Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 21 of 332
Found at i:6037802 original size:6 final size:6
Alignment explanation
Indices: 6037793--6037831 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
6037783 TCCAACCACC
*
6037793 ACCAAA ACCAAA ACTAAA ACCAAA ACCAAA ACCAAA ACC
1 ACCAAA ACCAAA ACCAAA ACCAAA ACCAAA ACCAAA ACC
6037832 TTCAGTCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.64, C:0.33, G:0.00, T:0.03
Consensus pattern (6 bp):
ACCAAA
Found at i:6042091 original size:17 final size:17
Alignment explanation
Indices: 6042069--6042103 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
6042059 AATTTCACAC
6042069 ATTTCATATTTAAATAG
1 ATTTCATATTTAAATAG
6042086 ATTTCATATTTAAATAG
1 ATTTCATATTTAAATAG
6042103 A
1 A
6042104 CTCAATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (17 bp):
ATTTCATATTTAAATAG
Found at i:6043973 original size:37 final size:37
Alignment explanation
Indices: 6043932--6044007 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
6043922 CATTTAAGCT
6043932 TAGTAAGTTTGTATAACACGGAATTTAACTTACCATA
1 TAGTAAGTTTGTATAACACGGAATTTAACTTACCATA
6043969 TAGTAAGTTTGTATAACACGGAATTTAACTTACCATA
1 TAGTAAGTTTGTATAACACGGAATTTAACTTACCATA
6044006 TA
1 TA
6044008 TCCATAAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (37 bp):
TAGTAAGTTTGTATAACACGGAATTTAACTTACCATA
Found at i:6044358 original size:25 final size:25
Alignment explanation
Indices: 6044329--6044414 Score: 129
Period size: 25 Copynumber: 3.4 Consensus size: 25
6044319 ACGAGCTATA
6044329 AACGGTAAGCTTTTCTGAGCTGAAT
1 AACGGTAAGCTTTTCTGAGCTGAAT
6044354 AACGGTAAGCTTTTCTGAGCTGAAT
1 AACGGTAAGCTTTTCTGAGCTGAAT
** *
6044379 AACGGTAAGCTCCTCTGA-CTTGAGT
1 AACGGTAAGCTTTTCTGAGC-TGAAT
6044404 AACGGTAAGCT
1 AACGGTAAGCT
6044415 CATACAACCT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
24 1 0.02
25 56 0.98
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (25 bp):
AACGGTAAGCTTTTCTGAGCTGAAT
Found at i:6044596 original size:22 final size:23
Alignment explanation
Indices: 6044570--6044613 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
6044560 CAATTCACAA
*
6044570 ATAAATATTCAATTTAA-AACAT
1 ATAAATATACAATTTAATAACAT
*
6044592 ATAAATGTACAATTTAATAACA
1 ATAAATATACAATTTAATAACA
6044614 CGAATTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAAATATACAATTTAATAACAT
Found at i:6053966 original size:8 final size:8
Alignment explanation
Indices: 6053949--6053986 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
6053939 AAGAGTGTGC
*
6053949 TTTTATTA
1 TTTTAATA
6053957 TTTTAATA
1 TTTTAATA
6053965 TTTTAATA
1 TTTTAATA
6053973 TTTT-ATAA
1 TTTTAAT-A
6053981 TTTTAA
1 TTTTAA
6053987 AAGATCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
7 2 0.07
8 24 0.89
9 1 0.04
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TTTTAATA
Found at i:6055159 original size:28 final size:28
Alignment explanation
Indices: 6055127--6055181 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
6055117 AACCTTAAAT
6055127 CCAAA-CCATAAACTTGTAACCCCAAACC
1 CCAAATCCAT-AACTTGTAACCCCAAACC
* *
6055155 CCAAATTCATAACTTGTAACCCTAAAC
1 CCAAATCCATAACTTGTAACCCCAAAC
6055182 TATCAAATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 21 0.88
29 3 0.12
ACGTcount: A:0.42, C:0.35, G:0.04, T:0.20
Consensus pattern (28 bp):
CCAAATCCATAACTTGTAACCCCAAACC
Found at i:6059679 original size:19 final size:20
Alignment explanation
Indices: 6059644--6059681 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
6059634 ATAAATTAAG
*
6059644 AAAAAAAGATAGATTTAAAA
1 AAAAAAAGAGAGATTTAAAA
6059664 AAAAAAAGAGAG-TTTAAA
1 AAAAAAAGAGAGATTTAAA
6059682 TTAGTCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (20 bp):
AAAAAAAGAGAGATTTAAAA
Found at i:6061843 original size:25 final size:25
Alignment explanation
Indices: 6061814--6061865 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
6061804 TTATATTTAT
*
6061814 TTTAAGTTAGTGTTTAGTTGATTTG
1 TTTAAGTTAGTATTTAGTTGATTTG
6061839 TTTAAGTTAGTATTTAGTTGATTTG
1 TTTAAGTTAGTATTTAGTTGATTTG
6061864 TT
1 TT
6061866 GTATTAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (25 bp):
TTTAAGTTAGTATTTAGTTGATTTG
Found at i:6062141 original size:15 final size:16
Alignment explanation
Indices: 6062121--6062160 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
6062111 AAAAAAATTA
6062121 AAAATATATA-TTTTT
1 AAAATATATACTTTTT
*
6062136 AAAATATACACTTTTT
1 AAAATATATACTTTTT
6062152 -AAATATATA
1 AAAATATATA
6062161 AAGATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAATATATACTTTTT
Found at i:6063879 original size:17 final size:18
Alignment explanation
Indices: 6063846--6063880 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
6063836 ATTTGGTTAA
*
6063846 AATCGATTTAATGAATTC
1 AATCGATTTAATCAATTC
6063864 AATCGA-TTAATCAATTC
1 AATCGATTTAATCAATTC
6063881 GATTAACACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (18 bp):
AATCGATTTAATCAATTC
Found at i:6064577 original size:23 final size:23
Alignment explanation
Indices: 6064545--6064589 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
6064535 ATTTTTTCAT
* *
6064545 ATTATTTTATAAATATTTAAAAA
1 ATTATGTTATAAATATTCAAAAA
*
6064568 ATTATGTTATTAATATTCAAAA
1 ATTATGTTATAAATATTCAAAA
6064590 TTTAATGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTATGTTATAAATATTCAAAAA
Found at i:6065566 original size:15 final size:15
Alignment explanation
Indices: 6065546--6065587 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
6065536 TAAGATAAAT
6065546 TTTAGATTTGAATTG
1 TTTAGATTTGAATTG
*
6065561 TTTAGAGTTTAAATTG
1 TTTAGA-TTTGAATTG
*
6065577 TTTAAATTTGA
1 TTTAGATTTGA
6065588 GACTTGAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (15 bp):
TTTAGATTTGAATTG
Found at i:6069094 original size:9 final size:9
Alignment explanation
Indices: 6069077--6069127 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
6069067 AATGTGTATG
*
6069077 TATTATATA
1 TATTTTATA
6069086 TATTTTATA
1 TATTTTATA
*
6069095 CATTTTATA
1 TATTTTATA
*
6069104 TATATTATA
1 TATTTTATA
6069113 TA-TTTATTA
1 TATTTTA-TA
6069122 TATTTT
1 TATTTT
6069128 TACGTATATA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
8 3 0.09
9 29 0.83
10 3 0.09
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (9 bp):
TATTTTATA
Found at i:6069120 original size:11 final size:11
Alignment explanation
Indices: 6069077--6069172 Score: 60
Period size: 11 Copynumber: 8.7 Consensus size: 11
6069067 AATGTGTATG
6069077 TATTATATATAT
1 TATTATATAT-T
*
6069089 T-TTATACA-T
1 TATTATATATT
6069098 T-TTATATA--
1 TATTATATATT
6069106 TATTATATATT
1 TATTATATATT
*
6069117 TATTATATTTT
1 TATTATATATT
*
6069128 TACGTATATATT
1 TA-TTATATATT
6069140 T-TTAATATCATAT
1 TATT-ATAT-AT-T
6069153 TATTCATATATT
1 TATT-ATATATT
*
6069165 TTTTATAT
1 TATTATAT
6069173 TATGTAAATA
Statistics
Matches: 68, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
8 1 0.01
9 15 0.22
10 1 0.01
11 26 0.38
12 15 0.22
13 4 0.06
14 6 0.09
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (11 bp):
TATTATATATT
Found at i:6069152 original size:14 final size:14
Alignment explanation
Indices: 6069120--6069169 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
6069110 ATATATTTAT
*
6069120 TATATTTTTACGTA
1 TATATTTTTACATA
6069134 TATATTTTTA-ATA
1 TATATTTTTACATA
*
6069147 TCATATTATT-CATA
1 T-ATATTTTTACATA
6069161 TAT-TTTTTA
1 TATATTTTTA
6069170 TATTATGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
12 4 0.13
13 5 0.17
14 21 0.70
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (14 bp):
TATATTTTTACATA
Found at i:6069490 original size:26 final size:26
Alignment explanation
Indices: 6069460--6069511 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
6069450 ATTATGTATA
*
6069460 TATTTTTAATACTACGTATACATTTT
1 TATTTCTAATACTACGTATACATTTT
* * *
6069486 TATTTCTATTATTACGTATATATTTT
1 TATTTCTAATACTACGTATACATTTT
6069512 AATACATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.04, T:0.58
Consensus pattern (26 bp):
TATTTCTAATACTACGTATACATTTT
Found at i:6080629 original size:45 final size:45
Alignment explanation
Indices: 6080545--6080630 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
6080535 GAAGAAGCAA
* *
6080545 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAT
1 ATTTGGCGTATCTGTATTAGACGGGGAGCAGATCAAAGATAACAT
* *
6080590 ATTTGGCGTATCTGTATTAGACGGGGAGTAGATTAAAGATA
1 ATTTGGCGTATCTGTATTAGACGGGGAGCAGATCAAAGATA
6080631 GTAGATATCG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.30, C:0.12, G:0.29, T:0.29
Consensus pattern (45 bp):
ATTTGGCGTATCTGTATTAGACGGGGAGCAGATCAAAGATAACAT
Found at i:6082361 original size:9 final size:9
Alignment explanation
Indices: 6082344--6082396 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
6082334 AATGTGTATG
*
6082344 TATTATATA
1 TATTTTATA
6082353 TATTTTATA
1 TATTTTATA
*
6082362 CATTTTATA
1 TATTTTATA
*
6082371 TATATTATA
1 TATTTTATA
6082380 TATATTTATTA
1 TAT-TTTA-TA
6082391 TATTTT
1 TATTTT
6082397 TATGTATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
9 26 0.70
10 6 0.16
11 5 0.14
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TATTTTATA
Found at i:6082371 original size:20 final size:19
Alignment explanation
Indices: 6082346--6082396 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
