAGCTCGCTCGGGTTGGAAGTCATTGAAGAT
TTCATCACACTATCCAGGAGTTGATTTGGTATTTTTTATCTCTTTGAAATTGGTAATATGGCATG
TATAGGCTAGTTGATTATATGAGATGTAACGACCCAAAATCCGTGGGCACCGGAAAAGTATATTA
TCGGGCTTCCGTCTTAGTAAACTGAGTCATAAATAATTATTAGAAGTAATTATGAGTTTAATTGA
GTGCTTAATTAGGTGAATTTAGTCTAATTAAGAATAATTAGGAGAAAAGGATCAAATCGAATAAA
GAGTGAAAGTCTAATTATAAATTAAAAGAAAGTAAAAAGGGCTAAAGTGGCAATTAAGCCACTTA
CATGGAAAGAGGCGGCATATATGCGTTAAATTCAAGACTTATTTAAGTTATATATAAATATTATA
TGTATATAATAATAATATTATTATTATTATTTATTTAAATTGCAATTTATATTAATTGTATTATT
TTATTATG
Found at i:54955 original size:46 final size:44
Alignment explanation
Indices: 54882--54988 Score: 142
Period size: 46 Copynumber: 2.4 Consensus size: 44
54872 TATGTGCTGA
*
54882 TTACTGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAAATACTG
1 TTACTGTTACTGTTA-CAATTCAGCACTTTGTGTGTCG-AATACTG
* * *
54928 TTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATATTG
1 TTACTGTTACTGTTACA-ATTCAGCACTTTGTGTGTCGAATACTG
*
54973 TTACTTTTACTGTTAC
1 TTACTGTTACTGTTAC
54989 TGTTACCGTT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
45 22 0.41
46 32 0.59
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (44 bp):
TTACTGTTACTGTTACAATTCAGCACTTTGTGTGTCGAATACTG
Found at i:55009 original size:7 final size:6
Alignment explanation
Indices: 54971--55016 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
54961 TGTTGAATAT
* *
54971 TGTTAC TTTTAC TGTTAC TGTTAC CGTTAC TGATTAC TGTTTAC TG
1 TGTTAC TGTTAC TGTTAC TGTTAC TGTTAC TG-TTAC TG-TTAC TG
55017 GTGTGTTTGG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
6 22 0.65
7 12 0.35
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.50
Consensus pattern (6 bp):
TGTTAC
Found at i:60656 original size:20 final size:20
Alignment explanation
Indices: 60633--60716 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
60623 CTAAAATTTT
*
60633 TAAGGATTCACCAAAAATTC
1 TAAGGATTTACCAAAAATTC
* * *
60653 TAAGGAGTTACTAAAATTTC
1 TAAGGATTTACCAAAAATTC
* * *
60673 TAAAGATTTATCATAATATT-
1 TAAGGATTTACCA-AAAATTC
* *
60693 TAAGGTTTTACCAAAATTTC
1 TAAGGATTTACCAAAAATTC
60713 TAAG
1 TAAG
60717 AGCATGTTTG
Statistics
Matches: 47, Mismatches: 15, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
19 4 0.09
20 39 0.83
21 4 0.09
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.36
Consensus pattern (20 bp):
TAAGGATTTACCAAAAATTC
Found at i:60697 original size:40 final size:40
Alignment explanation
Indices: 60621--60715 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 40
60611 ATTTTGGTAA
* *
60621 TACTAAAATTTTTAAGGATTCACCAAAAATTCTAAGGAGT
1 TACTAAAATTTCTAAAGATTCACCAAAAATTCTAAGGAGT
* * * **
60661 TACTAAAATTTCTAAAGATTTATCATAATATT-TAAGGTTT
1 TACTAAAATTTCTAAAGATTCACCA-AAAATTCTAAGGAGT
*
60701 TACCAAAATTTCTAA
1 TACTAAAATTTCTAA
60716 GAGCATGTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 41 0.89
41 5 0.11
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (40 bp):
TACTAAAATTTCTAAAGATTCACCAAAAATTCTAAGGAGT
Found at i:63273 original size:18 final size:19
Alignment explanation
