Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013862.1 Kokia drynarioides strain JFW-HI SEQ_128890, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 160701
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Found at i:7998 original size:42 final size:41
Alignment explanation
Indices: 7935--8027 Score: 107
Period size: 42 Copynumber: 2.3 Consensus size: 41
7925 TGGGGATATC
**
7935 TAAAAAA-TAATTTTATATGCTTCAAAATAAAAAAAAACAAT
1 TAAAAAATTAATCATATATGCTTCAAAATAAAAAAAAA-AAT
* * *
7976 TAAAAAATTAATCATATTTGCTTCAAGATAAAAATAAAAAT
1 TAAAAAATTAATCATATATGCTTCAAAATAAAAAAAAAAAT
**
8017 TATTAAATTAA
1 TAAAAAATTAA
8028 ATTTGGGTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 19 0.43
42 25 0.57
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (41 bp):
TAAAAAATTAATCATATATGCTTCAAAATAAAAAAAAAAAT
Found at i:8009 original size:41 final size:42
Alignment explanation
Indices: 7935--8027 Score: 102
Period size: 41 Copynumber: 2.3 Consensus size: 42
7925 TGGGGATATC
**
7935 TAAAAAA-TAATTTTATATGCTTCAAAATAAAAAA-AAACAAT
1 TAAAAAATTAATCATATATGCTTCAAAATAAAAAATAAA-AAT
* *
7976 TAAAAAATTAATCATATTTGCTTCAAGAT-AAAAATAAAAAT
1 TAAAAAATTAATCATATATGCTTCAAAATAAAAAATAAAAAT
**
8017 TATTAAATTAA
1 TAAAAAATTAA
8028 ATTTGGGTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 24 0.55
42 20 0.45
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (42 bp):
TAAAAAATTAATCATATATGCTTCAAAATAAAAAATAAAAAT
Found at i:15836 original size:3 final size:3
Alignment explanation
Indices: 15828--15857 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15818 AAACATTTGA
15828 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
15858 CCAAAACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:19528 original size:70 final size:67
Alignment explanation
Indices: 19402--19534 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 67
19392 ATAAACAATA
* * * *
19402 TAATGATTTTGTCTTTTAACTTAATAAGTAAACATTTATTAAAACGACGTAGTTTTAACTTTTAA
1 TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACGACGTAATTTTAACTTTTAA
19467 CT
66 CT
* *
19469 TAATGATTTTGACTTTTAACTTTAGAAAAAGTAAACATTTATCAAAACGGCGTAATTTTACCTTT
1 TAATGATTTTGACTTTTAAC-TT--AAAAAGTAAACATTTATCAAAACGACGTAATTTTAACTTT
19534 T
63 T
19535 GTTATTTGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 19 0.33
68 2 0.04
70 36 0.63
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (67 bp):
TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACGACGTAATTTTAACTTTTAA
CT
Found at i:20221 original size:16 final size:17
Alignment explanation
Indices: 20200--20236 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
20190 AGTTGAATTT
*
20200 TAAAAAAT-TAATAAAA
1 TAAAAAATGCAATAAAA
20216 TAAAAAATGCAATAAAA
1 TAAAAAATGCAATAAAA
20233 -AAAA
1 TAAAA
20237 CTATATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.19
Consensus pattern (17 bp):
TAAAAAATGCAATAAAA
Found at i:20469 original size:22 final size:24
Alignment explanation
Indices: 20433--20479 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
20423 AAAAGAAAAG
*
20433 TTTTTATAAATAATTCCAATATTT
1 TTTTTATAAATAATTCAAATATTT
*
20457 TTTTTAT-AA-AATTTAAATATTT
1 TTTTTATAAATAATTCAAATATTT
20479 T
1 T
20480 CTTAATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
23 2 0.10
24 7 0.33
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTTATAAATAATTCAAATATTT
Found at i:22856 original size:20 final size:22
Alignment explanation
Indices: 22833--22878 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
22823 TTAATTTTTA
22833 TTTTT-TAATATTTAATGATTT
1 TTTTTCTAATATTTAATGATTT
* *
22854 TTTTTCTTATTTTTAATGATTT
1 TTTTTCTAATATTTAATGATTT
22876 TTT
1 TTT
22879 AATATCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTTCTAATATTTAATGATTT
Found at i:29364 original size:2 final size:2
Alignment explanation
Indices: 29357--29417 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
29347 CATACATGTG
29357 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29399 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
29418 TATTTTTTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:30400 original size:30 final size:30
Alignment explanation
Indices: 30366--30432 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
30356 TTTTGATCTT
* * *
30366 TTAAAAGTTGG-AGAAAATTTTTTAGGCCCC
1 TTAAAAGTTGGTAAAAAAATTTTGA-GCCCC
* *
30396 TTAAAAATTGGTAAAAAAATTTTGAGCTCC
1 TTAAAAGTTGGTAAAAAAATTTTGAGCCCC
30426 TTAAAAG
1 TTAAAAG
30433 CTGAATTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.33
Consensus pattern (30 bp):
TTAAAAGTTGGTAAAAAAATTTTGAGCCCC
Found at i:31578 original size:104 final size:104
Alignment explanation
Indices: 31450--31656 Score: 351
Period size: 104 Copynumber: 2.0 Consensus size: 104
31440 TGTACGCAAA
* * *
31450 TCTCAAAATCAATGTTTACATATTTGAGAGGCTTGTCTAAGAAAATGTATTGAGAGTTAGGCACT
1 TCTCAAAATCAATGTTTACATATTTGAGAGGCTTGCCTAAGAAAATGAATTGAGAGTTAGACACT
31515 TAATCAATTCTTGAGAGAATACTTTTGCAAAAGTGCTAG
66 TAATCAATTCTTGAGAGAATACTTTTGCAAAAGTGCTAG
* *
31554 TCTCGAAATCAATGTTTATATATTTGAGAGGCTTGCCTAAGAAAATGAATTGAGAGTTAGACACT
1 TCTCAAAATCAATGTTTACATATTTGAGAGGCTTGCCTAAGAAAATGAATTGAGAGTTAGACACT
* *
31619 TAATTAATTCTTGAGAGAATACTTTTGTAAAAGTGCTA
66 TAATCAATTCTTGAGAGAATACTTTTGCAAAAGTGCTA
31657 TTTTAAAAGT
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
104 96 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (104 bp):
TCTCAAAATCAATGTTTACATATTTGAGAGGCTTGCCTAAGAAAATGAATTGAGAGTTAGACACT
TAATCAATTCTTGAGAGAATACTTTTGCAAAAGTGCTAG
Found at i:32066 original size:32 final size:30
Alignment explanation
Indices: 31988--32068 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 30
31978 TAAATTGGAG
* *
31988 TTTTGGATCCCTTAAAAGTTGGAGAAAATTT
1 TTTTGGA-CCCTTAAAAGTTGGAAAAAAATT
* *
32019 TTTTAGGCCCCTTAAAAGTTAGTAAAAAAATT
1 TTTT-GGACCCTTAAAAGTT-GGAAAAAAATT
32051 TTTTGGACCCTTTAAAAG
1 TTTTGGACCC-TTAAAAG
32069 CTGAATTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
31 21 0.50
32 21 0.50
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (30 bp):