6082336 TGTGTATGTA
6082346 TTATATATATTTTATACATT
1 TTATATATATTTTATACA-T
* *
6082366 TTATATATATTATATATAT
1 TTATATATATTTTATACAT
6082385 TTAT-TATATTTT
1 TTATATATATTTT
6082397 TATGTATATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 7 0.25
19 5 0.18
20 16 0.57
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
TTATATATATTTTATACAT
Found at i:6082372 original size:11 final size:11
Alignment explanation
Indices: 6082346--6082441 Score: 60
Period size: 9 Copynumber: 8.5 Consensus size: 11
6082336 TGTGTATGTA
6082346 TTATATATA-T
1 TTATATATATT
*
6082356 TT-TATACATT
1 TTATATATATT
6082366 TTATATATA--
1 TTATATATATT
6082375 TTATATATA-T
1 TTATATATATT
6082385 TTAT-TATATTT
1 TTATATATA-TT
6082396 TTATGTATATATTT
1 TTA--TATATA-TT
6082410 TTAATATCATATT
1 TT-ATAT-ATATT
*
6082423 ATTCATATATTTT
1 -TT-ATATATATT
6082436 TTATAT
1 TTATAT
6082442 TATGTAAATA
Statistics
Matches: 71, Mismatches: 4, Indels: 21
0.74 0.04 0.22
Matches are distributed among these distances:
9 18 0.25
10 9 0.13
11 13 0.18
12 2 0.03
13 10 0.14
14 18 0.25
15 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (11 bp):
TTATATATATT
Found at i:6082421 original size:14 final size:14
Alignment explanation
Indices: 6082364--6082441 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
6082354 ATTTTATACA
6082364 TTTTATATATATTAT
1 TTTTATATATA-TAT
* * *
6082379 ATATATTTATTATAT
1 TTTTATATA-TATAT
*
6082394 TTTTATGTATATAT
1 TTTTATATATATAT
6082408 TTTTA-ATATCATAT
1 TTTTATATAT-ATAT
* *
6082422 TATT-CATATAT-T
1 TTTTATATATATAT
6082434 TTTTATAT
1 TTTTATAT
6082442 TATGTAAATA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
12 4 0.08
13 7 0.14
14 21 0.43
15 15 0.31
16 2 0.04
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (14 bp):
TTTTATATATATAT
Found at i:6082424 original size:25 final size:25
Alignment explanation
Indices: 6082396--6082481 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 25
6082386 TATTATATTT
6082396 TTATGTATATATTTTTAATATCATA
1 TTATGTATATATTTTTAATATCATA
6082421 TTAT-TCATATA-TTTT--T-T-ATA
1 TTATGT-ATATATTTTTAATATCATA
* * *
6082441 TTATGTAAATATTTTCAATA-CTACA
1 TTATGTATATATTTTTAATATC-ATA
6082466 TTATGTATATATTTTT
1 TTATGTATATATTTTT
6082482 GTCTATATTG
Statistics
Matches: 48, Mismatches: 5, Indels: 16
0.70 0.07 0.23
Matches are distributed among these distances:
20 11 0.23
21 5 0.10
22 1 0.02
23 1 0.02
24 5 0.10
25 25 0.52
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (25 bp):
TTATGTATATATTTTTAATATCATA
Found at i:6082469 original size:45 final size:45
Alignment explanation
Indices: 6082378--6082481 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 45
6082368 ATATATATTA
* * * *
6082378 TATATATTTATTATATTTTTATGTATATATTTTTAATATCATATTAT-
1 TATATATTT-TT-TA-TATTATGTAAATATTTTCAATATCACATTATG
6082425 TCATATATTTTTTATATTATGTAAATATTTTCAATA-CTACATTATG
1 T-ATATATTTTTTATATTATGTAAATATTTTCAATATC-ACATTATG
6082471 TATATATTTTT
1 TATATATTTTT
6082482 GTCTATATTG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
44 1 0.02
45 35 0.70
46 3 0.06
47 3 0.06
48 8 0.16
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.59
Consensus pattern (45 bp):
TATATATTTTTTATATTATGTAAATATTTTCAATATCACATTATG
Found at i:6088692 original size:21 final size:21
Alignment explanation
Indices: 6088667--6088730 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
6088657 TAGCCTTCGG
6088667 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
6088688 GCTTCAG-TTAGC-CTT-CGG
1 GCTTCCGTTTAGCACTTATGT
6088706 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
6088727 GCTT
1 GCTT
6088731 TAGCTTGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.21
19 8 0.24
20 8 0.24
21 11 0.32
ACGTcount: A:0.12, C:0.25, G:0.22, T:0.41
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:6088696 original size:39 final size:39
Alignment explanation
Indices: 6088650--6088730 Score: 162
Period size: 39 Copynumber: 2.1 Consensus size: 39
6088640 CTCTGATGAA
6088650 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
1 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
6088689 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
1 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
6088728 CTT
1 CTT
6088731 TAGCTTGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (39 bp):
CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
Found at i:6088744 original size:39 final size:39
Alignment explanation
Indices: 6088650--6088749 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
6088640 CTCTGATGAA
*
6088650 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
1 CTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATGTG
*
6088689 CTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG
1 CTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATGTG
* *
6088728 CTTTAGCTT-GATTTCGGGCTTC
1 CTTCAG-TTAGACTTCGGGCTTC
6088750 AGATCACGAT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
39 55 0.96
40 2 0.04
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (39 bp):
CTTCAGTTAGACTTCGGGCTTCCGTTTAGCACTTATGTG
Found at i:6089803 original size:17 final size:18
Alignment explanation
Indices: 6089777--6089812 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6089767 TGCTGAAGAG
6089777 TTTGTCTT-GGGCATGGA
1 TTTGTCTTGGGGCATGGA
*
6089794 TTTGTTTTGGGGCATGGA
1 TTTGTCTTGGGGCATGGA
6089812 T
1 T
6089813 AGGACAAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.11, C:0.08, G:0.36, T:0.44
Consensus pattern (18 bp):
TTTGTCTTGGGGCATGGA
Found at i:6090340 original size:13 final size:13
Alignment explanation
Indices: 6090322--6090434 Score: 90
Period size: 13 Copynumber: 9.6 Consensus size: 13
6090312 AAATATCTTT
6090322 ACTCCACTAAACC
1 ACTCCACTAAACC
6090335 ACT-C-C--AACC
1 ACTCCACTAAACC
*
6090344 ACTCTACTAAACC
1 ACTCCACTAAACC
* *
6090357 ACTACACTAAGCC
1 ACTCCACTAAACC
*
6090370 ACTCCATTAAACC
1 ACTCCACTAAACC
6090383 AC-CC-C--AACC
1 ACTCCACTAAACC
6090392 AC-CCTACTAAACC
1 ACTCC-ACTAAACC
6090405 ACTCCACTAAACC
1 ACTCCACTAAACC
6090418 AC-CC-C--AACC
1 ACTCCACTAAACC
6090427 ACTCCACT
1 ACTCCACT
6090435 TGCCTACAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 25
0.71 0.07 0.22
Matches are distributed among these distances:
9 21 0.26
10 2 0.03
11 5 0.06
12 5 0.06
13 45 0.56
14 2 0.03
ACGTcount: A:0.36, C:0.48, G:0.01, T:0.15
Consensus pattern (13 bp):
ACTCCACTAAACC
Found at i:6090391 original size:48 final size:48
Alignment explanation
Indices: 6090322--6090419 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
6090312 AAATATCTTT
* * *
6090322 ACTCCACTAAACCACTCCAACCACTCTACTAAACCACTACACTAAGCC
1 ACTCCACTAAACCACCCCAACCACCCTACTAAACCACTACACTAAACC
* *
6090370 ACTCCATTAAACCACCCCAACCACCCTACTAAACCACTCCACTAAACC
1 ACTCCACTAAACCACCCCAACCACCCTACTAAACCACTACACTAAACC
6090418 AC
1 AC
6090420 CCCAACCACT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.38, C:0.46, G:0.01, T:0.15
Consensus pattern (48 bp):
ACTCCACTAAACCACCCCAACCACCCTACTAAACCACTACACTAAACC
Found at i:6090392 original size:35 final size:35
Alignment explanation
Indices: 6090353--6090434 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 35
6090343 CACTCTACTA
* * *
6090353 AACCACTACACTAAGCCACTCCATTAAACCACCCC
1 AACCACTCCACTAAACCACTCCACTAAACCACCCC
6090388 AACCAC-CCTACTAAACCACTCCACTAAACCACCCC
1 AACCACTCC-ACTAAACCACTCCACTAAACCACCCC
6090423 AACCACTCCACT
1 AACCACTCCACT
6090435 TGCCTACAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 1 0.02
35 39 0.93
36 2 0.05
ACGTcount: A:0.37, C:0.49, G:0.01, T:0.13
Consensus pattern (35 bp):
AACCACTCCACTAAACCACTCCACTAAACCACCCC
Found at i:6090837 original size:3 final size:3
Alignment explanation
Indices: 6090826--6090900 Score: 50
Period size: 3 Copynumber: 24.3 Consensus size: 3
6090816 TTTTATTTTT
* *
6090826 TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TT- TCTCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T-T-A
6090871 TGTA TATA TTA TTA TT- TATA TTA TTA TTA T
1 T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA T
6090901 ATTGTATATG
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
2 5 0.09
3 44 0.76
4 7 0.12
5 2 0.03
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:6090865 original size:18 final size:18
Alignment explanation
Indices: 6090830--6090909 Score: 67
Period size: 18 Copynumber: 4.4 Consensus size: 18
6090820 ATTTTTTTAT
* *
6090830 TTTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTA
6090849 TTTATATTATTATTATT-
1 TTTATATTATTATTATTA
* *
6090866 TCTCAT-GTATATATTATTA
1 T-TTATATTAT-TATTATTA
6090885 TTTATATTATTATTA-TA
1 TTTATATTATTATTATTA
6090902 TTGTATAT
1 TT-TATAT
6090910 GCCCTCTCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.16
18 34 0.68
19 8 0.16
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTATATTATTATTATTA
Found at i:6090892 original size:12 final size:12
Alignment explanation
Indices: 6090825--6090903 Score: 74
Period size: 12 Copynumber: 6.7 Consensus size: 12
6090815 GTTTTATTTT
*
6090825 TTTATTTTATTA
1 TTTATATTATTA
* *
6090837 TTTTTACTATTA
1 TTTATATTATTA
6090849 TTTATATTATTA
1 TTTATATTATTA
* *
6090861 -TTAT-TTCTCA
1 TTTATATTATTA
6090871 TGTATATATTATTA
1 T-T-TATATTATTA
6090885 TTTATATTATTA
1 TTTATATTATTA
6090897 -TTATATT
1 TTTATATT
6090904 GTATATGCCC
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
