Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 359 of 433
Found at i:112814219 original size:11 final size:11
Alignment explanation
Indices: 112814203--112814274 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
112814193 CATGATATGT
112814203 ATGATATGCAC
1 ATGATATGCAC
*
112814214 ATGATATG--T
1 ATGATATGCAC
112814223 ATGATATGCAC
1 ATGATATGCAC
* *
112814234 ATGACATG--T
1 ATGATATGCAC
112814243 ATGATATGCAC
1 ATGATATGCAC
*
112814254 ATGATATG--T
1 ATGATATGCAC
112814263 ATGATATGCAC
1 ATGATATGCAC
112814274 A
1 A
112814275 CGAGATGTTC
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:112814282 original size:20 final size:20
Alignment explanation
Indices: 112814192--112814274 Score: 157
Period size: 20 Copynumber: 4.2 Consensus size: 20
112814182 ATTTTGATAA
112814192 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
112814212 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
112814232 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
112814252 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
112814272 ACA
1 ACA
112814275 CGAGATGTTC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:112814359 original size:23 final size:23
Alignment explanation
Indices: 112814328--112814446 Score: 159
Period size: 24 Copynumber: 5.0 Consensus size: 23
112814318 GAGGAAGTGC
112814328 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTT-TGCCCCAGTTATT
112814352 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTT-TGCCCCAGTTATT
112814375 AAAAAGGGCTTTGCCCCAGTTATT
1 -AAAAGGGCTTTGCCCCAGTTATT
112814399 AAAAAGGGCTTTGCCCCAGTTATT
1 -AAAAGGGCTTTGCCCCAGTTATT
**
112814423 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAG-GGCTTTGCC-CCAGTTAT
112814447 ATGATAAAGC
Statistics
Matches: 89, Mismatches: 2, Indels: 7
0.91 0.02 0.07
Matches are distributed among these distances:
23 28 0.31
24 44 0.49
25 17 0.19
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (23 bp):
AAAAGGGCTTTGCCCCAGTTATT
Found at i:112814394 original size:24 final size:25
Alignment explanation
Indices: 112814328--112814426 Score: 170
Period size: 24 Copynumber: 4.1 Consensus size: 25
112814318 GAGGAAGTGC
112814328 AAAAGGGCTTATGCCCCAGTTATT-
1 AAAAGGGCTTATGCCCCAGTTATTA
112814352 -AAAGGGCTTATGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
112814376 AAAAGGGCTT-TGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
112814400 AAAAGGGCTT-TGCCCCAGTTATTA
1 AAAAGGGCTTATGCCCCAGTTATTA
112814424 AAA
1 AAA
112814427 GAGGCTAGGC
Statistics
Matches: 73, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
23 23 0.32
24 41 0.56
25 9 0.12
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTATGCCCCAGTTATTA
Found at i:112819826 original size:13 final size:13
Alignment explanation
Indices: 112819808--112819834 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
112819798 CATTGTTTAG
112819808 TTGATTGGACATT
1 TTGATTGGACATT
112819821 TTGATTGGACATT
1 TTGATTGGACATT
112819834 T
1 T
112819835 GTGTACATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.48
Consensus pattern (13 bp):
TTGATTGGACATT
Found at i:112822598 original size:3 final size:3
Alignment explanation
Indices: 112822590--112822643 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
112822580 CATCTCGTAT
112822590 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
112822638 ATA ATA
1 ATA ATA
112822644 TTATTATTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:112822648 original size:3 final size:3
Alignment explanation
Indices: 112822642--112822685 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
112822632 ATAATAATAA
112822642 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
112822686 AATTCAAGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:112823089 original size:27 final size:27
Alignment explanation
Indices: 112823051--112823104 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
112823041 TAATACTTGG
112823051 TACACATCCTTGGGTACTAAAAATTAT