TTTTGGACCCTTAAAAGTTGGAAAAAAATT
Found at i:36894 original size:14 final size:15
Alignment explanation
Indices: 36875--36904 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
36865 TTGGTAACTA
36875 AATA-TTTTAATTTT
1 AATATTTTTAATTTT
36889 AATATTTTTAATTTT
1 AATATTTTTAATTTT
36904 A
1 A
36905 TAATATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
AATATTTTTAATTTT
Found at i:44085 original size:24 final size:24
Alignment explanation
Indices: 44058--44106 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
44048 TCTCATATAC
44058 TAAAATAAAAAAAAATAAACAAAA
1 TAAAATAAAAAAAAATAAACAAAA
* * *
44082 TAAAATCAAAGAAAATAAATAAAA
1 TAAAATAAAAAAAAATAAACAAAA
44106 T
1 T
44107 CTGATTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.16
Consensus pattern (24 bp):
TAAAATAAAAAAAAATAAACAAAA
Found at i:53262 original size:42 final size:42
Alignment explanation
Indices: 53206--53312 Score: 101
Period size: 43 Copynumber: 2.5 Consensus size: 42
53196 TTTTTTTTCA
* * *
53206 TTTTAAAGAGTTTATTTTTTATGATTTAAAAAAT-ATATATAAT
1 TTTTAAA-ATTTTATTTTTTAT-ATTTAAAAAATGAAAAATAAT
* *
53249 TTTTAAAATTTTATGCTTTT-TATTTAAAATATGGAAAAATAAT
1 TTTTAAAATTTTAT-TTTTTATATTTAAAAAAT-GAAAAATAAT
*
53292 TTTTAAAATTTATGTTTTTTA
1 TTTTAAAATTT-TATTTTTTA
53313 AATGGTGAAG
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
41 10 0.19
42 7 0.13
43 33 0.63
44 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (42 bp):
TTTTAAAATTTTATTTTTTATATTTAAAAAATGAAAAATAAT
Found at i:62165 original size:21 final size:20
Alignment explanation
Indices: 62121--62166 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
62111 AAAATGCCAG
62121 ATTTTACATTTTTTTTTTTA
1 ATTTTACATTTTTTTTTTTA
*
62141 ATTTT-CATTTTGTTTCTTTTT
1 ATTTTACATTTT-TTT-TTTTA
62162 ATTTT
1 ATTTT
62167 TCTACTCTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 8 0.35
21 9 0.39
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (20 bp):
ATTTTACATTTTTTTTTTTA
Found at i:68567 original size:20 final size:20
Alignment explanation
Indices: 68544--68582 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
68534 TTTTTTAAAA
68544 TTCAAAATAT-TTATAAAATG
1 TTCAAAATATATTA-AAAATG
*
68564 TTCAATATATATTAAAAAT
1 TTCAAAATATATTAAAAAT
68583 TATAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (20 bp):
TTCAAAATATATTAAAAATG
Found at i:70432 original size:3 final size:3
Alignment explanation
Indices: 70424--70453 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
70414 TGGTTACCTC
70424 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
70454 ACAAAGAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:77225 original size:4 final size:4
Alignment explanation
Indices: 77218--77245 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
77208 TATATATATA
77218 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
77246 AAGGAAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:80405 original size:29 final size:30
Alignment explanation
Indices: 80378--80453 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 30
80368 TGTGTAATTG
80378 TATACA-TG-AACTTTAATT-TGGTGCAAT
1 TATACAGTGAAACTTTAATTGTGGTGCAAT
*
80405 TATACATGTGAAACTTTAATTGTGGTTCAA-
1 TATACA-GTGAAACTTTAATTGTGGTGCAAT
* *
80435 AATAC-TTGAAACTTTAATT
1 TATACAGTGAAACTTTAATT
80454 TTGATTTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 6 0.14
28 13 0.31
29 2 0.05
30 14 0.33
31 7 0.17
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.41
Consensus pattern (30 bp):
TATACAGTGAAACTTTAATTGTGGTGCAAT
Found at i:80450 original size:28 final size:30
Alignment explanation
Indices: 80386--80454 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
80376 TGTATACATG
*
80386 AACTTTAATTTGGTGCAATTATACATGTGA
1 AACTTTAATTTGGTGCAATAATACATGTGA
*
80416 AACTTTAATTGTGGTTCAA-AATAC-T-TGA
1 AACTTTAATT-TGGTGCAATAATACATGTGA
80444 AACTTTAATTT
1 AACTTTAATTT
80455 TGATTTAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
27 1 0.03
28 13 0.36
29 1 0.03
30 14 0.39
31 7 0.19
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (30 bp):
AACTTTAATTTGGTGCAATAATACATGTGA
Found at i:80635 original size:29 final size:29
Alignment explanation
Indices: 80603--80658 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
80593 CATCTAATCT
80603 AAAT-AAAATTTCATGTATAAAATTGCATA
1 AAATCAAAATTT-ATGTATAAAATTGCATA
* **
80632 AAATCAAAGTTTATGTATGCAATTGCA
1 AAATCAAAATTTATGTATAAAATTGCA
80659 CATTAAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (29 bp):
AAATCAAAATTTATGTATAAAATTGCATA
Found at i:82033 original size:91 final size:92
Alignment explanation
Indices: 81920--82087 Score: 216
Period size: 91 Copynumber: 1.8 Consensus size: 92
81910 AATTAAGCTC
* *
81920 TTTTTTTTTAACATCCATTTGAGTACTTAAACTTTTAAACTGCATTAAAAAAG-CCCTCAAACCT
1 TTTTTTTTTAACATCCAATTGAGTACTTAAACTTTTAAAATGCA-TAAAAAAGACCCTCAAACCT
81984 TTTCAAAAAAAGCAATTAAGTCCTTATT
65 TTTCAAAAAAAGCAATTAAGTCCTTATT
* * ** * **
82012 TTTTTTTTTATAC-T-CAATTGAGTATTTGAACTTTTAAAATGCATAAAATGGACTCTCAAATTT
1 TTTTTTTTTA-ACATCCAATTGAGTACTTAAACTTTTAAAATGCATAAAAAAGACCCTCAAACCT
82075 TTTCAAAAAAAGC
65 TTTCAAAAAAAGC
82088 TTTTATTTAA
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
90 6 0.09
91 46 0.71
92 11 0.17
93 2 0.03
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (92 bp):
TTTTTTTTTAACATCCAATTGAGTACTTAAACTTTTAAAATGCATAAAAAAGACCCTCAAACCTT
TTCAAAAAAAGCAATTAAGTCCTTATT
Found at i:82132 original size:9 final size:9
Alignment explanation
Indices: 82120--82248 Score: 57
Period size: 10 Copynumber: 13.7 Consensus size: 9
82110 ATTAAAATCA
82120 ATAAAAATT
1 ATAAAAATT
*
82129 ATAAATATT
1 ATAAAAATT
**
82138 ATTAAATTTT
1 A-TAAAAATT
82148 AATAAAAAATT
1 -AT-AAAAATT
82159 ATTAAAAATT
1 A-TAAAAATT
*
82169 AGAAAAAATAT
1 A-TAAAAAT-T
*
82180 AAAAAAATT
1 ATAAAAATT
* *
82189 GTAAAATTTT
1 ATAAAA-ATT
*
82199 ATAAAAATC
1 ATAAAAATT
*
82208 GTAAAAA-T
1 ATAAAAATT
82216 AT-AAAATAT
1 ATAAAAAT-T
*
82225 ATAGAAA-T
1 ATAAAAATT
*
82233 AGAAAAAATT
1 A-TAAAAATT
82243 ATAAAA
1 ATAAAA
82249 CTTTATAAAG
Statistics