10 4 0.07
11 11 0.20
12 30 0.56
13 4 0.07
14 5 0.09
ACGTcount: A:0.29, C:0.04, G:0.01, T:0.66
Consensus pattern (12 bp):
TTTATATTATTA
Found at i:6094623 original size:32 final size:32
Alignment explanation
Indices: 6094587--6094746 Score: 266
Period size: 32 Copynumber: 5.0 Consensus size: 32
6094577 TATAACTATG
6094587 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
6094619 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
6094651 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
6094683 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
6094715 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
6094747 ATTTTTTATG
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 117 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:6094688 original size:64 final size:64
Alignment explanation
Indices: 6094587--6094746 Score: 293
Period size: 64 Copynumber: 2.5 Consensus size: 64
6094577 TATAACTATG
*
6094587 CTACTTTTTTATATGTAAAACTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
* *
6094651 CTACTTTTTTATATGTGAACCTAATGTATGATCTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
6094715 CTACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAACCTAATGTATGAT
6094747 ATTTTTTATG
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 92 1.00
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (64 bp):
CTACTTTTTTATATGTAAACCTAATGTATGATCTACTTTTTCATATGCAAAACTAATGTATGAT
Found at i:6098672 original size:60 final size:59
Alignment explanation
Indices: 6098592--6098731 Score: 178
Period size: 60 Copynumber: 2.3 Consensus size: 59
6098582 TTTAGTGTTA
6098592 ACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCT-TAC-AGTAACAGAG-TAT
1 ACTGGGCC-TAGCCCATATCAATATTAATCTGGGCCATAG-CCCTATACAAGT--C-GAGCTAT
* *
6098653 ACTGGGCCTAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATACAAGTCGAGCTAT
1 ACTGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATACAAGTCGAGCTAT
* *
6098712 ATTGGGCCTTGCCCATATCA
1 ACTGGGCCTAGCCCATATCA
6098732 GCACAGTTGG
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
58 3 0.04
59 26 0.36
60 32 0.44
61 11 0.15
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATACAAGTCGAGCTAT
Found at i:6101149 original size:15 final size:15
Alignment explanation
Indices: 6101112--6101140 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6101102 TTTTTCTATC
6101112 TAATAATAATAATTA
1 TAATAATAATAATTA
6101127 TAATAATAATAATT
1 TAATAATAATAATT
6101141 TTATAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:6102154 original size:27 final size:28
Alignment explanation
Indices: 6102100--6102154 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
6102090 AATAAAAATT
*
6102100 ATATCAATTATTTATATATATTAAATAA
1 ATATCAATTATTTATATATAATAAATAA
*
6102128 ATAT-AATTATTTATATATAATATATAA
1 ATATCAATTATTTATATATAATAAATAA
6102155 TCATAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATCAATTATTTATATATAATAAATAA
Found at i:6105521 original size:21 final size:19
Alignment explanation
Indices: 6105495--6105538 Score: 70
Period size: 21 Copynumber: 2.2 Consensus size: 19
6105485 TTATATGTTG
6105495 TAAAAATAATATTTTTATTCA
1 TAAAAATAAT-TTTTTA-TCA
6105516 TAAAAATAATTTTTTATCA
1 TAAAAATAATTTTTTATCA
6105535 TAAA
1 TAAA
6105539 TTTTTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 7 0.30
20 6 0.26
21 10 0.43
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAAATAATTTTTTATCA
Found at i:6105529 original size:19 final size:21
Alignment explanation
Indices: 6105495--6105538 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
6105485 TTATATGTTG
6105495 TAAAAATAATA-TTTTTATTCA
1 TAAAAATAATATTTTTTA-TCA
6105516 TAAAAAT-A-ATTTTTTATCA
1 TAAAAATAATATTTTTTATCA
6105535 TAAA
1 TAAA
6105539 TTTTTATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.36
20 7 0.32
21 7 0.32
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAAATAATATTTTTTATCA
Found at i:6110819 original size:11 final size:11
Alignment explanation
Indices: 6110803--6110827 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6110793 TATTTGAGTT
6110803 AATTTAAAATA
1 AATTTAAAATA
6110814 AATTTAAAATA
1 AATTTAAAATA
6110825 AAT
1 AAT
6110828 GTTTAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATTTAAAATA
Found at i:6112163 original size:15 final size:15
Alignment explanation
Indices: 6112129--6112409 Score: 83
Period size: 14 Copynumber: 19.7 Consensus size: 15
6112119 TAGAATGAGC
* *
6112129 ATATATAAAAAATATG
1 ATATAT-AATAATATA
*
6112145 ATATTTAATAATATA
1 ATATATAATAATATA
6112160 ATATATAATAA-A-A
1 ATATATAATAATATA
* *
6112173 ATATATTTATAAGAGTA
1 ATATA-TAATAATA-TA
* *
6112190 ATA-ATTAT-ATAAA
1 ATATATAATAATATA
*
6112203 AAATATAA-AATATA
1 ATATATAATAATATA
*
6112217 ATAGTATAA-AAAATGA
1 ATA-TATAATAATAT-A
*
6112233 CATA-AT-ATAAAATA
1 -ATATATAATAATATA
*
6112247 AT-TATAAT-TTATA
1 ATATATAATAATATA
*
6112260 ATATGA-AAGT-GTAT-
1 ATAT-ATAA-TAATATA
*
6112274 ATATGTAA-AA-ATA
1 ATATATAATAATATA
6112287 ATATATAAT-ATAT-
1 ATATATAATAATATA
* *
6112300 ATAAATAATTA-ATA
1 ATATATAATAATATA
6112314 ATATATAATACA-AGTA
1 ATATATAATA-ATA-TA
*
6112330 AAATATAATAATAT-
1 ATATATAATAATATA
* *
6112344 ATAAATAATAATGTA
1 ATATATAATAATATA
*
6112359 A-A-ATAATAAAAATA
1 ATATATAAT-AATATA
* *
6112373 ATTTGTGAA-AA-ATA
1 ATATAT-AATAATATA
6112387 ATATATAATAA-ATA
1 ATATATAATAATATA
6112401 ATA-ATAATA
1 ATATATAATA
6112410 TGAAATAATA
Statistics
Matches: 203, Mismatches: 31, Indels: 65
0.68 0.10 0.22
Matches are distributed among these distances:
12 2 0.01
13 49 0.24
14 73 0.36
15 50 0.25
16 20 0.10
17 9 0.04
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.35
Consensus pattern (15 bp):
ATATATAATAATATA
Found at i:6112304 original size:22 final size:22
Alignment explanation
Indices: 6112272--6112374 Score: 83
Period size: 20 Copynumber: 4.8 Consensus size: 22
6112262 ATGAAAGTGT
*
6112272 ATATATGTAAAAATAATATATA
1 ATATATATAAAAATAATATATA
6112294 ATATATAT--AAATAAT-TAATA
1 ATATATATAAAAATAATAT-ATA
* * *
6112314 ATATATAATACAAGTAAAATATA
1 ATATAT-ATAAAAATAATATATA
*
6112337 ATAATATATAAATAATAATGTA-A
1 AT-ATATATAAA-AATAATATATA
6112360 A-ATA-ATAAAAATAAT
1 ATATATATAAAAATAAT
6112375 TTGTGAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 17
0.74 0.08 0.19
Matches are distributed among these distances:
19 7 0.10
20 21 0.31
21 5 0.07
22 7 0.10
23 16 0.24
24 11 0.16
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (22 bp):
ATATATATAAAAATAATATATA
Found at i:6112313 original size:27 final size:26
Alignment explanation
Indices: 6112283--6112354 Score: 87
Period size: 26 Copynumber: 2.8 Consensus size: 26
6112273 TATATGTAAA
6112283 AATAATATATAATATATATAAATAAT-T
1 AATAATATATAATATA-ATAAA-AATAT
*
6112310 AATAATATATAATACAAGT-AAAATAT
1 AATAATATATAATATAA-TAAAAATAT
6112336 AATAATATATAA-ATAATAA
1 AATAATATATAATATAATAA
6112355 TGTAAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
24 1 0.03
25 7 0.17
26 16 0.40
27 16 0.40
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (26 bp):
AATAATATATAATATAATAAAAATAT
Found at i:6112352 original size:30 final size:29
Alignment explanation
Indices: 6112283--6112374 Score: 84
Period size: 29 Copynumber: 3.2 Consensus size: 29
6112273 TATATGTAAA
* *
6112283 AATAATATATAATATA-TATAAATAAT--T
1 AATAATAAATAATAAAGTA-AAATAATAAT
*
6112310 AATAATATATAATACAAGTAAAAT-ATAAT
1 AATAATAAATAATA-AAGTAAAATAATAAT
* *
6112339 AATATATAAATAATAATGTAAAATAATAAA
1 AATA-ATAAATAATAAAGTAAAATAATAAT
6112369 AATAAT
1 AATAAT
6112375 TTGTGAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
27 16 0.29
28 5 0.09
29 17 0.31
30 17 0.31
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (29 bp):
AATAATAAATAATAAAGTAAAATAATAAT
Found at i:6112416 original size:10 final size:10
Alignment explanation
Indices: 6112283--6112422 Score: 57
Period size: 10 Copynumber: 14.0 Consensus size: 10
6112273 TATATGTAAA
6112283 AATAATATAT
1 AATAATATAT
6112293 AAT-ATATAT
1 AATAATATAT
6112302 AAATAAT-TAAT
1 -AATAATAT-AT
*
6112313 AATATATAATAC
1 AATA-AT-ATAT
*
6112325 AAGTAAAATAT
1 AA-TAATATAT
6112336 AATAATATAT
1 AATAATATAT
6112346 AAATAATA-AT
1 -AATAATATAT
*
6112356 -GTAA-A-AT
1 AATAATATAT
*
6112363 AATAA-AAAT
1 AATAATATAT
* * *
6112372 AAT-TTGTGAAA
1 AATAATAT--AT
6112383 AATAATATAT
1 AATAATATAT
6112393 AATAA-ATAAT
1 AATAATAT-AT
6112403 AATAATATGA-
1 AATAATAT-AT
6112413 AATAATATAT
1 AATAATATAT
6112423 TGTTAAAATG
Statistics
Matches: 99, Mismatches: 14, Indels: 34
0.67 0.10 0.23
Matches are distributed among these distances:
7 3 0.03
8 7 0.07
9 14 0.14
10 41 0.41
11 25 0.25
12 6 0.06
13 3 0.03
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (10 bp):
AATAATATAT
Found at i:6112419 original size:3 final size:3
Alignment explanation
Indices: 6112283--6112409 Score: 50
Period size: 3 Copynumber: 40.3 Consensus size: 3
6112273 TATATGTAAA
*
6112283 AAT AAT ATAT AAT -AT ATAT AAAT AATT AAT AAT ATAT AAT ACA- AGT
1 AAT AAT A-AT AAT AAT A-AT -AAT AA-T AAT AAT A-AT AAT A-AT AAT
* *
6112329 AA- AAT -AT AAT AAT ATAT AAAT AAT AAT -GT AA- AAT AAT AAA AAT
1 AAT AAT AAT AAT AAT A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
** *
6112372 AATT TGT GAAA AAT AAT ATAT AAT AAAT AAT AAT AAT A
1 AA-T AAT -AAT AAT AAT A-AT AAT -AAT AAT AAT AAT A
6112410 TGAAATAATA