Indices: 63250--63287 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
63240 TTAAAATGGA
*
63250 AAAATGTATATGTAT-TAT
1 AAAATGTAAATGTATATAT
63268 AAAATGTAAATGTATATAT
1 AAAATGTAAATGTATATAT
63287 A
1 A
63288 TATATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.11, T:0.39
Consensus pattern (19 bp):
AAAATGTAAATGTATATAT
Found at i:63308 original size:13 final size:13
Alignment explanation
Indices: 63290--63314 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
63280 TATATATATA
63290 TATATATAAAAAC
1 TATATATAAAAAC
63303 TATATATAAAAA
1 TATATATAAAAA
63315 ACTAAGAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
TATATATAAAAAC
Found at i:63308 original size:15 final size:14
Alignment explanation
Indices: 63288--63318 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
63278 TGTATATATA
63288 TATATATATAAAAAC
1 TATATATA-AAAAAC
63303 TATATATAAAAAAC
1 TATATATAAAAAAC
63317 TA
1 TA
63319 AGAAGATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.32
Consensus pattern (14 bp):
TATATATAAAAAAC
Found at i:63439 original size:3 final size:3
Alignment explanation
Indices: 63431--63488 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
63421 ATGTATAAGT
63431 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
63479 ATA ATA ATA A
1 ATA ATA ATA A
63489 CTGTAACACC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:63931 original size:46 final size:46
Alignment explanation
Indices: 63842--63978 Score: 206
Period size: 45 Copynumber: 3.0 Consensus size: 46
63832 ACATTGCTAT
* *
63842 AACTCAGTATGGTTTTCTTCA-CGGAATACCATGCCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
*
63887 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* * *
63933 AACTCAGTAT-GTTTTCTTCACTGAAATATCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
63978 A
1 A
63979 CTTTGCCATG
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 52 0.62
46 32 0.38
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
Found at i:67688 original size:300 final size:299
Alignment explanation
Indices: 67140--67717 Score: 1095
Period size: 300 Copynumber: 1.9 Consensus size: 299
67130 CGTGCGGCGT
*
67140 ACCCTAGGGTTTCTGCTTCCATTGTTGCTGAAAACATGTTGTGGGCTAGGGTTAATTTAGGCCAA
1 ACCCTAGGGTTTCTGCTTCCATTGCTGCTGAAAACATGTTGTGGGCTAGGGTTAATTTAGGCCAA
*
67205 TTGGGCCAAATGTATTGGGTTATTGTTTTATTTTTAGTATTTGATTTGGGTTGTGTAAATGGTTT
66 TTGGGCCAAATGTATTGGGTTATTGTTTTATTTTTAGTATTTGATTTGGGCTGTGTAAATGGTTT
*
67270 TGGGCTTTAGGCTTAGTTGGGCCCAGGTAAAAATTTGGGTATTACAAGGCTCGCTGATTTCAAAG
131 TGGGCTTTAGACTTAGTTGGGCCCAGGTAAAAATTTGGGTATTACAAGGCTCGCTGATTTCAAAG
67335 AAATAAATTGTCACACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAGAATTAAGTTTATCT
196 AAATAAATTGTCACACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAGAATTAAGTTTATCT
67400 TTTGACTTTTAAAACCTAGGGTTAATTAAGTTAGAGTGC
261 TTTGACTTTTAAAACCTAGGGTTAATTAAGTTAGAGTGC
67439 ACCCTAGGGTTTCTGCTTCCATTGCTGCTGAAAACATGTTGTGGGCTAGGGTTAATTTTAGGCCA
1 ACCCTAGGGTTTCTGCTTCCATTGCTGCTGAAAACATGTTGTGGGCTAGGGTTAA-TTTAGGCCA
67504 ATTGGGCCAAATGTATTGGGTTATTGTTTTATTTTTAGTATTTGATTTGGGCTGTGTAAATGGTT