Matches: 90, Mismatches: 19, Indels: 22
0.69 0.15 0.17
Matches are distributed among these distances:
7 4 0.04
8 3 0.03
9 32 0.36
10 42 0.47
11 9 0.10
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:82194 original size:19 final size:19
Alignment explanation
Indices: 82162--82221 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
82152 AAAAATTATT
*
82162 AAAAATTAGAAAAAATATAA
1 AAAAATT-GTAAAAATATAA
* * *
82182 AAAAATTGTAAAATTTTAT
1 AAAAATTGTAAAAATATAA
*
82201 AAAAATCGTAAAAATATAA
1 AAAAATTGTAAAAATATAA
82220 AA
1 AA
82222 TATATAGAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 25 0.78
20 7 0.22
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (19 bp):
AAAAATTGTAAAAATATAA
Found at i:82621 original size:11 final size:11
Alignment explanation
Indices: 82601--82634 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
82591 TTTAATAAAA
82601 TTTA-AATTTT
1 TTTATAATTTT
82611 TTTATAATTTTT
1 TTTATAA-TTTT
82623 TTTATAATTTT
1 TTTATAATTTT
82634 T
1 T
82635 AATAAGAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.18
11 7 0.32
12 11 0.50
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATAATTTT
Found at i:82624 original size:12 final size:12
Alignment explanation
Indices: 82607--82634 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
82597 AAAATTTAAA
82607 TTTTTTTATAAT
1 TTTTTTTATAAT
82619 TTTTTTTATAAT
1 TTTTTTTATAAT
82631 TTTT
1 TTTT
82635 AATAAGAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTTTATAAT
Found at i:83184 original size:22 final size:22
Alignment explanation
Indices: 83158--83219 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
83148 CTAAAATGAT
* *
83158 AAAATTTTAATTTAATTCTTTA
1 AAAATTATAATTTAATTCTATA
* * * *
83180 AAAATTACATTTTACTACTATA
1 AAAATTATAATTTAATTCTATA
83202 AAAATTATAATTTAATTC
1 AAAATTATAATTTAATTC
83220 CGATCATCTT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (22 bp):
AAAATTATAATTTAATTCTATA
Found at i:83782 original size:28 final size:29
Alignment explanation
Indices: 83746--83806 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
83736 AAAATTTATA
83746 TTGTTGTTTTG-G-TATTTTTTTTACTGTT
1 TTGTTGTTTTGAGTTA-TTTTTTTACTGTT
*
83774 TTGTTGTTTTGATGTTATTTTTTTGCTGTT
1 TTGTTGTTTTGA-GTTATTTTTTTACTGTT
83804 TTG
1 TTG
83807 ATATATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 11 0.38
30 16 0.55
31 2 0.07
ACGTcount: A:0.07, C:0.03, G:0.20, T:0.70
Consensus pattern (29 bp):
TTGTTGTTTTGAGTTATTTTTTTACTGTT
Found at i:83803 original size:22 final size:22
Alignment explanation
Indices: 83772--83838 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 22
83762 TTTTTTACTG
*
83772 TTTTGTTGTTTTGATGTTATTT
1 TTTTGATGTTTTGATGTTATTT
* *
83794 TTTTGCTGTTTTGAT-ATATTT
1 TTTTGATGTTTTGATGTTATTT
** *
83815 TTTAAATGTTTTGATGTTGTTT
1 TTTTGATGTTTTGATGTTATTT
83837 TT
1 TT
83839 GCTGTTAGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
21 17 0.46
22 20 0.54
ACGTcount: A:0.13, C:0.01, G:0.16, T:0.69
Consensus pattern (22 bp):
TTTTGATGTTTTGATGTTATTT
Found at i:83813 original size:21 final size:21
Alignment explanation
Indices: 83772--83844 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
83762 TTTTTTACTG
* *
83772 TTTTGTTGTTTTGATGTTATTT
1 TTTTGCTGTTTTGAT-ATATTT
83794 TTTTGCTGTTTTGATATATTT
1 TTTTGCTGTTTTGATATATTT
*** * *
83815 TTTAAATGTTTTGATGT-TGT
1 TTTTGCTGTTTTGATATATTT
83835 TTTTGCTGTT
1 TTTTGCTGTT
83845 AGTTTTGCTG
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 9 0.22
21 18 0.44
22 14 0.34
ACGTcount: A:0.12, C:0.03, G:0.18, T:0.67
Consensus pattern (21 bp):
TTTTGCTGTTTTGATATATTT
Found at i:83844 original size:12 final size:12
Alignment explanation
Indices: 83823--83920 Score: 82
Period size: 12 Copynumber: 8.6 Consensus size: 12
83813 TTTTTAAATG
*
83823 TTTTGATGTTGT
1 TTTTGCTGTTGT
83835 TTTTGCTGTTAG-
1 TTTTGCTGTT-GT
* *
83847 TTTTGCTGCT-A
1 TTTTGCTGTTGT
83858 TTTT--TGTTGT
1 TTTTGCTGTTGT
*
83868 TTTTGTTGTTG-
1 TTTTGCTGTTGT
*
83879 TTTTGCTGTTAT
1 TTTTGCTGTTGT
*
83891 TTTTGCTGCTG-
1 TTTTGCTGTTGT
*
83902 TTTTGCTGTTAT
1 TTTTGCTGTTGT
83914 TTTTGCT
1 TTTTGCT
83921 ATTTGGATGT
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
9 3 0.04
10 4 0.06
11 22 0.32
12 39 0.57
13 1 0.01
ACGTcount: A:0.05, C:0.08, G:0.21, T:0.65
Consensus pattern (12 bp):
TTTTGCTGTTGT
Found at i:83892 original size:32 final size:33
Alignment explanation
Indices: 83829--83920 Score: 123
Period size: 32 Copynumber: 2.8 Consensus size: 33
83819 AATGTTTTGA
83829 TGTTGTTTTTGCTGTTAGTTTTGCTGCTATTTT
1 TGTTGTTTTTGCTGTTAGTTTTGCTGCTATTTT
* *
83862 TGTTGTTTTTGTTGTT-GTTTTGCTGTTATTTT
1 TGTTGTTTTTGCTGTTAGTTTTGCTGCTATTTT
* *
83894 TGCTGCTGTTTTGCTGTTATTTTTGCT
1 TGTTG-T-TTTTGCTGTTAGTTTTGCT
83921 ATTTGGATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
32 19 0.37
33 16 0.31
34 9 0.18
35 7 0.14
ACGTcount: A:0.04, C:0.09, G:0.22, T:0.65
Consensus pattern (33 bp):
TGTTGTTTTTGCTGTTAGTTTTGCTGCTATTTT
Found at i:83893 original size:23 final size:23
Alignment explanation
Indices: 83835--83920 Score: 113
Period size: 23 Copynumber: 3.8 Consensus size: 23
83825 TTGATGTTGT
* *
83835 TTTTGCTGTTAGTTTTGCTGCTA
1 TTTTGCTGTTATTTTTGCTGCTG
* * *
83858 TTTT--TGTTGTTTTTGTTGTTG
1 TTTTGCTGTTATTTTTGCTGCTG
83879 TTTTGCTGTTATTTTTGCTGCTG
1 TTTTGCTGTTATTTTTGCTGCTG
83902 TTTTGCTGTTATTTTTGCT
1 TTTTGCTGTTATTTTTGCT
83921 ATTTGGATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
21 16 0.30
23 37 0.70
ACGTcount: A:0.05, C:0.09, G:0.21, T:0.65
Consensus pattern (23 bp):
TTTTGCTGTTATTTTTGCTGCTG
Found at i:83956 original size:22 final size:23
Alignment explanation
Indices: 83938--83980 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
83928 TGTTATTTTT
*
83938 ATGT-GTTTTTACTATTATTTCA
1 ATGTCGTTTTTAATATTATTTCA
*
83960 ATGTCTTTTTTAATATTATTT
1 ATGTCGTTTTTAATATTATTT
83981 GAATATTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (23 bp):
ATGTCGTTTTTAATATTATTTCA
Found at i:85362 original size:16 final size:17
Alignment explanation