Statistics
Matches: 94, Mismatches: 12, Indels: 36
0.66 0.08 0.25
Matches are distributed among these distances:
2 9 0.10
3 58 0.62
4 25 0.27
5 2 0.02
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:6116169 original size:22 final size:23
Alignment explanation
Indices: 6116124--6116172 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
6116114 TAACTTAAAA
*
6116124 TATATAAAAAATTTTAAAATAAT
1 TATATAAAAAATTTTAAAAGAAT
* *
6116147 TATAT-AAGAATTTTTAAAGAAT
1 TATATAAAAAATTTTAAAAGAAT
6116169 TATA
1 TATA
6116173 AATATCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (23 bp):
TATATAAAAAATTTTAAAAGAAT
Found at i:6122263 original size:13 final size:14
Alignment explanation
Indices: 6122214--6122266 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
6122204 TTTTTTACCT
*
6122214 TGAATCCTGAACCC
1 TGAATCTTGAACCC
* * *
6122228 TGAATCCTAAACCT
1 TGAATCTTGAACCC
6122242 TGAATCTTGAACCC
1 TGAATCTTGAACCC
6122256 TG-ATCTTGAAC
1 TGAATCTTGAAC
6122267 TTGAAACCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 9 0.26
14 25 0.74
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (14 bp):
TGAATCTTGAACCC
Found at i:6122274 original size:20 final size:20
Alignment explanation
Indices: 6122240--6122287 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
6122230 AATCCTAAAC
6122240 CTTGAATCTTGAACC-CTG-AT
1 CTTGAA-CTTGAACCTC-GAAT
6122260 CTTGAACTTGAAACCTCGAAT
1 CTTGAACTTG-AACCTCGAAT
6122281 CTTGAAC
1 CTTGAAC
6122288 CCTTAACTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.16
20 11 0.44
21 10 0.40
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (20 bp):
CTTGAACTTGAACCTCGAAT
Found at i:6122399 original size:7 final size:7
Alignment explanation
Indices: 6122389--6122413 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6122379 GGGGTTTAAG
6122389 GTTCGGT
1 GTTCGGT
6122396 GTTCGGT
1 GTTCGGT
6122403 GTTCGGT
1 GTTCGGT
6122410 GTTC
1 GTTC
6122414 AATGTTCATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.40, T:0.44
Consensus pattern (7 bp):
GTTCGGT
Found at i:6133094 original size:43 final size:43
Alignment explanation
Indices: 6133046--6133141 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
6133036 GTGATTTTGG
** * *
6133046 GTAAGACCATGTTTGAGACATTGGCATCAATATGAGATTACGT
1 GTAAGACCATGTTTGAGACAGAGGCATCAATATGAGATAACAT
* * * * *
6133089 GTAAGACCCTGTTTGGGACAGAGGCATCGATATGTGATAATAT
1 GTAAGACCATGTTTGAGACAGAGGCATCAATATGAGATAACAT
6133132 GTAAGACCAT
1 GTAAGACCAT
6133142 ATCTGGTTTG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.28
Consensus pattern (43 bp):
GTAAGACCATGTTTGAGACAGAGGCATCAATATGAGATAACAT
Found at i:6135168 original size:17 final size:18
Alignment explanation
Indices: 6135140--6135173 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6135130 AATCTCTATT
6135140 CAATTTATATCCTAATTC
1 CAATTTATATCCTAATTC
6135158 CAATTTA-ATCCTAATT
1 CAATTTATATCCTAATT
6135174 AACTCATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (18 bp):
CAATTTATATCCTAATTC
Found at i:6135619 original size:14 final size:15
Alignment explanation
Indices: 6135595--6135623 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6135585 GAATGGCTTC
6135595 TGCTATTCTTTCTTT
1 TGCTATTCTTTCTTT
6135610 TGCT-TTCTTTCTTT
1 TGCTATTCTTTCTTT
6135624 ATTTCATTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.03, C:0.21, G:0.07, T:0.69
Consensus pattern (15 bp):
TGCTATTCTTTCTTT
Found at i:6136311 original size:20 final size:19
Alignment explanation
Indices: 6136265--6136311 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
6136255 GCCCTTTTTT
*
6136265 CCTAATTTCTCTTAATTAAG
1 CCTAA-TTCACTTAATTAAG
6136285 -CTAAATTCACTTAATTAAAG
1 CCT-AATTCACTTAATT-AAG
6136305 CCTAATT
1 CCTAATT
6136312 AAACACACAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 12 0.52
20 9 0.39
21 2 0.09
ACGTcount: A:0.36, C:0.19, G:0.04, T:0.40
Consensus pattern (19 bp):
CCTAATTCACTTAATTAAG
Found at i:6137621 original size:29 final size:28
Alignment explanation
Indices: 6137548--6137622 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
6137538 AAAATAAGAT
* *
6137548 AAAAATAAAAAATG-AAAAGGGTAAAAA
1 AAAAATAAATAATGTAAAAGGATAAAAA
* *
6137575 AATAAATAACATATTGTAAAAGTATAAAAA
1 AA-AAATAA-ATAATGTAAAAGGATAAAAA
6137605 AAAAATGAAATAATGTAA
1 AAAAAT-AAATAATGTAA
6137623 TGATGATAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.05
28 6 0.15
29 16 0.41
30 15 0.38
ACGTcount: A:0.68, C:0.01, G:0.11, T:0.20
Consensus pattern (28 bp):
AAAAATAAATAATGTAAAAGGATAAAAA
Found at i:6145866 original size:14 final size:14
Alignment explanation
Indices: 6145847--6145873 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6145837 AGTCAAATAG
6145847 TAAATAAAATAAAT
1 TAAATAAAATAAAT
6145861 TAAATAAAATAAA
1 TAAATAAAATAAA
6145874 ACCATTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATAAAATAAAT
Found at i:6150051 original size:12 final size:13
Alignment explanation
Indices: 6150026--6150058 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
6150016 TCATTTAACA
6150026 TTTTTTCTTCTTC
1 TTTTTTCTTCTTC
6150039 TTTTTTCTT-TTC
1 TTTTTTCTTCTTC
*
6150051 TTTGTTCT
1 TTTTTTCT
6150059 CCTTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (13 bp):
TTTTTTCTTCTTC
Found at i:6150089 original size:19 final size:19
Alignment explanation
Indices: 6150047--6150090 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
6150037 TCTTTTTTCT
*
6150047 TTTCTTTGTTCTCCTTTTA
1 TTTCTTTATTCTCCTTTTA
*
6150066 ATTCTTTATTC-CCTTTATA
1 TTTCTTTATTCTCCTTT-TA
6150085 TTTCTT
1 TTTCTT
6150091 ATTAAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.11, C:0.20, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTCTTTATTCTCCTTTTA
Found at i:6150518 original size:17 final size:16
Alignment explanation
Indices: 6150471--6150526 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
6150461 TCACTTAAAA
6150471 AATTTT-ATTTTTTTAT
1 AATTTTAATTTTTTT-T
**
6150487 AATTTTAATGATTTTT
1 AATTTTAATTTTTTTT
6150503 AGATTTTAATTTTTTTTT
1 A-ATTTTAA-TTTTTTTT
6150521 AATTTT
1 AATTTT
6150527 CAAGTAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
16 8 0.24
17 18 0.55
18 7 0.21
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.70
Consensus pattern (16 bp):
AATTTTAATTTTTTTT
Found at i:6158768 original size:6 final size:6
Alignment explanation
Indices: 6158757--6158786 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
6158747 TTTTAACTTA
6158757 AAAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
6158787 AACTGATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:6158773 original size:13 final size:12
Alignment explanation
Indices: 6158757--6158786 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
6158747 TTTTAACTTA
6158757 AAAAATAAAAAT
1 AAAAATAAAAAT
6158769 AAAAATAAAAAAT
1 AAAAAT-AAAAAT
6158782 AAAAA
1 AAAAA
6158787 AACTGATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:6158788 original size:8 final size:7
Alignment explanation
Indices: 6158755--6158787 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
6158745 GTTTTTAACT
6158755 TAAAAAA
1 TAAAAAA
6158762 T-AAAAA
1 TAAAAAA
6158768 T-AAAAA
1 TAAAAAA
6158774 TAAAAAA
1 TAAAAAA
6158781 TAAAAAA
1 TAAAAAA
6158788 ACTGATGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:6162202 original size:15 final size:15
Alignment explanation
Indices: 6162161--6162200 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
6162151 CTTTTAATTT
6162161 TTCTTCTTTTCTTCC
1 TTCTTCTTTTCTTCC
*
6162176 TTCTCACTTTTCTT-C
1 TTCT-TCTTTTCTTCC
6162191 TTCTTCTTTT
1 TTCTTCTTTT
6162201 TCCCCCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 5 0.23
15 9 0.41
16 8 0.36
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (15 bp):
TTCTTCTTTTCTTCC
Found at i:6163512 original size:24 final size:24
Alignment explanation
Indices: 6163480--6163529 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
6163470 ACTAAACCAA
6163480 CCACTAACTCCATCACCCCACTTG
1 CCACTAACTCCATCACCCCACTTG
*
6163504 CCACTAACTCTATCACCCCACTTG
1 CCACTAACTCCATCACCCCACTTG
6163528 CC
1 CC
6163530 TACAAAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.50, G:0.04, T:0.22
Consensus pattern (24 bp):
CCACTAACTCCATCACCCCACTTG
Found at i:6163663 original size:25 final size:25
Alignment explanation
Indices: 6163629--6163681 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
6163619 TTTTTGGAGA
*
6163629 AAAAAGGAGAGAGATTAGAATACAAG
1 AAAAAGGAGAG-GATTACAATACAAG
* *
6163655 AAAAA-GAGAGGCTTTCAATACAAG
1 AAAAAGGAGAGGATTACAATACAAG
6163679 AAA
1 AAA
6163682 TACACGAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.58
25 5 0.21
26 5 0.21
ACGTcount: A:0.57, C:0.08, G:0.23, T:0.13
Consensus pattern (25 bp):
AAAAAGGAGAGGATTACAATACAAG
Found at i:6164492 original size:125 final size:128
Alignment explanation
Indices: 6164310--6164564 Score: 311
Period size: 125 Copynumber: 2.0 Consensus size: 128
6164300 ATTTTTCAAG
** * * * *
6164310 TAAAGGCAATATTTGGTACTTGAAAATTCGAGAAATCGTGTCGTAACGTATTGGGTTTTG-GTTT
1 TAAAGGCAATATTCCGTACTTGAAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCGAGTTT
* * *
6164374 TTCGTTTGATCTAAGTAACCGATTATCC-TTTT-AAATTAAAATACATGAGTTTTAAATAAAA
66 TTCGTTTGATCTAAATAACCAAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
* * * *