65 ATTGGGCCAAATGTATTGGGTTATTGTTTTATTTTTAGTATTTGATTTGGGCTGTGTAAATGGTT
67569 TTGGGCTTTAGACTTAGTTGGGCCCAGGTCAAAAA-TTGGGTATTACAAGGCTCGCTGATTTCAA
130 TTGGGCTTTAGACTTAGTTGGGCCCAGGT-AAAAATTTGGGTATTACAAGGCTCGCTGATTTCAA
*
67633 AGAAATAAATTGTCACACTCAGTAAGTTAGAGTGCAACATTTCAAATCTTCAGAATTAAGTTTAT
194 AGAAATAAATTGTCACACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAGAATTAAGTTTAT
67698 CTTTTGACTTTTAAAACCTA
259 CTTTTGACTTTTAAAACCTA
67718 TGCATTTTGA
Statistics
Matches: 273, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
299 54 0.20
300 214 0.78
301 5 0.02
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.37
Consensus pattern (299 bp):
ACCCTAGGGTTTCTGCTTCCATTGCTGCTGAAAACATGTTGTGGGCTAGGGTTAATTTAGGCCAA
TTGGGCCAAATGTATTGGGTTATTGTTTTATTTTTAGTATTTGATTTGGGCTGTGTAAATGGTTT
TGGGCTTTAGACTTAGTTGGGCCCAGGTAAAAATTTGGGTATTACAAGGCTCGCTGATTTCAAAG
AAATAAATTGTCACACTCAGTAAGTTAGAGTGCAACATTTCAAATCCTCAGAATTAAGTTTATCT
TTTGACTTTTAAAACCTAGGGTTAATTAAGTTAGAGTGC
Found at i:68787 original size:21 final size:22
Alignment explanation
Indices: 68763--68808 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
68753 AGAATGATAC
*
68763 ATGA-AAACTTAAAATAATTAT
1 ATGATAAACTTAAAATAATAAT
*
68784 ATGATAAATTTAAAATAATAAT
1 ATGATAAACTTAAAATAATAAT
68806 ATG
1 ATG
68809 TGATAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.35
Consensus pattern (22 bp):
ATGATAAACTTAAAATAATAAT
Found at i:68796 original size:22 final size:23
Alignment explanation
Indices: 68763--68821 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
68753 AGAATGATAC
*
68763 ATGA-AAACTTAAAATAAT-TAT
1 ATGATAAATTTAAAATAATATAT
68784 ATGATAAATTTAAAATAATAATAT
1 ATGATAAATTTAAAATAAT-ATAT
*
68808 GTGATAAATTTAAA
1 ATGATAAATTTAAA
68822 CAACATTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 13 0.39
24 16 0.48
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (23 bp):
ATGATAAATTTAAAATAATATAT
Found at i:69333 original size:4 final size:4
Alignment explanation
Indices: 69324--69393 Score: 58
Period size: 4 Copynumber: 17.5 Consensus size: 4
69314 GGGAAAGGAG
*
69324 AAGA AAGA AAGA AAG- AA-A AAGA AAGAA AAGGA AAGGA GAGGA AAGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAG-A AA-GA AA-GA -AAGA AAGA
*
69370 AAGA AAG- AA-A AAGA AGGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
69394 AGGAAAGGAG
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
3 8 0.15
4 34 0.62
5 11 0.20
6 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:69344 original size:10 final size:10
Alignment explanation
Indices: 69331--69411 Score: 60
Period size: 10 Copynumber: 8.3 Consensus size: 10
69321 GAGAAGAAAG
69331 AAAGAAAGAA
1 AAAGAAAGAA
69341 AAAGAAAGAA
1 AAAGAAAGAA
* *
69351 AAGGAAAGGA
1 AAAGAAAGAA
* *
69361 GAGGAAAG--
1 AAAGAAAGAA
69369 AAAGAAAGAA
1 AAAGAAAGAA
*
69379 AAAGAAGGAA
1 AAAGAAAGAA
* *
69389 AGA-AAAGGA
1 AAAGAAAGAA
*
69398 AAGGAGAAGAA
1 AAAGA-AAGAA
69409 AAA
1 AAA
69412 AAACAAAAGA
Statistics
Matches: 54, Mismatches: 13, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
8 6 0.11
9 5 0.09
10 37 0.69
11 6 0.11