Indices: 85338--85380 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
85328 TTACAATTTA
85338 TTAAATAAAA-ATTATC
1 TTAAATAAAATATTATC
*
85354 TTAATTAAAATATTAT-
1 TTAAATAAAATATTATC
*
85370 TTCAATAAAAT
1 TTAAATAAAAT
85381 GCTTAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAATAAAATATTATC
Found at i:90100 original size:105 final size:105
Alignment explanation
Indices: 89918--90113 Score: 243
Period size: 105 Copynumber: 1.9 Consensus size: 105
89908 AAAGATACCC
** * *
89918 TTAAAATAAAGACATTTTGGTAATTTAATAATTGAGTTGAAACCCGATTATGGGTGACACCAACT
1 TTAAAATAAAGACATTTTAATAATTTAATAATTGAGTTGAAACCCGATTATGAGTGACACAAACT
*** *
89983 CAATTTTAATCTTTATATATAGTATAGATTTATGGCTATG
66 CAATAAAAATCTTTATATATAATATAGATTTATGGCTATG
* * *
90023 TTAAAATAAATG-CATTTTAATAATTTAAT-ATCTGAGTTGAGATCCGGTTATGAGTGACACAAA
1 TTAAAATAAA-GACATTTTAATAATTTAATAAT-TGAGTTGAAACCCGATTATGAGTGACACAAA
* *
90086 TTCAATAAAAATCTTTGTATATAATATA
64 CTCAATAAAAATCTTTATATATAATATA
90114 AATATACAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
104 2 0.03
105 73 0.96
106 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.38
Consensus pattern (105 bp):
TTAAAATAAAGACATTTTAATAATTTAATAATTGAGTTGAAACCCGATTATGAGTGACACAAACT
CAATAAAAATCTTTATATATAATATAGATTTATGGCTATG
Found at i:91890 original size:18 final size:17
Alignment explanation
Indices: 91866--91910 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
91856 TATTGTTTTT
* *
91866 TAAAAATATTTTTGAGA
1 TAAAAATATTTTTAAAA
*
91883 TAAAAAATACTTTTAAAA
1 T-AAAAATATTTTTAAAA
91901 TAAAAATATT
1 TAAAAATATT
91911 GCTAAACAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (17 bp):
TAAAAATATTTTTAAAA
Found at i:98135 original size:25 final size:24
Alignment explanation
Indices: 98080--98135 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
98070 TTAAAATTTA
*
98080 AAATTTTAATATTTATTAAAAAAT
1 AAATTTTAATATTCATTAAAAAAT
*
98104 AATTTTTAA-ATTCATTAACTAAAAT
1 AAATTTTAATATTCATTAA--AAAAT
98129 AAATTTT
1 AAATTTT
98136 TTTAACATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 8 0.30
24 8 0.30
25 11 0.41
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
AAATTTTAATATTCATTAAAAAAT
Found at i:98838 original size:215 final size:215
Alignment explanation
Indices: 98304--99792 Score: 1511
Period size: 216 Copynumber: 6.9 Consensus size: 215
98294 TTTTACTTTT
* * ** * * * *
98304 TTTCTCTCTTGGTTTTTGGCCGAACTTTTAAACATGTCAAACTTTTTCGAGTTCTTTTAAAACTT
1 TTTCTCTCTTGGTTCTCGGCCGAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACTT
* * * * * * *
98369 CCGTTTCTTAAAGTATTCAATACGATCCATT-CTTTCGTGCAATTTTTCAAACATTCCATGCT-T
66 CTGTTCCTTAAAGTATTCAAGACGATCCATTCCTCT-GAGCAATTTTTCGAACATTCCATGCTCG
* *
98432 GAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTAAATTA
130 GA-AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAC-TTTGGTCTTTGAATTA
*
98497 -AAATTTTATTTATGTGAGAATTG
193 TAAA-CTTATTTATGTGAGAATTG
98520 TTTCTCTCTTGGTTCTCGGCTGAACTTCTGAACTTCCAAACTTGACAAACTTTTACGAGTTCTTT
1 TTTCTCTCTTGGTTCTC-G--G--C--C-GAACTTCCAAACTTGACAAACTTTTACGAGTTCTTT
* * *
98585 TATAACTTCTGTTCCTTAAAGGATTCAAGACAATCCATTCCTCTGAGCAATTTTCCGAACATTCC
58 TATAACTTCTGTTCCTTAAAGTATTCAAGACGATCCATTCCTCTGAGCAATTTTTCGAACATTCC
* * *
98650 ATGCTCGGAAAATTGCATCATTTGGTCTAAATAATTTGTCATTTTGTAAAAAACTTTGATCTTTG
123 ATGCTCGGAAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAACTTTGGTCTTTG
98715 AATTATAAACTTATTTATGTGAGAATTG
188 AATTATAAACTTATTTATGTGAGAATTG
98743 TTTCTCTCTTGGTTCTCGGCCGAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACTT
1 TTTCTCTCTTGGTTCTCGGCCGAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACTT
* * *
98808 CTGTTCCTTAAAGGATTCAAGACGATCCATTCCTCCGAGCAATTTTCCGAACATTCCATGCTC-G
66 CTGTTCCTTAAAGTATTCAAGACGATCCATTCCTCTGAGCAATTTTTCGAACATTCCATGCTCGG
* * * *
98872 AGAAATTGCATCATTTGGTCTAAATAATTTGTCATTTTGTAAAAAACTTAT--T-TATG--TGA-
131 A-AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAACTT-TGGTCTTTGAATTAT
* * * * *
98931 GAA-TTGTTTCTCT----CTTG
194 AAACTTATTTATGTGAGAATTG
* * * ** * * ** *
98948 GTTCTCGAC--CGAACT--TCCGAACTT---GA--T-A-AACTTT-TATGAGTTCTTTTATAACT
1 TTTCTC-TCTTGGTTCTCGGCCGAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACT
* *
99001 TCGGTTCCTTAAAGTATTCAAGACGATCCATTCCT-TCGAGCAATTTTTCGAATATTCCATGCTC
65 TCTGTTCCTTAAAGTATTCAAGACGATCCATTCCTCT-GAGCAATTTTTCGAACATTCCATGCTC
* ** * * *
99065 GGGAAATTACATCATTTGGTCTAAATAGTTTGTTATTTTGTAAAAAAAAAACTTTTGATATTTGA
129 GGAAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT----AAAAAAC-TTTGGTCTTTGA
* * *
99130 ATTAAAAACTTATTTAGGTGATAATTG
189 ATTATAAACTTATTTATGTGAGAATTG
* *
99157 TTTCTCTCTTGGTTTTCGGCCGAACTTCCGAACTTGACAAACTTTTACGAGTTCTTTTATAACTT
1 TTTCTCTCTTGGTTCTCGGCCGAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACTT
* * *
99222 -TGGTTCCTTAAAATATTCAAGACGA-CCAATTCCGTC-GAGCAATTTTTCGAACATGCCATGTT
66 CT-GTTCCTTAAAGTATTCAAGACGATCC-ATTCC-TCTGAGCAATTTTTCGAACATTCCATGCT
* * *
99284 CGGAAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAACATTCGGTCTTTGAATT
128 CGGAAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAAC-TTTGGTCTTTGAATT
**
99349 ATAAACTTATTTACATGAGAATTG
192 ATAAACTTATTTATGTGAGAATTG
** * * *
99373 TTTCTCTCTTGGTTCTTTGCGGAACTCCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT
1 TTTCTCTCTTGGTTCTCGGCCGAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACTT
* * *
99438 CTGTTCCTTAAAGTATTCAATACGATCCATTCCT-TCGTGCAATTTTTCAAACATTCCATGCTCG
66 CTGTTCCTTAAAGTATTCAAGACGATCCATTCCTCT-GAGCAATTTTTCGAACATTCCATGCTCG
* *
99502 GGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAACTTTGGTCTTTGAATTAT
130 GAAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAA-AAACTTTGGTCTTTGAATTAT
* ** *
99567 AAACTTATTGACATGAGGATTG
194 AAACTTATTTATGTGAGAATTG
* ** * * * * *
99589 TTTCTCTCTTGGTTTTTTGCCGAAC-TCTCGAACTTGTCAAACGTCTACGAATTCTTTTATAACT
1 TTTCTCTCTTGGTTCTCGGCCGAACTTC-CAAACTTGACAAACTTTTACGAGTTCTTTTATAACT
* * * * * * * *
99653 TCCGTTCCTTAAAGTATTCAATATGATCTATTCCTTCGTGA--AAATTTTCAAACATTTCATGTT
65 TCTGTTCCTTAAAGTATTCAAGACGATCCATTCC-TC-TGAGCAATTTTTCGAACATTCCATGCT