6164435 TAAAGGCAATATTCCGTA-TTTAGAAATTCGAGTAGTCGTGCCCTAACGTACTGGGTTTCGATTT
1 TAAAGGCAATATTCCGTACTTGA-AAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCGAGTT
* ** * *
6164499 TTTTGTTTGATCTAAATATTCAAATATCCTTTTTAAAATTTAAATACATGAGTTTTAAATGAAA
65 TTTCGTTTGATCTAAATAACCAAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
6164563 TA
1 TA
6164565 GAAGACAAGC
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
124 3 0.03
125 47 0.44
126 25 0.23
127 4 0.04
128 29 0.27
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.39
Consensus pattern (128 bp):
TAAAGGCAATATTCCGTACTTGAAAATTCGAGAAATCGTGCCCTAACGTACTGGGTTTCGAGTTT
TTCGTTTGATCTAAATAACCAAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAA
Found at i:6165720 original size:14 final size:13
Alignment explanation
Indices: 6165699--6165728 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
6165689 GTAAAATATT
6165699 TTTCGGAAAATGA
1 TTTCGGAAAATGA
6165712 TTTCTGGAAAATGA
1 TTTC-GGAAAATGA
6165726 TTT
1 TTT
6165729 ACTTTTCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (13 bp):
TTTCGGAAAATGA
Found at i:6170817 original size:46 final size:46
Alignment explanation
Indices: 6170765--6171032 Score: 340
Period size: 46 Copynumber: 5.8 Consensus size: 46
6170755 AGTGTGCTCT
* *
6170765 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
6170811 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
6170857 GTGATATGAAATGAATAAGATCATGGTTGAAAGATACCATGACAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
6170903 CTGACATGAAATGAGTAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
6170949 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * *
6170996 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATAC
6171033 TATGACATCA
Statistics
Matches: 199, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
46 158 0.79
47 41 0.21
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:6172204 original size:12 final size:12
Alignment explanation
Indices: 6172153--6172219 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 12
6172143 TTTCATTAAA
6172153 TAAAA-AAAT-T
1 TAAAATAAATAT
*
6172163 TAAAATATAATAAA
1 TAAAATA-AAT-AT
* *
6172177 TCAAATACAT-T
1 TAAAATAAATAT
6172188 TAAAATAAATAT
1 TAAAATAAATAT
* *
6172200 TAAAACAAGTAT
1 TAAAATAAATAT
6172212 TAAAATAA
1 TAAAATAA
6172220 GAAACAAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
10 5 0.12
11 9 0.21
12 21 0.49
13 2 0.05
14 6 0.14
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (12 bp):
TAAAATAAATAT
Found at i:6172276 original size:41 final size:40
Alignment explanation
Indices: 6172188--6172285 Score: 99
Period size: 41 Copynumber: 2.4 Consensus size: 40
6172178 CAAATACATT
*
6172188 TAAAATAA-ATATTAAAACAAGTATTAAAATAAGAAACAAA
1 TAAAA-AATATATTAAAACAAGTATTAAAACAAGAAACAAA
* * * *
6172228 TAAAAAATGATATTAAAACAATTCTTAAAACAATACACAAA
1 TAAAAAAT-ATATTAAAACAAGTATTAAAACAAGAAACAAA
** *
6172269 TTGAAAATATAATAAAA
1 TAAAAAATATATTAAAA
6172286 AGTGATTATA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
39 2 0.04
40 13 0.27
41 33 0.69
ACGTcount: A:0.64, C:0.07, G:0.04, T:0.24
Consensus pattern (40 bp):
TAAAAAATATATTAAAACAAGTATTAAAACAAGAAACAAA
Found at i:6172336 original size:28 final size:27
Alignment explanation
Indices: 6172272--6172336 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 27
6172262 ACACAAATTG
* * *
6172272 AAAATATAATAAAAAGTGATTATATTA
1 AAAATAAAATAAAAAGTAAATATATTA
* *
6172299 AAATTGAAAATAAAATGTAAATATGATTA
1 AAAAT-AAAATAAAAAGTAAATAT-ATTA
6172328 AAAATAAAA
1 AAAATAAAA
6172337 AATATATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
27 4 0.13
28 18 0.60
29 8 0.27
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATAAAATAAAAAGTAAATATATTA
Found at i:6178305 original size:194 final size:194
Alignment explanation
Indices: 6177976--6178559 Score: 1150
Period size: 194 Copynumber: 3.0 Consensus size: 194
6177966 TCAATTTAAC
6177976 ATCACTCTCCAAACCAATACCTTAATCGATTCTTAGTTCGATTGATTGGTCTGGTTCAAACAATG
1 ATCACTCTCCAAACCAATACCTTAATCGATTCTTAGTTCGATTGATTGGTCTGGTTCAAACAATG
6178041 ATGACCGTAATATAAAAGTATAGGATAATGTATATTAAGTTCCTCTATCATAATTTGATCTATTA
66 ATGACCGTAATATAAAAGTATAGGATAATGTATATTAAGTTCCTCTATCATAATTTGATCTATTA
6178106 CTAAAATTTGATCTTGCCCTTATAATAGGACCTGTTAAGCAATTTCACCTAAAAATAAAACAAA
131 CTAAAATTTGATCTTGCCCTTATAATAGGACCTGTTAAGCAATTTCACCTAAAAATAAAACAAA
*
6178170 ATCACTCTCCAAACCAATACCTTAATCGATTCTTAGTTCGATTGATTGGTCTGATTCAAACAATG
1 ATCACTCTCCAAACCAATACCTTAATCGATTCTTAGTTCGATTGATTGGTCTGGTTCAAACAATG
6178235 ATGACCGTAATATAAAAGTATAGGATAATGTATATTAAGTTCCTCTATCATAATTTGATCTATTA
66 ATGACCGTAATATAAAAGTATAGGATAATGTATATTAAGTTCCTCTATCATAATTTGATCTATTA
6178300 CTAAAATTTGATCTTGCCCTTATAATAGGACCTGTTAAGCAATTTCACCTAAAAATAAAACAAA
131 CTAAAATTTGATCTTGCCCTTATAATAGGACCTGTTAAGCAATTTCACCTAAAAATAAAACAAA
*
6178364 ATCACTCTCCAAACCAATACCTTAATCGATTCTTAGTTCAATTGATTGGTCTGGTTCAAACAATG
1 ATCACTCTCCAAACCAATACCTTAATCGATTCTTAGTTCGATTGATTGGTCTGGTTCAAACAATG
6178429 ATGACCGTAATATAAAAGTATAGGATAATGTATATTAAGTTCCTCTATCATAATTTGATCTATTA
66 ATGACCGTAATATAAAAGTATAGGATAATGTATATTAAGTTCCTCTATCATAATTTGATCTATTA
6178494 CTAAAATTTGATCTTGCCCTTATAATAGGACCTGTTAAGCAATTTCACCTAAAAATAAAACAAA
131 CTAAAATTTGATCTTGCCCTTATAATAGGACCTGTTAAGCAATTTCACCTAAAAATAAAACAAA
6178558 AT
1 AT
6178560 ATTGTAGTCT
Statistics
Matches: 387, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
194 387 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (194 bp):
ATCACTCTCCAAACCAATACCTTAATCGATTCTTAGTTCGATTGATTGGTCTGGTTCAAACAATG
ATGACCGTAATATAAAAGTATAGGATAATGTATATTAAGTTCCTCTATCATAATTTGATCTATTA
CTAAAATTTGATCTTGCCCTTATAATAGGACCTGTTAAGCAATTTCACCTAAAAATAAAACAAA
Found at i:6184136 original size:14 final size:13
Alignment explanation
Indices: 6184117--6184155 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
6184107 GAACCATCCT
6184117 CACAAATAAAACGA
1 CACAAATAAAAC-A
6184131 CACAAATAATAACA
1 CACAAATAA-AACA
*
6184145 AACAAATAAAA
1 CACAAATAAAA
6184156 ATCGTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 2 0.09
14 18 0.78
15 3 0.13
ACGTcount: A:0.69, C:0.18, G:0.03, T:0.10
Consensus pattern (13 bp):
CACAAATAAAACA
Found at i:6189497 original size:19 final size:20
Alignment explanation
Indices: 6189467--6189507 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
6189457 AGAATGAAGA
6189467 TATTCAATTCTTTTCATTTT
1 TATTCAATTCTTTTCATTTT
6189487 TATTC-ATTCTTTTCATTTT
1 TATTCAATTCTTTTCATTTT
6189506 TA
1 TA
6189508 AATATAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.66
Consensus pattern (20 bp):
TATTCAATTCTTTTCATTTT
Found at i:6189783 original size:19 final size:19
Alignment explanation
Indices: 6189741--6189792 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
6189731 GTATCTCTAA
6189741 AAAAATTCAAAATAAATTTT
1 AAAAATTCAAAAT-AATTTT
6189761 -AAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
6189779 AAAAATTTCAAAAT
1 AAAAA-TTCAAAAT
6189793 TTATATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
17 4 0.14
18 1 0.03
19 16 0.55
20 8 0.28
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:6192076 original size:116 final size:116
Alignment explanation
Indices: 6191906--6192131 Score: 427
Period size: 116 Copynumber: 1.9 Consensus size: 116
6191896 GTTCCTTTTA
*
6191906 TTTTATTTTATTTTATTTTGGAATCATTGCAATTTATGCGAACATCACGACACTGGAAATTTATC
1 TTTTATTTTATTTTATTTTGGAATCATCGCAATTTATGCGAACATCACGACACTGGAAATTTATC
6191971 ACTAGTTTGCCTTGAGTTCTTTGCTGA-TGCACTTGCAGTGCACTATTGTCT
66 ACTAGTTTGCCTTGAGTTCTTTGCT-ATTGCACTTGCAGTGCACTATTGTCT
6192022 TTTTATTTTATTTTATTTTGGAATCATCGCAATTTATGCGAACATCACGACACTGGAAATTTATC
1 TTTTATTTTATTTTATTTTGGAATCATCGCAATTTATGCGAACATCACGACACTGGAAATTTATC
6192087 ACTAGTTTGCCTTGAGTTCTTTGCTATTGCACTTGCAGTGCACTA
66 ACTAGTTTGCCTTGAGTTCTTTGCTATTGCACTTGCAGTGCACTA
6192132 AGCCTTTAAT
Statistics
Matches: 108, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
115 1 0.01
116 107 0.99
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (116 bp):
TTTTATTTTATTTTATTTTGGAATCATCGCAATTTATGCGAACATCACGACACTGGAAATTTATC
ACTAGTTTGCCTTGAGTTCTTTGCTATTGCACTTGCAGTGCACTATTGTCT
Found at i:6197863 original size:26 final size:27
Alignment explanation
Indices: 6197792--6197868 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 27
6197782 AAATATTAAT
6197792 AAAATATTATAAAGAAATTAGAAATGATAGA
1 AAAATA-TAT-AA-AAATTA-AAATGATAGA
*
6197823 AAATTATATCAAAAATTAAAATGATA-A
1 AAAATATAT-AAAAATTAAAATGATAGA
6197850 AAGAATATATAAAAATTAA
1 AA-AATATATAAAAATTAA
6197869 TAAAAAAGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 12 0.29
28 14 0.33
29 6 0.14
30 5 0.12
31 5 0.12
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.27
Consensus pattern (27 bp):
AAAATATATAAAAATTAAAATGATAGA
Found at i:6198133 original size:20 final size:21
Alignment explanation
Indices: 6198096--6198140 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
6198086 GCAGTAATTT
*
6198096 TTATTAAGAAGTT-TTAAATA
1 TTATTAAGAAGTTCTAAAATA
6198116 TTATTAA-AAGTTACTAAAATA
1 TTATTAAGAAGTT-CTAAAATA
6198137 TTAT
1 TTAT
6198141 AATTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 7 0.32
21 10 0.45
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (21 bp):
TTATTAAGAAGTTCTAAAATA
Found at i:6201180 original size:112 final size:112
Alignment explanation
Indices: 6201039--6201246 Score: 364