1 TACACATCCTTGGGTACTAAAAATTAT
112823078 TACACATCCTTGGGTACTAAAAATTAT
1 TACACATCCTTGGGTACTAAAAATTAT
112823105 ACTTTTACGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (27 bp):
TACACATCCTTGGGTACTAAAAATTAT
Found at i:112824487 original size:2 final size:2
Alignment explanation
Indices: 112824480--112824508 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
112824470 AACAATGTTT
112824480 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
112824509 TTGTCATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:112828882 original size:5 final size:5
Alignment explanation
Indices: 112828874--112828899 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
112828864 CAAAATAAAA
112828874 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
112828900 GTTGGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:112833545 original size:39 final size:39
Alignment explanation
Indices: 112833502--112833694 Score: 325
Period size: 39 Copynumber: 5.0 Consensus size: 39
112833492 ATTATATTAT
* *
112833502 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
112833541 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
112833580 CAGCACGAAGCCTGCGGGACTTTAG-CCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
112833618 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
**
112833657 CAGCGTGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
112833695 TCAGTGTCTT
Statistics
Matches: 145, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
38 38 0.26
39 107 0.74
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:112833630 original size:77 final size:77
Alignment explanation
Indices: 112833502--112833694 Score: 314
Period size: 77 Copynumber: 2.5 Consensus size: 77
112833492 ATTATATTAT
* * *
112833502 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTGGC
1 CAGCACGAAGCCTGCGGGACTTT-AGCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGC
112833567 CCGGATACATTTC
65 CCGGATACATTTC
112833580 CAGCACGAAGCCTGCGGGACTTTAGCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCC
1 CAGCACGAAGCCTGCGGGACTTTAGCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCC
*
112833645 CGGATATATTTC
66 CGGATACATTTC
**
112833657 CAGCGTGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAG-CCGGATACATTT
112833695 TCAGTGTCTT
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
77 74 0.69
78 34 0.31
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (77 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCGGATACATTTCCAGCACGAAGCCTGCGGGACTTTAGCC
CGGATACATTTC
Found at i:112840412 original size:17 final size:17
Alignment explanation
Indices: 112840392--112840459 Score: 61
Period size: 17 Copynumber: 4.1 Consensus size: 17
112840382 AATTATTCTG
112840392 TTATATTTATATTTTTA
1 TTATATTTATATTTTTA
*
112840409 TTATATGTTATATATTT-
1 TTATAT-TTATATTTTTA
*
112840426 TTAT-TATATATTATTTA
1 TTATATTTATATT-TTTA
* *
112840443 TTCTA-CTATATTTTTA
1 TTATATTTATATTTTTA
112840459 T
1 T
112840460 ATGTAAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
15 5 0.12
16 9 0.21
17 19 0.45
18 9 0.21
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.66
Consensus pattern (17 bp):
TTATATTTATATTTTTA
Found at i:112840424 original size:20 final size:20
Alignment explanation
Indices: 112840393--112840444 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
112840383 ATTATTCTGT
112840393 TATATT-TATATTTTTATTA
1 TATATTATATATTTTTATTA
*
112840412 TATGTTATATATTTTTATTA
1 TATATTATATATTTTTATTA
*
112840432 TATATTATTTATT
1 TATATTATATATT
112840445 CTACTATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 5 0.17
20 24 0.83
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (20 bp):
TATATTATATATTTTTATTA
Found at i:112840458 original size:16 final size:14
Alignment explanation
Indices: 112840416--112840459 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 14
112840406 TTATTATATG
112840416 TTATATATTTTTA-
1 TTATATATTTTTAT
112840429 TTATATATTATTTAT
1 TTATATATT-TTTAT