* * * * *
99716 CAGG-AAATCGCATCATTTGGTCTAAATAATTTATCATTTTGTAAACAACTTTCGGTCTTTAAAG
128 C-GGAAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAACTTT-GGTCTTTGAAT
*
99780 TAAAAACTTATTT
191 TATAAACTTATTT
99793 TGCAAATTGA
Statistics
Matches: 1082, Mismatches: 132, Indels: 118
0.81 0.10 0.09
Matches are distributed among these distances:
194 111 0.10
195 5 0.00
196 1 0.00
197 1 0.00
198 8 0.01
199 3 0.00
200 1 0.00
201 3 0.00
202 8 0.01
203 2 0.00
204 5 0.00
205 14 0.01
206 1 0.00
208 1 0.00
209 15 0.01
210 4 0.00
211 2 0.00
212 8 0.01
213 3 0.00
214 3 0.00
215 161 0.15
216 403 0.37
217 11 0.01
218 3 0.00
219 8 0.01
220 107 0.10
221 2 0.00
222 1 0.00
223 50 0.05
224 132 0.12
225 5 0.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (215 bp):
TTTCTCTCTTGGTTCTCGGCCGAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACTT
CTGTTCCTTAAAGTATTCAAGACGATCCATTCCTCTGAGCAATTTTTCGAACATTCCATGCTCGG
AAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAAAAACTTTGGTCTTTGAATTATAA
ACTTATTTATGTGAGAATTG
Found at i:99495 original size:630 final size:631
Alignment explanation
Indices: 98342--99792 Score: 1787
Period size: 630 Copynumber: 2.3 Consensus size: 631
98332 TAAACATGTC
* * * *
98342 AAACTTTTTCGAGTTCTTTTAAAACTTCCGTTTCTTAAAGTATTCAATACGATCCATTCTTTCGT
1 AAACTTTTTCGAGTTCTTTTAAAACTTCCGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGA
* *
98407 GCAATTTTTCAAACATTCCATGCTTGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
66 GCAATTTTTCAAACATTCCATGCTCGAGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTG
* * * ** *
98472 TAAACAACTTTTGGTCTTTAAATTAAAATTTTATTTATGTGAGAATTGTTTCTCTCTTGGTTCTC
131 TAAAAAACTTTTGATATTTAAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTC
98537 GGCTGAACTTCTGAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACTTCTGTTCCTT
196 GGC-G-AC-TCTGAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACTTCTGTTCCTT
* * *
98602 AAAGGATTCAAGACAATCCATTCCTCTGAGCAATTTTCCGAACATTCCATGCTCGGAAAATTGCA
258 AAAAGATTCAAGACAATCCATTCCTCTGAGCAATTTTCCGAACATGCCATGCTCGGAAAATCGCA
* *
98667 TCATTTGGTCTAAATAATTTGTCATTTTGTAAAAAACTTTGATCTTTGAATTATAAACTTATTTA
323 TCATTTGATCTAAATAATTTGTCATTTTGTAAAAAACTTCGATCTTTGAATTATAAACTTATTTA
** *
98732 TGTGAGAATTGTTTCTCTCTTGGTTCTCGGCCGAACTTCCAAACTTGACAAACTTTTACGAGTTC
388 CATGAGAATTGTTTCTCTCTTGGTTCTCGGCCGAACTCCCAAACTTGACAAACTTTTACGAGTTC
*
98797 TTTTATAACTTCTGTTCCTTAAAGGATTCAAGACGATCCATTCCTCCGAGCAATTTTCCGAACAT
453 TTTTATAACTTCTGTTCCTTAAAGGATTCAAGACGATCCATTCCTCCGAGCAATTTTCCAAACAT
**
98862 TCCATGCTCGAGAAATTGCATCATTTGGTCTAAATAATTTGTCATTTTGTAAA-AAACTTATTTA
518 TCCATGCTCGAGAAATCACATCATTTGGTCTAAATAATTTGTCATTTTGTAAACAAACTTATTTA
98926 TGTGAGAATTGTTTCTCTCTTGGTTCTCGACCGAACTTCCGAACTTGAT
583 TGTGAGAATTGTTTCTCTCTTGGTTCTCGACCGAACTTCCGAACTTGAT
* *
98975 AAACTTTTAT-GAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCG
1 AAACTTTT-TCGAGTTCTTTTAAAACTTCCGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCG
* * * * *
99039 AGCAATTTTTCGAATATTCCATGCTCGGGAAATTACATCATTTGGTCTAAATAGTTTGTTATTTT
65 AGCAATTTTTCAAACATTCCATGCTCGAGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTT
* *
99104 GTAAAAAAAAAACTTTTGATATTTGAATTAAAAACTTATTTAGGTGATAATTGTTTCTCTCTTGG
130 GT----AAAAAACTTTTGATATTTAAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGG
* *
99169 TTTTC-G-G-C-C-GAACTTCCGAACTTGACAAACTTTTACGAGTTCTTTTATAACTT-TGGTTC
191 TTCTCGGCGACTCTGAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACTTCT-GTTC
* * * *
99228 CTTAAAATATTCAAGACGA-CCAATTCCGTC-GAGCAATTTTTCGAACATGCCATGTTCGGAAAA
255 CTTAAAAGATTCAAGACAATCC-ATTCC-TCTGAGCAATTTTCCGAACATGCCATGCTCGGAAAA
* * *
99291 TCGCATCATTTGATCTAAATAGTTTGTCATTTTGTAAACAACATTCGGTCTTTGAATTATAAACT
318 TCGCATCATTTGATCTAAATAATTTGTCATTTTGTAAAAAAC-TTCGATCTTTGAATTATAAACT
** * *
99356 TATTTACATGAGAATTGTTTCTCTCTTGGTTCTTTGCGGAACTCCCAAACTTGTCAAACTTTTAC
382 TATTTACATGAGAATTGTTTCTCTCTTGGTTCTCGGCCGAACTCCCAAACTTGACAAACTTTTAC
* * * * *
99421 GAGTTCTTTTATAACTTCTGTTCCTTAAAGTATTCAATACGATCCATTCCTTCGTGCAATTTTTC
447 GAGTTCTTTTATAACTTCTGTTCCTTAAAGGATTCAAGACGATCCATTCCTCCGAGCAATTTTCC
* *
99486 AAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAACT
512 AAACATTCCATGCTCGAGAAATCACATCATTTGGTCTAAATAATTTGTCATTTTGTAAACAAA--
* * *
99551 TTGGTCTTTGAATTATAAACTTATTGACATGAGGATTGTTTCTCTCTTGGTTTTTTG-CCGAAC-
575 -----C------TTAT----TTA-TG---TGAGAATTGTTTCTCTCTTGG-TTCTCGACCGAACT
99614 TCTCGAACTTG-T
620 TC-CGAACTTGAT
* * * * * * * *
99626 CAAACGTCTACGAATTCTTTTATAACTTCCGTTCCTTAAAGTATTCAATATGATCTATTCCTTCG
1 -AAACTTTTTCGAGTTCTTTTAAAACTTCCGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCG
* * * * * * * *
99691 TGAAAATTTTCAAACATTTCATGTTC-AGGAAATCGCATCATTTGGTCTAAATAATTTATCATTT
65 AGCAATTTTTCAAACATTCCATGCTCGA-GAAATCACATCATTTGGTCTAAATAGTTTGTCATTT
* * * * *
99755 TGTAAACAACTTTCGGTCTTTAAAGTAAAAACTTATTT
129 TGTAAAAAACTTTTGATATTTAAATTAAAAACTTATTT
99793 TGCAAATTGA
Statistics
Matches: 700, Mismatches: 82, Indels: 57
0.83 0.10 0.07
Matches are distributed among these distances:
628 3 0.00
629 136 0.19
630 195 0.28
631 3 0.00
632 1 0.00
633 116 0.17
634 2 0.00
636 1 0.00
637 55 0.08
638 1 0.00
644 4 0.01
648 32 0.05
649 2 0.00
651 3 0.00
652 142 0.20
653 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (631 bp):
AAACTTTTTCGAGTTCTTTTAAAACTTCCGTTCCTTAAAGTATTCAAGACGATCCATTCCTTCGA
GCAATTTTTCAAACATTCCATGCTCGAGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTG
TAAAAAACTTTTGATATTTAAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCTC
GGCGACTCTGAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACTTCTGTTCCTTAAA
AGATTCAAGACAATCCATTCCTCTGAGCAATTTTCCGAACATGCCATGCTCGGAAAATCGCATCA
TTTGATCTAAATAATTTGTCATTTTGTAAAAAACTTCGATCTTTGAATTATAAACTTATTTACAT
GAGAATTGTTTCTCTCTTGGTTCTCGGCCGAACTCCCAAACTTGACAAACTTTTACGAGTTCTTT
TATAACTTCTGTTCCTTAAAGGATTCAAGACGATCCATTCCTCCGAGCAATTTTCCAAACATTCC
ATGCTCGAGAAATCACATCATTTGGTCTAAATAATTTGTCATTTTGTAAACAAACTTATTTATGT
GAGAATTGTTTCTCTCTTGGTTCTCGACCGAACTTCCGAACTTGAT
Found at i:103713 original size:3 final size:3