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
AAAGAAAGAA
Found at i:69368 original size:38 final size:38
Alignment explanation
Indices: 69315--69422 Score: 139
Period size: 38 Copynumber: 2.8 Consensus size: 38
69305 AGAATGAGAG
*
69315 GGAAAGGAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAA
1 GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAAGAAAA
*
69353 GGAAAGGAGAGGAAAGAAAGAAAGAAAAAG-AAGGAAA
1 GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAAGAAAA
* * *
69390 GAAAAGGAAAGGAGAAGAAA-AAAAACAAAAGAA
1 GGAAAGGAGAGGA-AAGAAAGAAAGA-AAAAGAA
69423 GAAGAAGAGG
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
37 21 0.34
38 40 0.65
39 1 0.02
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (38 bp):
GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAAGAAAA
Found at i:69390 original size:42 final size:38
Alignment explanation
Indices: 69315--69409 Score: 145
Period size: 38 Copynumber: 2.4 Consensus size: 38
69305 AGAATGAGAG
69315 GGAAAGGAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAA
*
69353 GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGAAAGGAGAAGAAAGAAAGAAAG--AAA-AA-GAAAGAAAA
69395 GGAAAGGAGAAGAAA
1 GGAAAGGAGAAGAAA
69410 AAAAACAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
38 23 0.45
40 3 0.06
41 2 0.04
42 23 0.45
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (38 bp):
GGAAAGGAGAAGAAAGAAAGAAAGAAAAAGAAAGAAAA
Found at i:69423 original size:38 final size:37
Alignment explanation
Indices: 69315--69423 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 37
69305 AGAATGAGAG
69315 GGAAAGGAGAAGAAAGAAAGAAAGAAA-AA-GAAAGAAAA
1 GGAAAGGAGAAGAAA-AAA-AAA-AAAGAAGGAAAGAAAA
*
69353 GGAAAGGAGAGGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAA
1 GGAAA-G-GA-G-AAGAAA-AAAAAAAAAGAAGGAAAGAAAA
69395 GGAAAGGAGAAGAAAAAAAACAAAAGAAG
1 GGAAAGGAGAAGAAAAAAAA-AAAAGAAG
69424 AAGAAGAGGG
Statistics
Matches: 62, Mismatches: 2, Indels: 14
0.79 0.03 0.18
Matches are distributed among these distances:
37 4 0.06
38 19 0.31
39 2 0.03
40 7 0.11
41 6 0.10
42 24 0.39
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (37 bp):
GGAAAGGAGAAGAAAAAAAAAAAAGAAGGAAAGAAAA
Found at i:70250 original size:314 final size:315
Alignment explanation
Indices: 69675--70463 Score: 1341
Period size: 314 Copynumber: 2.5 Consensus size: 315
69665 AAAAATGGTA
* *
69675 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTAAAATAATGTAAAATAATA
1 TATTT-AAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATA
69740 AAATTAGAAAATATAATATTTTTTAAAGTAATAAAATGTGGAGAAAAAAATACGAACAAAGGGCC
65 AAATTAGAAAATATAATATTTTTTAAAGTAATAAAATGTGGAGAAAAAAATACGAACAAAGGGCC
*
69805 GAAGTAAGTGTTTTTTACTAATTTTTTTAAAAATTAAAAAATAATTAATACAAATATTTCAAACA
130 GAAGTAAGAGTTTTTTACTAATTTTTTTAAAAATTAAAAAATAATTAATACAAATATTTCAAACA
*
69870 AAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAA
195 AAATGTACTGAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAA
69935 AATTCGGAAAAATAATACGAGCAAAGGGCAGGAATAAGAGTTTTTTTTTT-AAATT