Period size: 112 Copynumber: 1.9 Consensus size: 112
6201029 TTTGGAACCT
* * *
6201039 ATATATACATAATTTTCGTGTTTATATAAATACGTAATTATAAATAAAATC-TGAAGTTTGCGAT
1 ATATATACATAATTTTCGTGTTTATATAAATACATAATTATAAATAAAA-CATCAAGTCTGCGAT
6201103 TTATTTATTTATTCTACTCAATAATTTTATAAAATATATATTAATGGG
65 TTATTTATTTATTCTACTCAATAATTTTATAAAATATATATTAATGGG
6201151 ATATATACATAATTTTCGTGTTTATATAAATACATAATTATAAATAAAACATCAAGTCTGCGATT
1 ATATATACATAATTTTCGTGTTTATATAAATACATAATTATAAATAAAACATCAAGTCTGCGATT
*
6201216 TATTTATTTATTTTACTCAATAATTTTATAA
66 TATTTATTTATTCTACTCAATAATTTTATAA
6201247 TAAAAAATAT
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
111 1 0.01
112 90 0.99
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (112 bp):
ATATATACATAATTTTCGTGTTTATATAAATACATAATTATAAATAAAACATCAAGTCTGCGATT
TATTTATTTATTCTACTCAATAATTTTATAAAATATATATTAATGGG
Found at i:6203605 original size:11 final size:11
Alignment explanation
Indices: 6203591--6203631 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
6203581 TTTCAATATT
6203591 CTCTCAAATTC
1 CTCTCAAATTC
*
6203602 CTCTCAAATTT
1 CTCTCAAATTC
*
6203613 CTCTTAAATTC
1 CTCTCAAATTC
6203624 CTCTCAAA
1 CTCTCAAA
6203632 ACTCTCGTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:6203608 original size:22 final size:22
Alignment explanation
Indices: 6203589--6203631 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
6203579 TCTTTCAATA
6203589 TTCTCTCAAATTCCTCTCAAAT
1 TTCTCTCAAATTCCTCTCAAAT
*
6203611 TTCTCTTAAATTCCTCTCAAA
1 TTCTCTCAAATTCCTCTCAAA
6203632 ACTCTCGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.30, G:0.00, T:0.42
Consensus pattern (22 bp):
TTCTCTCAAATTCCTCTCAAAT
Found at i:6203644 original size:22 final size:22
Alignment explanation
Indices: 6203590--6203642 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
6203580 CTTTCAATAT
* **
6203590 TCTCTCAAATTCCTCTCAAATT
1 TCTCTTAAATTCCTCTCAAAAC
6203612 TCTCTTAAATTCCTCTCAAAAC
1 TCTCTTAAATTCCTCTCAAAAC
6203634 TCTCGTTAA
1 TCTC-TTAA
6203643 TTTTTTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.28, C:0.30, G:0.02, T:0.40
Consensus pattern (22 bp):
TCTCTTAAATTCCTCTCAAAAC
Found at i:6205458 original size:18 final size:18
Alignment explanation
Indices: 6205435--6205477 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
6205425 TGCCAGGTAC
*
6205435 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
6205453 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
6205471 GTTTCCT
1 GTATCCT
6205478 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:6206055 original size:115 final size:116
Alignment explanation
Indices: 6205852--6206128 Score: 441
Period size: 115 Copynumber: 2.4 Consensus size: 116
6205842 TATTTGTACA
* * *
6205852 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAAATAAAATGTTGTTTTAAATAAAGTAAT
* *
6205917 TATAATTTACTTTTATATTTTTAATAAAATGGAA-ATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAAT-AAACATTATTTTAAATAAAGC
* *
6205968 AACATTTTGAATA-TTTTATATTATTTCATGTGATAATATAAAATGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAAATAAAATGTTGTTTTAAATAAAGTAAT
6206032 TATAATTTACTTTTATATTTTTAATAAAATAAACATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATAAACATTATTTTAAATAAAGC
* *
6206083 AATATTTTGAATATTTTTATATTATTTAATGTAATAAAATATAAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATAAAATA-AAAT
6206129 AATACAACAT
Statistics
Matches: 148, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
114 2 0.01
115 105 0.71
116 37 0.25
117 4 0.03
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATAAAATAAAATGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATAAACATTATTTTAAATAAAGC
Found at i:6206079 original size:16 final size:17
Alignment explanation
Indices: 6206058--6206095 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6206048 ATTTTTAATA
*
6206058 AAATAAA-CATTATTTT
1 AAATAAAGCAATATTTT
6206074 AAATAAAGCAATATTTT
1 AAATAAAGCAATATTTT
*
6206091 GAATA
1 AAATA
6206096 TTTTTATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (17 bp):
AAATAAAGCAATATTTT
Found at i:6206101 original size:55 final size:53
Alignment explanation
Indices: 6205927--6206122 Score: 162
Period size: 55 Copynumber: 3.5 Consensus size: 53
6205917 TATAATTTAC
* *
6205927 TTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACATTTTGAATAT
1 TTTTATATTTTTAATAAAAT-AAAATTATTTTAAATAAAGCAA-ATTTTGAATAT
* * * * * *
6205982 TTTATATTATTTCATGTGATAATATAAAATGTTGTTTTAAATAAAG-TAATTAT-AATTTAC
1 TTT-TA-TATTT--T-TAATAAAATAAAA--TTATTTTAAATAAAGCAAATTTTGAA--TAT
6206042 TTTTATATTTTTAATAAAATAAACATTATTTTAAATAAAGCAATATTTTGAATAT
1 TTTTATATTTTTAATAAAATAAA-ATTATTTTAAATAAAGCAA-ATTTTGAATAT
**
6206097 TTTTATATTATTTAATGTAATAAAAT
1 TTTTATATT-TTTAATAAAATAAAAT
6206123 ATAAATAATA
Statistics
Matches: 111, Mismatches: 16, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
54 14 0.13
55 27 0.24
56 20 0.18
57 7 0.06
58 7 0.06
59 10 0.09
60 13 0.12
61 13 0.12
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (53 bp):
TTTTATATTTTTAATAAAATAAAATTATTTTAAATAAAGCAAATTTTGAATAT
Found at i:6209688 original size:126 final size:126
Alignment explanation
Indices: 6209142--6209680 Score: 875
Period size: 126 Copynumber: 4.3 Consensus size: 126
6209132 GCCCAAGTTA
* *
6209142 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
**
6209207 TGCATCCTACTTGAAGCGTTTTTTACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTACTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
6209268 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
6209333 TGCATCCTACTTGAAGCG-TTTTTACCACTATTTGAGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTACTTGAAGCGTTTTTTA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
6209394 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGTTTCTTTCAGTACTTTTGCT-AACA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAA-A
* * *
6209458 ATGCATCATGCTTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
65 ATGCATCCTACTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
6209520 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
6209585 TGCATCCTACTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTACTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
6209646 TTTCAGAGACTACTGCAGCAAAAGAGCGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
6209681 AGAAGCTTTT
Statistics
Matches: 382, Mismatches: 27, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
125 8 0.02
126 367 0.96
127 7 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTACTTGAAGCGTTTTTTACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:6209905 original size:95 final size:96
Alignment explanation
Indices: 6209768--6209970 Score: 275
Period size: 95 Copynumber: 2.1 Consensus size: 96
6209758 TTAAATATCC
* * * * * **
6209768 TAAAACCCTAAACCCTGAACTCCTAATCTATTTTTTTTAAATTTA-TAATTAATTTACTCAAGTA
1 TAAAACCCTAAACACTAAACTCATAATCTA-TTTTTTTAAAATTAGTAATTAATTTAATCAACAA
* *
6209832 ACCCTAAACCCTAATTTATTTGATTTTTTCCT
65 ACACTAAACCCTAATTTATTTAATTTTTTCCT
* *
6209864 TAAAACCATAAACACTAAAC-CATAATCTATTTTTTTAAAATTAGTAATTAATTTAATTAACAAA
1 TAAAACCCTAAACACTAAACTCATAATCTATTTTTTTAAAATTAGTAATTAATTTAATCAACAAA
*
6209928 CACTAAACCTTAATTTATTTAATTTTTTCCT
66 CACTAAACCCTAATTTATTTAATTTTTTCCT
6209959 TAAAACCCTAAA
1 TAAAACCCTAAA
6209971 ATTTAAAAAC
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
94 13 0.14
95 63 0.68
96 17 0.18
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.40
Consensus pattern (96 bp):
TAAAACCCTAAACACTAAACTCATAATCTATTTTTTTAAAATTAGTAATTAATTTAATCAACAAA
CACTAAACCCTAATTTATTTAATTTTTTCCT
Found at i:6209978 original size:15 final size:15
Alignment explanation
Indices: 6209958--6210000 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
6209948 AATTTTTTCC
6209958 TTAAAACCCTAAAAT
1 TTAAAACCCTAAAAT
* *
6209973 TTAAAAACTTAAAAT
1 TTAAAACCCTAAAAT
*
6209988 TCTCAAACCCTAA
1 T-TAAAACCCTAA
6210001 CCCTAATTAC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTAAAACCCTAAAAT
Found at i:6211213 original size:27 final size:28
Alignment explanation
Indices: 6211183--6211245 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 28
6211173 AACAATGACT
6211183 ATATAAAAACTTTTAATAAATA-AAAA-A
1 ATATAAAAA-TTTTAATAAATATAAAATA
*
6211210 ATATATAAAATTTTATTAAATATTAAAATA
1 ATATA-AAAATTTTAATAAATA-TAAAATA
6211240 ATATAA
1 ATATAA
6211246 TATAAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
27 16 0.52
28 4 0.13
29 5 0.16
30 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (28 bp):
ATATAAAAATTTTAATAAATATAAAATA
Found at i:6211257 original size:33 final size:32
Alignment explanation
Indices: 6211201--6211274 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
6211191 ACTTTTAATA
**
6211201 AATAAAAAA-AT-ATATAAAATTTTATTAAAT
1 AATAAAAAATATAATATAAAATTTTAAAAAAT
* *
6211231 ATTAAAATAATATAATATAAATTTTTAAAAAAT
1 AATAAAA-AATATAATATAAAATTTTAAAAAAT
6211264 AATAAAAAATA
1 AATAAAAAATA
6211275 ATACGAGTGG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 6 0.17
31 2 0.06
32 6 0.17
33 22 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (32 bp):
AATAAAAAATATAATATAAAATTTTAAAAAAT
Found at i:6211276 original size:30 final size:30
Alignment explanation
Indices: 6211183--6211277 Score: 88
Period size: 33 Copynumber: 3.1 Consensus size: 30
6211173 AACAATGACT
6211183 ATATAAAAACTTTTAATAAAT-A-AAAAAAT-