Alignment explanation
Indices: 103705--103730 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
103695 AGACACGGTC
103705 GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
103731 GCCATCGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:105688 original size:15 final size:15
Alignment explanation
Indices: 105669--105703 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
105659 TCAACCCTAA
*
105669 ATTTTT-CAATACTT
1 ATTTTTCCAACACTT
105683 ATTTTTCCAACACTT
1 ATTTTTCCAACACTT
105698 ATTTTT
1 ATTTTT
105704 AAGCAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.26, C:0.17, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTTCCAACACTT
Found at i:109881 original size:3 final size:3
Alignment explanation
Indices: 109873--109917 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
109863 TCTTCAGATT
* *
109873 ATG ATG ATG ATG ATG GTG ATG GTG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
109918 GCGCTGAGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.29, C:0.00, G:0.38, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:114436 original size:12 final size:11
Alignment explanation
Indices: 114415--114441 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
114405 ATTATTTATC
114415 TTTTTCTTTTT
1 TTTTTCTTTTT
114426 TTTTTCTTTTT
1 TTTTTCTTTTT
114437 TTTTT
1 TTTTT
114442 GATGCTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:114683 original size:17 final size:19
Alignment explanation
Indices: 114661--114696 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
114651 GTTTGTAGGA
114661 AGATGTTG-A-TTTGATGC
1 AGATGTTGAATTTTGATGC
114678 AGATGTTGAATTTTGATGC
1 AGATGTTGAATTTTGATGC
114697 CTATCGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 1 0.06
19 8 0.47
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.42
Consensus pattern (19 bp):
AGATGTTGAATTTTGATGC
Found at i:122395 original size:105 final size:105
Alignment explanation
Indices: 122213--122401 Score: 360
Period size: 105 Copynumber: 1.8 Consensus size: 105
122203 TTATCAAGGC
*
122213 CACCATCTAATTTTATAAAGAGGTCGCCAATACCACACCCAACAGCACCTAGAACAAAGACCCCT
1 CACCATCTAATTTTATAAAGAGGTCGCCAATACCACACCCAACAGCACCCAGAACAAAGACCCCT
122278 GAGAGGAACAATGAAGTGGTGTCCACCGTTGGGAAGGGCT
66 GAGAGGAACAATGAAGTGGTGTCCACCGTTGGGAAGGGCT
*
122318 CACCATCTAATTTTATAAAGAGGTCGTCAATACCACACCCAACAGCACCCAGAACAAAGACCCCT
1 CACCATCTAATTTTATAAAGAGGTCGCCAATACCACACCCAACAGCACCCAGAACAAAGACCCCT
122383 GAGAGGAACAATGAAGTGG
66 GAGAGGAACAATGAAGTGG
122402 GGAAGGGCTC
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 82 1.00
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.16
Consensus pattern (105 bp):
CACCATCTAATTTTATAAAGAGGTCGCCAATACCACACCCAACAGCACCCAGAACAAAGACCCCT
GAGAGGAACAATGAAGTGGTGTCCACCGTTGGGAAGGGCT
Found at i:125611 original size:5 final size:5
Alignment explanation
Indices: 125601--125647 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
125591 GTTTTCCAAT
*
125601 TGTGA TGTGA TGTGA TGTGA TGTGA TGTGA CGTGA TGTGA TGTGA TG
1 TGTGA TGTGA TGTGA TGTGA TGTGA TGTGA TGTGA TGTGA TGTGA TG
125648 AGAGGTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.19, C:0.02, G:0.40, T:0.38
Consensus pattern (5 bp):
TGTGA
Found at i:125975 original size:23 final size:23
Alignment explanation
Indices: 125949--126052 Score: 120
Period size: 23 Copynumber: 4.4 Consensus size: 23
125939 AGTGTTGGGT
125949 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
* * *
125972 AACAAAAAGCACACAAAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
* *
125995 ATCAAAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACACAGTGCT-A
*
126019 TAACAGAGAGCACGAGAC-GTGCTA
1 -AACAGAGAGCAC-ACACAGTGCTA
126043 AACAGAGAGC
1 AACAGAGAGC
126053 GCGCTAGTGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
23 49 0.71
24 2 0.03
25 15 0.22
26 3 0.04
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.10
Consensus pattern (23 bp):
AACAGAGAGCACACACAGTGCTA
Found at i:128865 original size:33 final size:33
Alignment explanation
Indices: 128818--128884 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
128808 ATGTTGTTAA
128818 TATGAGAAATCTTTTTTTAAAACAACAAATGTC
1 TATGAGAAATCTTTTTTTAAAACAACAAATGTC
*
128851 TATGGGAAATCTTTTTTTAAAACAACAAATGTC
1 TATGAGAAATCTTTTTTTAAAACAACAAATGTC
128884 T
1 T
128885 TATTAATCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (33 bp):
TATGAGAAATCTTTTTTTAAAACAACAAATGTC
Found at i:129680 original size:99 final size:99
Alignment explanation
Indices: 129509--129789 Score: 490
Period size: 99 Copynumber: 2.8 Consensus size: 99
129499 AGTCGAATCA
* * *
129509 GATTTTGCTCACCCCTACTCTCAAATGATATTGTACCCCACGATATAATTCAAGAAACCTTTTGT
1 GATTTTGCTTACCCCTACTCTCAAATGATATCGTACCCCACGATATAATGCAAGAAACCTTTTGT
129574 ATTTGCATAACTCTCAAATGATATCATACGCTAC
66 ATTTGCATAACTCTCAAATGATATCATACGCTAC
*
129608 GATTTTGCTTACCCCTACTCTCAAATGATATCGTACCCCACGATACAATGCAAGAAACCTTTTGT
1 GATTTTGCTTACCCCTACTCTCAAATGATATCGTACCCCACGATATAATGCAAGAAACCTTTTGT
*
129673 ATTTGCATAACTCTCAAATGATATCATACGTTAC
66 ATTTGCATAACTCTCAAATGATATCATACGCTAC
* * *
129707 GATTTTGCTTACCCCTACTCTCAAACGATATCGTACCCAATGATATAATGCAAGAAACCTTTTGT
1 GATTTTGCTTACCCCTACTCTCAAATGATATCGTACCCCACGATATAATGCAAGAAACCTTTTGT
129772 ATTTGCATAACTCTCAAA
66 ATTTGCATAACTCTCAAA
129790 AAATATTATA
Statistics
Matches: 173, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 173 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.33
Consensus pattern (99 bp):
GATTTTGCTTACCCCTACTCTCAAATGATATCGTACCCCACGATATAATGCAAGAAACCTTTTGT
ATTTGCATAACTCTCAAATGATATCATACGCTAC
Found at i:129788 original size:58 final size:58
Alignment explanation
Indices: 129723--129841 Score: 150
Period size: 58 Copynumber: 2.1 Consensus size: 58
129713 GCTTACCCCT
** * * *
129723 ACTCTCAAACGATATCGTACCCAATGATATAATGCAAG-AAACCTTTTGTATTTGCATA
1 ACTCTCAAAAAATATCATACCC-ACGATATAATACAAGAAAACCTTTTGTATTTGCATA
* * *
129781 ACTCTCAAAAAATATTATACCCACGATATAGTACAAGAAAACTTTTTGTATTTGCATA
1 ACTCTCAAAAAATATCATACCCACGATATAATACAAGAAAACCTTTTGTATTTGCATA