260 AATTCGGAAAAATAATACGAGCAAAGGGCAGGAATAAGAGTTTTTTTTTTCAAATT
* *
69990 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATATACCGAAATAATGTAAAATAATAA
1 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
70055 AATTAGAAAATATAATATTTTTTAAAGTAATAAAATGTGGAGAAAAAAATACGAACAAAGGGCCG
66 AATTAGAAAATATAATATTTTTTAAAGTAATAAAATGTGGAGAAAAAAATACGAACAAAGGGCCG
* * *
70120 AAGTAAGAGTTTTTTACTAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTCAAACAA
131 AAGTAAGAGTTTTTTACTAATTTTTTTAAAAATTAAAAAATAATTAATACAAATATTTCAAACAA
*
70185 AATTTACTGAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAA
196 AATGTACTGAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAA
* *
70250 ATTCGGGAAAATAATACGAGCAAAGGGCAGGAATAAGGGTTTTTTTTTTCAAATT
261 ATTCGGAAAAATAATACGAGCAAAGGGCAGGAATAAGAGTTTTTTTTTTCAAATT
70305 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
1 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
* * * * *
70370 AATTAGAAAATATGATATTTTTATTGAAAGTAATAAAAT-TCGG-GAAAATAGTACGAATAAATG
66 AATTAGAAAATATAATA-TTTT-TT-AAAGTAATAAAATGT-GGAGAAAAAAATACGAACAAAGG
* *
70433 GCCGAAATAAGGGTTTTTTACTAATTTTTTT
127 GCCGAAGTAAGAGTTTTTTACTAATTTTTTT
70464 TTGAAATTGC
Statistics
Matches: 447, Mismatches: 22, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
314 292 0.65
315 89 0.20
316 4 0.01
317 47 0.11
318 15 0.03
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.32
Consensus pattern (315 bp):
TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
AATTAGAAAATATAATATTTTTTAAAGTAATAAAATGTGGAGAAAAAAATACGAACAAAGGGCCG
AAGTAAGAGTTTTTTACTAATTTTTTTAAAAATTAAAAAATAATTAATACAAATATTTCAAACAA
AATGTACTGAAATAATATAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAA
ATTCGGAAAAATAATACGAGCAAAGGGCAGGAATAAGAGTTTTTTTTTTCAAATT
Found at i:70363 original size:157 final size:154
Alignment explanation
Indices: 69675--70451 Score: 855
Period size: 157 Copynumber: 4.9 Consensus size: 154
69665 AAAAATGGTA
* *
69675 TATTTAAAAAACACACTAAATTAATAAATTTCAAACATAATGCACTAAAATAATGTAAAATAATA
1 TATTT-AAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATA
*
69740 AAATTAGAAAATATA-ATATTTT-TT-AAAGTAATAAAATGT-GGAGAAAAAAATACGAACAAAG
65 AAATTAGAAAATATATAT-TTTTATTGAAAGTAATAAAAT-TCGG-GAAAATAATACGAACAAAG
* * **
69801 GGCCGAAGTAAGTG-TTTTTTACT-AATT
127 GGCGGAA-TAAGAGTTTTTTTTTTAAATT
* * * ** * *
69828 TTTTTAAAAATTAAAAAATAATTAATACAAATATTTCAAACAAAATGTACTGAAATAATATAAAA
1 TATTTAAAAA-CACACTA-AATTAAT---AA-ATTTCAAACATAATGTACTGAAATAATGTAAAA
* *
69893 TAATAAAA-TACGAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGAAAAATAATACGAGC
60 TAATAAAATTA-GAAAAT-ATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAAC
69957 AAAGGGCAGGAATAAGAGTTTTTTTTTTAAATT
123 AAAGGGC-GGAATAAGAGTTTTTTTTTTAAATT
* *
69990 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATATACCGAAATAATGTAAAATAATAA
1 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
*
70055 AATTAGAAAATATA-ATATTTT-TT-AAAGTAATAAAATGT-GGAGAAAAAAATACGAACAAAGG
66 AATTAGAAAATATATAT-TTTTATTGAAAGTAATAAAAT-TCGG-GAAAATAATACGAACAAAGG
* **
70116 GCCGAAGTAAGAG-TTTTTTACTAAATT
128 GCGGAA-TAAGAGTTTTTTTTTTAAATT