1 ATAT-AAAA-TTTTAATAAATAATAAAAAATA
* *
6211212 ATATAAAATTTTATTAAATATTAAAATAATATA
1 ATATAAAATTTTAATAAATAAT-AAA-AA-ATA
* *
6211245 ATATAAATTTTTAAAAAATAATAAAAAATA
1 ATATAAAATTTTAATAAATAATAAAAAATA
6211275 ATA
1 ATA
6211278 CGAGTGGGCC
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
27 10 0.19
28 4 0.07
29 4 0.07
30 9 0.17
31 4 0.07
32 5 0.09
33 18 0.33
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (30 bp):
ATATAAAATTTTAATAAATAATAAAAAATA
Found at i:6215201 original size:14 final size:15
Alignment explanation
Indices: 6215182--6215211 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6215172 ACAACTCTTA
6215182 ATTTATT-AAATTTT
1 ATTTATTAAAATTTT
6215196 ATTTATTAAAATTTT
1 ATTTATTAAAATTTT
6215211 A
1 A
6215212 CTGTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTATTAAAATTTT
Found at i:6216103 original size:29 final size:29
Alignment explanation
Indices: 6216061--6216116 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
6216051 TTAAAAAAGG
*
6216061 TTGAAACTAATACATTGTTGACAAATTAA
1 TTGAAACTAATACATTCTTGACAAATTAA
*
6216090 TTGAAATTAATACATTCTTGACAAATT
1 TTGAAACTAATACATTCTTGACAAATT
6216117 TAACTTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (29 bp):
TTGAAACTAATACATTCTTGACAAATTAA
Found at i:6218533 original size:18 final size:18
Alignment explanation
Indices: 6218499--6218555 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 18
6218489 ATCATAAGAT
* *
6218499 TCAA-AAATTTCACTATA
1 TCAATAAATTTAAATATA
6218516 TCAATAAATTTAAATATACATA
1 TCAATAAATTT-AA-AT--ATA
6218538 TCAATAAATTTAAATATA
1 TCAATAAATTTAAATATA
6218556 CTTTTGCATC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
17 4 0.12
18 9 0.27
19 1 0.03
20 3 0.09
21 2 0.06
22 14 0.42
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
TCAATAAATTTAAATATA
Found at i:6218538 original size:22 final size:22
Alignment explanation
Indices: 6218513--6218556 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
6218503 AAATTTCACT
6218513 ATATCAATAAATTTAAATATAC
1 ATATCAATAAATTTAAATATAC
6218535 ATATCAATAAATTTAAATATAC
1 ATATCAATAAATTTAAATATAC
6218557 TTTTGCATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATCAATAAATTTAAATATAC
Found at i:6219857 original size:18 final size:18
Alignment explanation
Indices: 6219836--6219870 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6219826 TTTTTGTGTG
6219836 TGTTGG-TGTTTTGTATTT
1 TGTTGGTTGTTTT-TATTT
6219854 TGTTGGTTGTTTTTATT
1 TGTTGGTTGTTTTTATT
6219871 CAAATTCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.06, C:0.00, G:0.26, T:0.69
Consensus pattern (18 bp):
TGTTGGTTGTTTTTATTT
Found at i:6222077 original size:2 final size:2
Alignment explanation
Indices: 6222070--6222152 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
6222060 GATAATTATC
6222070 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
6222112 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
6222153 CCCCTTTAAG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:6223083 original size:16 final size:16
Alignment explanation
Indices: 6223062--6223100 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
6223052 ATAAGTAAAC
6223062 ATTATT-TTATTATTAA
1 ATTATTATTA-TATTAA
*
6223078 ATTATTATTATATTAC
1 ATTATTATTATATTAA
6223094 ATTATTA
1 ATTATTA
6223101 AAATAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTATTATTATATTAA
Found at i:6223116 original size:12 final size:12
Alignment explanation
Indices: 6223099--6223132 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
6223089 ATTACATTAT
6223099 TAAAATAAAATA
1 TAAAATAAAATA
6223111 TAAAATAAAATA
1 TAAAATAAAATA
6223123 -AAACATAAAA
1 TAAA-ATAAAA
6223133 AAAGAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 3 0.14
12 18 0.86
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (12 bp):
TAAAATAAAATA
Found at i:6223121 original size:17 final size:17
Alignment explanation
Indices: 6223099--6223132 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6223089 ATTACATTAT
*
6223099 TAAAATAAAATATAAAA
1 TAAAATAAAACATAAAA
6223116 TAAAATAAAACATAAAA
1 TAAAATAAAACATAAAA
6223133 AAAGAAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
TAAAATAAAACATAAAA
Found at i:6224340 original size:23 final size:23
Alignment explanation
Indices: 6224313--6224357 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
6224303 GAATGATAAA
6224313 ACAATTCTAAATGGATAATAGGG
1 ACAATTCTAAATGGATAATAGGG
6224336 ACAATTCTAAATGGATAATAGG
1 ACAATTCTAAATGGATAATAGG
6224358 CAGGGAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (23 bp):
ACAATTCTAAATGGATAATAGGG
Found at i:6225951 original size:43 final size:44
Alignment explanation
Indices: 6225795--6225969 Score: 154
Period size: 44 Copynumber: 4.0 Consensus size: 44
6225785 TCTACTCTAC
** * *
6225795 TGCAACTTCAGGGAGATAAGATCGGTGTCTTCAGTCTGCTCCAT
1 TGCAACTTCAGGGAGATAAGATTTGTGACTTTAGTCTGCTCCAT
* * * * ** * *
6225839 TGCAACTTCAAGGAGATAAGACTTGTAATTTTAACCTGCCCCAC
1 TGCAACTTCAGGGAGATAAGATTTGTGACTTTAGTCTGCTCCAT
* * *
6225883 TGCAACTTCAGGGAGATGAGGTTTGTGGCTTTAGTCTGCTCCAT
1 TGCAACTTCAGGGAGATAAGATTTGTGACTTTAGTCTGCTCCAT
* * * * *
6225927 TGCAAATT-AGGGAGACAAGATTTGTCATTTTCGATCTGCTCCA
1 TGCAACTTCAGGGAGATAAGATTTGTGACTTTAG-TCTGCTCCA
6225970 CTAATGCCTA
Statistics
Matches: 99, Mismatches: 31, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
43 18 0.18
44 81 0.82
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (44 bp):
TGCAACTTCAGGGAGATAAGATTTGTGACTTTAGTCTGCTCCAT
Found at i:6225971 original size:88 final size:88
Alignment explanation
Indices: 6225774--6225971 Score: 227
Period size: 88 Copynumber: 2.2 Consensus size: 88
6225764 AAATAAGGTC
* * * *
6225774 TGTAACTTTAATCTACTCTACTGCAACTTCAGGGAGATAAGATCGGTGTCTTCAGTCTGCTCCAT
1 TGTAATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCGGTGGCTTCAGTCTGCTCCAT
* *
6225839 TGCAACTTCAAGGAGATAAGACT
66 TGCAAATTCAAGGAGACAAGACT
* * * * ** *
6225862 TGTAATTTTAACCTGCCCCACTGCAACTTCAGGGAGATGAGGTTTGTGGCTTTAGTCTGCTCCAT
1 TGTAATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCGGTGGCTTCAGTCTGCTCCAT
* *
6225927 TGCAAATT-AGGGAGACAAGATT
66 TGCAAATTCAAGGAGACAAGACT
* *
6225949 TGTCATTTTCGATCTGCTCCACT
1 TGTAATTTT-AATCTGCTCCACT
6225972 AATGCCTAAG
Statistics
Matches: 90, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
87 19 0.21
88 71 0.79
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (88 bp):
TGTAATTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCGGTGGCTTCAGTCTGCTCCAT
TGCAAATTCAAGGAGACAAGACT
Found at i:6226077 original size:86 final size:86
Alignment explanation
Indices: 6225960--6226551 Score: 344
Period size: 86 Copynumber: 6.8 Consensus size: 86
6225950 GTCATTTTCG
* * * * *
6225960 ATCTGCTCCACTAATGCCTAAGGATACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAG
* *
6226025 GGAGATAGGATGGTGGCTTAA
66 GGAGATAAGATGCTGGCTTAA
* * * * * * *
6226046 ATCTGCTCCACTACTACTTAGGGAGATAAGAT-TCGCCATTTTCGATCTGCTCCACTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTCAACCTACTCCACTACTGCTTA
* * **
6226110 GGGAGACAAGAT-CT-ACAATCTTC
65 GGGAGATAAGATGCTGGC--T-TAA
* * * * ** * * *
6226133 AGCATACTCCACTACTTCTTAGGGAGATAAGATGGT---GGCTTAAATCTGCTCCACTACTGCTT
1 ATC-TGCTCCACTACTGCTTAGGGAGATAAGAT-CTACAATCTTCAACCTACTCCACTACTGCTT
*** **
6226195 AGGGAGATAAGATTCGCCATCTTCG
64 AGGGAGATAAGA-T-GCTGGCTTAA
* * *
6226220 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAG
*
6226285 GGAGATAAGATGGTGGCTTAA
66 GGAGATAAGATGCTGGCTTAA
* * * * * * *
6226306 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-TCGCCATTTTCGATCTGCTCCACTACTTCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACAATCTTCAACCTACTCCACTACTGCTTA
* * *
6226370 GGGAGACAAGAT-CT-ACAATTTTCA
65 GGGAGATAAGATGCTGGC----TTAA
** * * * * ** * * * **
6226394 GCCTACTCCACTACTGCTTAGGTAGATAGGATGGT---GGCTTAAATCTGCTCTGCTACTGCTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGAT-CTACAATCTTCAACCTACTCCACTACTGCTTA
* *** **
6226456 GGGAGATGAGATTCGCCATCTTCG
65 GGGAGATAAGA-T-GCTGGCTTAA
* * *
6226480 ATCTGTTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAG
6226545 GGAGATA
66 GGAGATA
6226552 GGATTTGAGA
Statistics
Matches: 380, Mismatches: 98, Indels: 54
0.71 0.18 0.10
Matches are distributed among these distances:
84 2 0.01
85 6 0.02
86 242 0.64
87 9 0.02
88 115 0.30
89 2 0.01
90 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (86 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAG
GGAGATAAGATGCTGGCTTAA
Found at i:6226102 original size:44 final size:44
Alignment explanation
Indices: 6225933--6226556 Score: 391
Period size: 44 Copynumber: 14.4 Consensus size: 44
6225923 CCATTGCAAA
* * * * *
6225933 TTAGGGAGACAAGATTTGTCATTTTCGATCTGCTCCACTAATGC
1 TTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGC
* * * * * * * * *
6225977 CTAAGGATACAAGA-TCTACAATCTTCAACCTACTCCACTACTGC
1 TTAGGGAGATAAGATTC-GCCATCTTCGATCTGCTCCACTACTGC
* **** ** *
6226021 TTAGGGAGATAGGA-T-GGTGGCTTAAATCTGCTCCACTACTAC
1 TTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGC
*
6226063 TTAGGGAGATAAGATTCGCCATTTTCGATCTGCTCCACTACTGC
1 TTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGC
* * * * * *
6226107 TTAGGGAGACAAGA-TCTACAATCTTC-AGCATACTCCACTACTTC
1 TTAGGGAGATAAGATTC-GCCATCTTCGATC-TGCTCCACTACTGC
**** **
6226151 TTAGGGAGATAAGA-T-GGTGGCTTAAATCTGCTCCACTACTGC