129839 ACT
1 ACT
129842 AGCACCTACC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 12 0.23
58 40 0.77
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (58 bp):
ACTCTCAAAAAATATCATACCCACGATATAATACAAGAAAACCTTTTGTATTTGCATA
Found at i:135184 original size:17 final size:15
Alignment explanation
Indices: 135164--135221 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 15
135154 ACTCATTTTA
135164 AAATTTATTTTAAGGTT
1 AAATTTATTTTAA--TT
135181 AAATTTATTTTGAATAT
1 AAATTTATTTT-AAT-T
135198 AAATTTATTTTAAATTT
1 AAATTTATTTT-AA-TT
135215 AAATTTA
1 AAATTTA
135222 ATATAAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
16 1 0.03
17 33 0.89
18 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.53
Consensus pattern (15 bp):
AAATTTATTTTAATT
Found at i:135215 original size:28 final size:28
Alignment explanation
Indices: 135179--135251 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
135169 TATTTTAAGG
*
135179 TTAAATTT-ATTTTGAATATAAATTTATT
1 TTAAATTTAAATTT-AATATAAATTTATT
*
135207 TTAAATTTAAATTTAATATAAATTTAGAT
1 TTAAATTTAAATTTAATATAAATTTA-TT
* *
135236 TTATATCTAAATTTAA
1 TTAAATTTAAATTTAA
135252 AACTTATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 20 0.51
29 19 0.49
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (28 bp):
TTAAATTTAAATTTAATATAAATTTATT
Found at i:135217 original size:6 final size:6
Alignment explanation
Indices: 135179--135252 Score: 55
Period size: 6 Copynumber: 12.8 Consensus size: 6
135169 TATTTTAAGG
* * * *
135179 TTAAAT TT-ATT TTGAAT ATAAAT TT-ATT TTAAAT TTAAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* * * *
135224 ATAAAT TTAGAT TTATAT CTAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
135253 ACTTATTATA
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
5 12 0.24
6 39 0.76
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (6 bp):
TTAAAT
Found at i:135228 original size:17 final size:17
Alignment explanation
Indices: 135197--135252 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
135187 ATTTTGAATA
* *
135197 TAAATTTATTTTAAATT
1 TAAATTTAATATAAATT
135214 TAAATTTAATATAAATT
1 TAAATTTAATATAAATT
* *
135231 TAGATTTATATCTAAATT
1 TAAATTTA-ATATAAATT
135249 TAAA
1 TAAA
135253 ACTTATTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
17 22 0.67
18 11 0.33
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (17 bp):
TAAATTTAATATAAATT
Found at i:135238 original size:34 final size:34
Alignment explanation
Indices: 135164--135267 Score: 100
Period size: 34 Copynumber: 3.0 Consensus size: 34
135154 ACTCATTTTA
** * * *
135164 AAATTTATTTTAAGGTTAAATTTATTTTGAATAT
1 AAATTTATTTTAAATTTAAATTTAATATAAATAT
*
135198 AAATTTATTTTAAATTTAAATTTAATATAAATTT
1 AAATTTATTTTAAATTTAAATTTAATATAAATAT
* * * *
135232 AGATTTATATCTAAATTTAAAACTTATTATAAATAT
1 AAATTTAT-TTTAAATTT-AAATTTAATATAAATAT
135268 TGAAAATCCA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
34 35 0.61
35 8 0.14
36 14 0.25
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (34 bp):
AAATTTATTTTAAATTTAAATTTAATATAAATAT
Found at i:137205 original size:29 final size:30
Alignment explanation
Indices: 137172--137315 Score: 122
Period size: 30 Copynumber: 4.9 Consensus size: 30
137162 ACCATGATTT
137172 TTTCCAAAAATTACCATTTTACCCTTGAAC
1 TTTCCAAAAATTACCATTTTACCCTTGAAC
* * *
137202 -TTCCAAAAACT-CTATTTTTGA-CCTCGAAC
1 TTTCCAAAAATTACCA-TTTT-ACCCTTGAAC
*
137231 TTTCCAAAAATTACCATTTTACCCTCGAA-
1 TTTCCAAAAATTACCATTTTACCCTTGAAC
* * *
137260 -TGCCTAAAATT-CCATTTTTAACCC-TAAAC
1 TTTCCAAAAATTACCA-TTTT-ACCCTTGAAC
**
137289 TTTCCCGAAATTACCATTTTACCCTTG
1 TTTCCAAAAATTACCATTTTACCCTTG
137316 GGTATCCAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
27 3 0.03
28 17 0.19
29 30 0.33
30 35 0.39
31 5 0.06
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (30 bp):
TTTCCAAAAATTACCATTTTACCCTTGAAC
Found at i:137305 original size:58 final size:59
Alignment explanation
Indices: 137172--137313 Score: 180
Period size: 58 Copynumber: 2.4 Consensus size: 59
137162 ACCATGATTT
* * * * *
137172 TTTCCAAAAATTACCATTTTACCCTTGAACTTCCAAAAACTCTATTTTTGACCTCGAAC
1 TTTCCAAAAATTACCATTTTACCCTCGAACTGCCAAAAACTCCATTTTTAACCTCAAAC
* *
137231 TTTCCAAAAATTACCATTTTACCCTCGAA-TGCCTAAAATTCCATTTTTAACC-CTAAAC
1 TTTCCAAAAATTACCATTTTACCCTCGAACTGCCAAAAACTCCATTTTTAACCTC-AAAC
**
137289 TTTCCCGAAATTACCATTTTACCCT
1 TTTCCAAAAATTACCATTTTACCCT
137314 TGGGTATCCA
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
57 1 0.01
58 44 0.60
59 28 0.38
ACGTcount: A:0.32, C:0.28, G:0.04, T:0.36
Consensus pattern (59 bp):
TTTCCAAAAATTACCATTTTACCCTCGAACTGCCAAAAACTCCATTTTTAACCTCAAAC
Found at i:139797 original size:6 final size:6
Alignment explanation
Indices: 139782--139813 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
139772 TGAGAAATTT
139782 AAAA-A AAAAGA AAAAGA AAAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAA
139814 GGGTTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:139823 original size:77 final size:75
Alignment explanation
Indices: 139709--139850 Score: 248
Period size: 77 Copynumber: 1.9 Consensus size: 75
139699 AGGAGAAATT
*
139709 AAAAAAAAAAAAGAAAAGAAAAAGAAAAGGGTTCAATTCCTCGTCGATATGGGCAAACAATGGTG
1 AAAAAAAAAAAAGAAAAGAAAAAGAAAAGGGTTCAATTCCTCGTCAATATGGGCAAACAATGGTG
139774 AGAAATTTAA
66 AGAAATTTAA
*
139784 AAAAAAAGAAAAAGAAAAAGAAAAAGAAAAGGGTTCAATTCCTCGTCAATATGTGCAAACAATGG
1 AAAAAAA-AAAAAG-AAAAGAAAAAGAAAAGGGTTCAATTCCTCGTCAATATGGGCAAACAATGG
139849 TG
64 TG
139851 CCCTGCCCTT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
75 7 0.11
76 6 0.10
77 50 0.79
ACGTcount: A:0.54, C:0.10, G:0.20, T:0.17
Consensus pattern (75 bp):
AAAAAAAAAAAAGAAAAGAAAAAGAAAAGGGTTCAATTCCTCGTCAATATGGGCAAACAATGGTG
AGAAATTTAA
Found at i:142603 original size:6 final size:6
Alignment explanation
Indices: 142594--142657 Score: 112
Period size: 6 Copynumber: 10.8 Consensus size: 6
142584 ACTAGCACTG
142594 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
*
142642 CATAT- TATATA CATAT
1 CATATA CATATA CATAT