* * * * *
70143 T-TTTAAAAATTCAGA-AATAATTAATACAAATATTTCAAACAAAATTTACTGAAATAATATAAA
1 TATTTAAAAA--CACACTA-AATTAAT---AA-ATTTCAAACATAATGTACTGAAATAATGTAAA
* *
70206 ATAATAAAA-TACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAG
59 ATAATAAAATTA-GAAAAT-ATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAA
*
70270 CAAAGGGCAGGAATAAGGGTTTTTTTTTTCAAATT
122 CAAAGGGC-GGAATAAGAGTTTTTTTTTT-AAATT
70305 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
1 TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
* * *
70370 AATTAGAAAATATGATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAGTACGAATAAATGGC
66 AATTAGAAAATAT-ATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAACAAA-GGG
* *
70435 CGAAATAAGGGTTTTTT
129 CGGAATAAGAGTTTTTT
70452 ACTAATTTTT
Statistics
Matches: 528, Mismatches: 55, Indels: 78
0.80 0.08 0.12
Matches are distributed among these distances:
152 13 0.02
153 39 0.07
154 47 0.09
155 7 0.01
156 45 0.09
157 114 0.22
158 92 0.17
159 14 0.03
160 66 0.12
161 63 0.12
162 20 0.04
163 8 0.02
ACGTcount: A:0.51, C:0.07, G:0.11, T:0.31
Consensus pattern (154 bp):
TATTTAAAAACACACTAAATTAATAAATTTCAAACATAATGTACTGAAATAATGTAAAATAATAA
AATTAGAAAATATATATTTTTATTGAAAGTAATAAAATTCGGGAAAATAATACGAACAAAGGGCG
GAATAAGAGTTTTTTTTTTAAATT
Found at i:72712 original size:10 final size:10
Alignment explanation
Indices: 72684--72721 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
72674 AAATACTTTT
72684 TTTTTCTCTTC
1 TTTTTCTC-TC
*
72695 TCTTTCTCTC
1 TTTTTCTCTC
72705 TTTTTCTCTC
1 TTTTTCTCTC
72715 TTTTTCT
1 TTTTTCT
72722 GGCAGCACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTCTCTC
Found at i:72830 original size:27 final size:27
Alignment explanation
Indices: 72800--72864 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
72790 ATAACACGAG
**
72800 TGGTGCCGCCTCTGGGAAAGGCACATT
1 TGGTGCCGCCTCTGCCAAAGGCACATT
* *
72827 TGGTGCCGCCTCTGCCACAGGCACCTT
1 TGGTGCCGCCTCTGCCAAAGGCACATT
*
72854 TGGTGCAGCCT
1 TGGTGCCGCCT
72865 GTGGCATCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.14, C:0.32, G:0.31, T:0.23
Consensus pattern (27 bp):
TGGTGCCGCCTCTGCCAAAGGCACATT
Found at i:74344 original size:37 final size:37
Alignment explanation
Indices: 74286--74356 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
74276 TCTTTCCCTC
74286 ATGCTAAACAAACCTCATATACTCAAAAAGGCTCCTA
1 ATGCTAAACAAACCTCATATACTCAAAAAGGCTCCTA
* *
74323 ATGCTAAACAATCCTCCTATACTCAAAAAGGCTC
1 ATGCTAAACAAACCTCATATACTCAAAAAGGCTC
74357 AAGAAGAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.41, C:0.28, G:0.08, T:0.23
Consensus pattern (37 bp):
ATGCTAAACAAACCTCATATACTCAAAAAGGCTCCTA
Found at i:75005 original size:7 final size:7
Alignment explanation
Indices: 74993--75021 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
74983 GTATCTATTA
74993 CACTCCT
1 CACTCCT
75000 CACTCCT
1 CACTCCT
75007 CACTCCT
1 CACTCCT
75014 CACTCCT
1 CACTCCT
75021 C
1 C
75022 CCTCTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.59, G:0.00, T:0.28
Consensus pattern (7 bp):
CACTCCT
Done.