1 TTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGC
6226193 TTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGC
1 TTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGC
* * * * *
6226237 TTAGGGAGACAAGA-TCTACAATCTTC-AGCCTACTCCACTACTGC
1 TTAGGGAGATAAGATTC-GCCATCTTCGA-TCTGCTCCACTACTGC
* **** **
6226281 TTAAGGAGATAAGA-T-GGTGGCTTAAATCTGCTCCACTACTGC
1 TTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGC
* *
6226323 TTAGGGAGATAAGATTCGCCATTTTCGATCTGCTCCACTACTTC
1 TTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGC
* * * * * *
6226367 TTAGGGAGACAAGA-TCTACAATTTTC-AGCCTACTCCACTACTGC
1 TTAGGGAGATAAGATTC-GCCATCTTCGA-TCTGCTCCACTACTGC
* * **** ** **
6226411 TTAGGTAGATAGGA-T-GGTGGCTTAAATCTGCTCTGCTACTGC
1 TTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGC
* *
6226453 TTAGGGAGATGAGATTCGCCATCTTCGATCTGTTCCACTACTGC
1 TTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGC
* * * * *
6226497 TTAGGGAGACAAGA-TCTACAATCTTC-AGCCTACTCCACTACTGC
1 TTAGGGAGATAAGATTC-GCCATCTTCGA-TCTGCTCCACTACTGC
*
6226541 TTAGGGAGATAGGATT
1 TTAGGGAGATAAGATT
6226557 TGAGAATTTA
Statistics
Matches: 436, Mismatches: 123, Indels: 41
0.73 0.20 0.07
Matches are distributed among these distances:
42 115 0.26
43 22 0.05
44 298 0.68
45 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
TTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGC
Found at i:6226579 original size:130 final size:130
Alignment explanation
Indices: 6225933--6226555 Score: 1039
Period size: 130 Copynumber: 4.8 Consensus size: 130
6225923 CCATTGCAAA
* * * * * * *
6225933 TTAGGGAGACAAGATTTGTCATTTTCGATCTGCTCCACTAATGCCTAAGGATACAAGATCTACAA
1 TTAGGGAGATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAA
* *
6225998 TCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTAC
66 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGC
6226063 TTAGGGAGATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAA
1 TTAGGGAGATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAA
* * *
6226128 TCTTCAGCATACTCCACTACTTCTTAGGGAGATAAGATGGTGGCTTAAATCTGCTCCACTACTGC
66 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGC
*
6226193 TTAGGGAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAA
1 TTAGGGAGATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAA
* *
6226258 TCTTCAGCCTACTCCACTACTGCTTAAGGAGATAAGATGGTGGCTTAAATCTGCTCCACTACTGC
66 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGC
*
6226323 TTAGGGAGATAAGATTCGCCATTTTCGATCTGCTCCACTACTTCTTAGGGAGACAAGATCTACAA
1 TTAGGGAGATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAA
* * **
6226388 TTTTCAGCCTACTCCACTACTGCTTAGGTAGATAGGATGGTGGCTTAAATCTGCTCTGCTACTGC
66 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGC
* * *
6226453 TTAGGGAGATGAGATTCGCCATCTTCGATCTGTTCCACTACTGCTTAGGGAGACAAGATCTACAA
1 TTAGGGAGATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAA
6226518 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGAT
66 TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGAT
6226556 TTGAGAATTT
Statistics
Matches: 463, Mismatches: 30, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
130 463 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (130 bp):
TTAGGGAGATAAGATTCGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAA
TCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGC
Found at i:6238323 original size:23 final size:23
Alignment explanation
Indices: 6238296--6238342 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
6238286 GAATGATAAA
6238296 ACAATTCTAAATGGATAATAGGT
1 ACAATTCTAAATGGATAATAGGT
6238319 ACAATTCTAAATGGATAATAGGT
1 ACAATTCTAAATGGATAATAGGT
6238342 A
1 A
6238343 GGGAAAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.17, T:0.30
Consensus pattern (23 bp):
ACAATTCTAAATGGATAATAGGT
Found at i:6242288 original size:66 final size:66
Alignment explanation
Indices: 6242138--6242298 Score: 180
Period size: 66 Copynumber: 2.4 Consensus size: 66
6242128 GTTTAGTAAC
* * * * *
6242138 TTGAGAAGA-CTCGATATCTTATTCAGGAGCTTGGGAAGACTCGGTATCTCGTTTAGGATCTTGA
1 TTGAGAAGACCT-GATATCTTATTCAAGAGCTTGGGAAGACTCGATATCGCGTTCAGGAGCTTGA
6242202 GA
65 GA
* * * * * *
6242204 TTGAGAAGACTTGTTATCTCATTCAAGAGTTTGGGAAGACTCGATGTCGCGTTCAGGAGCTTGGG
1 TTGAGAAGACCTGATATCTTATTCAAGAGCTTGGGAAGACTCGATATCGCGTTCAGGAGCTTGAG
6242269 A
66 A
* * *
6242270 TTTAGAATACCTGATATCTTGTTCAAGAG
1 TTGAGAAGACCTGATATCTTATTCAAGAG
6242299 ATTAAAAAGA
Statistics
Matches: 77, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
66 76 0.99
67 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (66 bp):
TTGAGAAGACCTGATATCTTATTCAAGAGCTTGGGAAGACTCGATATCGCGTTCAGGAGCTTGAG
A
Found at i:6246226 original size:27 final size:26
Alignment explanation
Indices: 6246186--6246240 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
6246176 TTTATTTTTA
6246186 TTTTTAAAAATATTTAAA-ATACTATAT
1 TTTTTAAAAATA-TTAAACATAC-ATAT
* *
6246213 TTTTTAATATTATTAAACATACATAT
1 TTTTTAAAAATATTAAACATACATAT
6246239 TT
1 TT
6246241 AATTATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (26 bp):
TTTTTAAAAATATTAAACATACATAT
Found at i:6246305 original size:13 final size:14
Alignment explanation
Indices: 6246289--6246330 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
6246279 TTTCAATTTT
6246289 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
6246302 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
6246317 ATTTTAAATAATAT
1 ATTTT-AATAATAT
6246331 TATTCAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:6246315 original size:16 final size:16
Alignment explanation
Indices: 6246293--6246329 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
6246283 AATTTTATTT
6246293 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
6246310 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
6246325 TAATA
1 TAATA
6246330 TTATTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:6246372 original size:15 final size:15
Alignment explanation
Indices: 6246352--6246408 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
6246342 ATTCAATATT
6246352 AATATTTTAATAATA
1 AATATTTTAATAATA
*
6246367 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
* *
6246386 ACTATATTAATAATA
1 AATATTTTAATAATA
6246401 AATATTTT
1 AATATTTT
6246409 GTAATATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 16 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 9 0.28
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:6246812 original size:32 final size:34
Alignment explanation
Indices: 6246776--6246847 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
6246766 AACTTTTATG
* *
6246776 AAATATTTTTA-ATAAATTTA-TCAAACAACAAA
1 AAATATTTTTACACAAATTCATTCAAACAACAAA
* *
6246808 AAATA-TTTTACACAGATTCATTCAAACACCAAA
1 AAATATTTTTACACAAATTCATTCAAACAACAAA
6246841 AAATATT
1 AAATATT
6246848 AAAATTTTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 5 0.15
32 11 0.33
33 16 0.48
34 1 0.03
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.32
Consensus pattern (34 bp):
AAATATTTTTACACAAATTCATTCAAACAACAAA
Found at i:6246884 original size:14 final size:14
Alignment explanation
Indices: 6246865--6246931 Score: 71
Period size: 14 Copynumber: 4.8 Consensus size: 14
6246855 TCAGAAAAAC
6246865 AAATCATTTTCCAA
1 AAATCATTTTCCAA
* *
6246879 AAATCATTTTACGA
1 AAATCATTTTCCAA
* *
6246893 AAGTTATTTTCCAA
1 AAATCATTTTCCAA
* *
6246907 AAATCATTTTACGA
1 AAATCATTTTCCAA
*
6246921 AAATTATTTTC
1 AAATCATTTTC
6246932 AATCAAACAA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.40
Consensus pattern (14 bp):
AAATCATTTTCCAA
Found at i:6246902 original size:28 final size:28
Alignment explanation
Indices: 6246865--6246931 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
6246855 TCAGAAAAAC
*
6246865 AAATCATTTTCCAAAAATCATTTTACGA
1 AAATTATTTTCCAAAAATCATTTTACGA
*
6246893 AAGTTATTTTCCAAAAATCATTTTACGA
1 AAATTATTTTCCAAAAATCATTTTACGA
6246921 AAATTATTTTC
1 AAATTATTTTC
6246932 AATCAAACAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.40
Consensus pattern (28 bp):
AAATTATTTTCCAAAAATCATTTTACGA
Found at i:6257605 original size:14 final size:14
Alignment explanation
Indices: 6257582--6257611 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6257572 TTTTAATCTG
6257582 TTCTTCTTCTTTTT
1 TTCTTCTTCTTTTT
*
6257596 TTCTTTTTCTTTTT
1 TTCTTCTTCTTTTT
6257610 TT
1 TT
6257612 AATTTCTCGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTCTTCTTCTTTTT
Found at i:6263819 original size:87 final size:87
Alignment explanation
Indices: 6263646--6263807 Score: 243
Period size: 87 Copynumber: 1.9 Consensus size: 87
6263636 TTAGGGTTTT
* * *
6263646 AATTTTTTTTGTAGTATTATTTATTTGTATGTTTGTCACTTAATTAGTATAAAAAAACTAAATAA
1 AATTTTTTTTGTAGTATTATTTATCTGTATGCTTCTCACTTAATTAGTATAAAAAAACTAAATAA
*
6263711 ATACTGAAATGATATATTTGAG
66 ATACTAAAATGATATATTTGAG
* * * * *
6263733 AATTTTTTTTGTATTATTATTTATCTGTATGCTTCTTACTTAATTATTATAAAAAAATTAATTAA
1 AATTTTTTTTGTAGTATTATTTATCTGTATGCTTCTCACTTAATTAGTATAAAAAAACTAAATAA
6263798 ATACTAAAAT
66 ATACTAAAAT
6263808 AGTATGTTTG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 66 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (87 bp):
AATTTTTTTTGTAGTATTATTTATCTGTATGCTTCTCACTTAATTAGTATAAAAAAACTAAATAA
ATACTAAAATGATATATTTGAG
Done.