142658 TTGAATTGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
5 4 0.07
6 51 0.93
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (6 bp):
CATATA
Found at i:152852 original size:6 final size:6
Alignment explanation
Indices: 152841--152866 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
152831 GAACCAAGCA
152841 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
152867 TCCAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:154644 original size:18 final size:16
Alignment explanation
Indices: 154609--154651 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
154599 AAATTAGATC
*
154609 AATTAATTAACTTATT
1 AATTAATTAACCTATT
154625 AATTAAATTAAACCTATT
1 AATT-AATT-AACCTATT
154643 AATTTAATT
1 AA-TTAATT
154652 TTAATCGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 4 0.17
18 13 0.57
19 2 0.09
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTAATTAACCTATT
Found at i:157430 original size:59 final size:57
Alignment explanation
Indices: 157285--157459 Score: 180
Period size: 55 Copynumber: 3.1 Consensus size: 57
157275 ACGAGATTTT
* * * *
157285 GAAAAAAAAATTCGGTGTTGGCCATTGTATGGCTGACACCCCCTTTTTAATCTGATA
1 GAAAAAAAAATTTGGTGTTGTCCATTGCATGGCTGACACCACCTTTTTAATCTGATA
* * *
157342 G--AAAAAAATTTGGTGTTAGT-CATTGCATGGTTGACACCACCTTTTTGTATTTGATA
1 GAAAAAAAAATTTGGTGTT-GTCCATTGCATGGCTGACACCACCTTTTT-AATCTGATA
* * * * *
157398 GAAAAAAAAATTTTGGTGTTGTCCGTTACATGGCCGACACCATCTTTCT-ATCTGATA
1 GAAAAAAAAA-TTTGGTGTTGTCCATTGCATGGCTGACACCACCTTTTTAATCTGATA
157455 -AAAAA
1 GAAAAA
157460 TCAAATTTTT
Statistics
Matches: 98, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
55 38 0.39
56 14 0.14
57 8 0.08
58 9 0.09
59 29 0.30
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (57 bp):
GAAAAAAAAATTTGGTGTTGTCCATTGCATGGCTGACACCACCTTTTTAATCTGATA
Found at i:157531 original size:61 final size:61
Alignment explanation
Indices: 157432--157658 Score: 282
Period size: 61 Copynumber: 3.7 Consensus size: 61
157422 GTTACATGGC
* *
157432 CGACACCATCTTTCTATCTGAT-AAAAAA-TCAAATTTTTTTTGTGTTGGCCATGCATTGGT
1 CGACACCACCTTTTTATCTGATAAAAAAATTCAAA-TTTTTTTGTGTTGGCCATGCATTGGT
* * * ** *
157492 CGACACCACCTTTTTATTTGA-CAAAAAATTCAAAATTTTTTTGGTGTTAGTTATGCATTGGC
1 CGACACCACCTTTTTATCTGATAAAAAAATTC-AAATTTTTTT-GTGTTGGCCATGCATTGGT
* *
157554 CGATACCACCTTTTTATCAGATAAAAAAATTCAAATTTTTTTGTGTTGGCCATTGCA-TGGT
1 CGACACCACCTTTTTATCTGATAAAAAAATTCAAATTTTTTTGTGTTGGCCA-TGCATTGGT
* *
157615 CGACACCCCCTTTTTATCTGATAAAAAAATTCAATTTTTTTTGT
1 CGACACCACCTTTTTATCTGATAAAAAAATTCAAATTTTTTTGT
157659 TTGATAAAAA
Statistics
Matches: 142, Mismatches: 19, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
60 24 0.17
61 59 0.42
62 50 0.35
63 9 0.06
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.41
Consensus pattern (61 bp):
CGACACCACCTTTTTATCTGATAAAAAAATTCAAATTTTTTTGTGTTGGCCATGCATTGGT
Found at i:157549 original size:62 final size:62
Alignment explanation
Indices: 157432--157657 Score: 282
Period size: 62 Copynumber: 3.7 Consensus size: 62
157422 GTTACATGGC
* * *
157432 CGACACCATCTTTCTATCTGAT-AAAAAA-TCAAATTTTTTTTGTGTTGGCCATGCATTGGT
1 CGACACCACCTTTTTATCTGATAAAAAAATTCAAATTTTTTTGGTGTTGGCCATGCATTGGT
* * * ** *
157492 CGACACCACCTTTTTATTTGA-CAAAAAATTCAAAATTTTTTTGGTGTTAGTTATGCATTGGC
1 CGACACCACCTTTTTATCTGATAAAAAAATTC-AAATTTTTTTGGTGTTGGCCATGCATTGGT
* *
157554 CGATACCACCTTTTTATCAGATAAAAAAATTCAAATTTTTTT-GTGTTGGCCATTGCA-TGGT
1 CGACACCACCTTTTTATCTGATAAAAAAATTCAAATTTTTTTGGTGTTGGCCA-TGCATTGGT
* *
157615 CGACACCCCCTTTTTATCTGATAAAAAAATTCAATTTTTTTTG
1 CGACACCACCTTTTTATCTGATAAAAAAATTCAAATTTTTTTG
157658 TTTGATAAAA
Statistics
Matches: 140, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
60 24 0.17
61 50 0.36
62 57 0.41
63 9 0.06
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (62 bp):
CGACACCACCTTTTTATCTGATAAAAAAATTCAAATTTTTTTGGTGTTGGCCATGCATTGGT
Found at i:157617 original size:123 final size:119
Alignment explanation
Indices: 157362--157657 Score: 325
Period size: 123 Copynumber: 2.5 Consensus size: 119
157352 TGGTGTTAGT
* * ** * *
157362 CATTGCATGGTTGACACCACCTTTTTGTATTTGATAGAAAAA---AAAATTTTGGTGTTGTCCGT
1 CATTGCATGGTCGACACCACC-TTTT-TATTTGA-AAAAAAATTCAAAATTTTTTTGGTGTCAGT
* *
157424 TACATGGCCGACACCATCTTTCTATCTGATAAAAAATCAAATTTTTTTTGTGTTGGC
63 TACATGGCCGACACCACCTTTCTATCAGATAAAAAATCAAATTTTTTTTGTGTTGGC
* *
157481 CA-TGCATTGGTCGACACCACCTTTTTATTTGACAAAAAATTCAAAATTTTTTTGGTGTTAGTTA
1 CATTGCA-TGGTCGACACCACCTTTTTATTTGAAAAAAAATTCAAAATTTTTTTGGTGTCAGTTA
* *
157545 TGCATTGGCCGATACCACCTTTTTATCAGATAAAAAAATTCAAA-TTTTTTTGTGTTGGC
65 --CA-TGGCCGACACCACCTTTCTATCAGAT-AAAAAA-TCAAATTTTTTTTGTGTTGGC
* * *
157604 CATTGCATGGTCGACACCCCCTTTTTATCTGATAAAAAAATTC-AATTTTTTTTG
1 CATTGCATGGTCGACACCACCTTTTTATTTGA-AAAAAAATTCAAAATTTTTTTG
157658 TTTGATAAAA
Statistics
Matches: 150, Mismatches: 16, Indels: 18
0.82 0.09 0.10
Matches are distributed among these distances:
116 5 0.03
117 7 0.05
118 8 0.05
119 32 0.21
121 2 0.01
122 22 0.15
123 56 0.37
124 18 0.12
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (119 bp):
CATTGCATGGTCGACACCACCTTTTTATTTGAAAAAAAATTCAAAATTTTTTTGGTGTCAGTTAC
ATGGCCGACACCACCTTTCTATCAGATAAAAAATCAAATTTTTTTTGTGTTGGC
Found at i:157677 original size:87 final size:88
Alignment explanation
Indices: 157573--157732 Score: 252
Period size: 87 Copynumber: 1.8 Consensus size: 88
157563 CTTTTTATCA
* * * *
157573 GATAAAAAAATTCAAATTTTTTTGTGTTGGC-CATTGCATGGTCGACACCCCCTTTTTATCTGAT
1 GATAAAAAAATTAAAATTTTTTGGTGTT-GCTCATTGCATGATCGACACCACCTTTTTATCTGAT
157637 AAAAAAATTCAATTTTTTTTGTTT
65 AAAAAAATTCAATTTTTTTTGTTT
*
157661 GATAAAAAAA-TAAAATTTTTTGGTGTTGCTCATTGCATGATCGACACCACCTTTTTATTTGATA
1 GATAAAAAAATTAAAATTTTTTGGTGTTGCTCATTGCATGATCGACACCACCTTTTTATCTGATA
157725 AAAAAATT
66 AAAAAATT
157733 TTAAATTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
86 2 0.03
87 54 0.82
88 10 0.15
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (88 bp):
GATAAAAAAATTAAAATTTTTTGGTGTTGCTCATTGCATGATCGACACCACCTTTTTATCTGATA
AAAAAATTCAATTTTTTTTGTTT
Done.