112840444 TCTACTATATTTTTAT
1 T-TA-TATATTTTTAT
112840460 ATGTAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.33
14 4 0.15
15 1 0.04
16 7 0.26
17 6 0.22
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATATATTTTTAT
Found at i:112841969 original size:51 final size:51
Alignment explanation
Indices: 112841769--112842019 Score: 222
Period size: 51 Copynumber: 5.0 Consensus size: 51
112841759 CACTTGTAGC
* * * * * *
112841769 CGAAGCTATCTGGTACGCATAGTAGCCTGAACTTAG-AACTACACATGCGA-
1 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTAA-AACACACGTGAT
* * * ** *
112841819 CCAA-TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGAC
1 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTAAAACACACGTGAT
* ** * * * * **
112841869 CTAA-CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGAT
1 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTAAAACACACGTGAT
* * *
112841919 CGAAGTTATCAGGTATGCATAGTGGCCTGCACTTAGTAAAACACATGTGAT
1 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTAAAACACACGTGAT
* **
112841970 CGAAGTTATTAGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGA
1 CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTAAAACACACGTGA
112842020 CCTCACAATA
Statistics
Matches: 165, Mismatches: 33, Indels: 5
0.81 0.16 0.02
Matches are distributed among these distances:
49 36 0.22
50 50 0.30
51 79 0.48
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (51 bp):
CGAAGTTATCAGGTACGCATAGTAGCCTGCACTTAGTAAAACACACGTGAT
Found at i:112843608 original size:17 final size:17
Alignment explanation
Indices: 112843566--112843618 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
112843556 ACTATATTTC
112843566 ATTATATTTTATCTAC--
1 ATTATATTTTAT-TACAT
112843582 A-TAT-TTTTATTACAT
1 ATTATATTTTATTACAT
*
112843597 ATTATATTTTATTATAT
1 ATTATATTTTATTACAT
112843614 ATTAT
1 ATTAT
112843619 TCATTATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.09
14 6 0.19
15 4 0.12
16 4 0.12
17 15 0.47
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATATTTTATTACAT
Found at i:112843609 original size:10 final size:10
Alignment explanation
Indices: 112843596--112843732 Score: 65
Period size: 10 Copynumber: 13.6 Consensus size: 10
112843586 TTTTATTACA
*
112843596 TATTATATTT
1 TATTATATAT
112843606 TATTATATAT
1 TATTATATAT
*
112843616 TATTCATTATAA
1 TATT-A-TATAT
* *
112843628 TATCTTTCT-T
1 TAT-TATATAT
*
112843638 TCTTATATA-
1 TATTATATAT
112843647 TA-TATATA-
1 TATTATATAT
112843655 TATATATATAT
1 TAT-TATATAT
* *
112843666 TATATACATTT
1 TAT-TATATAT
112843677 TATTATATA-
1 TATTATATAT
112843686 TATGTATATAT
1 TAT-TATATAT
112843697 TATTTATTATAT
1 TA-TTA-TATAT
*
112843709 GATT-TATA-
1 TATTATATAT
112843717 TATTTATATAT
1 TA-TTATATAT
112843728 T-TTAT
1 TATTAT
112843733 TTGTAAATTA
Statistics
Matches: 98, Mismatches: 15, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
8 9 0.09
9 17 0.17
10 35 0.36
11 22 0.22
12 14 0.14
13 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (10 bp):
TATTATATAT
Found at i:112843648 original size:2 final size:2
Alignment explanation
Indices: 112843641--112843727 Score: 76
Period size: 2 Copynumber: 45.5 Consensus size: 2
112843631 CTTTCTTTCT
* *
112843641 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA CA T- TT TA T-
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
112843680 TA TA TA TA TG TA TA TA T- TA TT TA T- TA TA TGA TT TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA
112843721 TA TA TA T
1 TA TA TA T
112843728 TTTATTTGTA
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
1 5 0.07
2 61 0.90
3 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (2 bp):
TA
Found at i:112843684 original size:29 final size:28
Alignment explanation
Indices: 112843651--112843733 Score: 86
Period size: 29 Copynumber: 3.0 Consensus size: 28
112843641 TATATATATA
112843651 TATATATATATATATTATATACATTTTAT
1 TATATATATATATATTATATA-ATTTTAT
*
112843680 TATATATATGTATA-TAT-T-A-TTTAT
1 TATATATATATATATTATATAATTTTAT
*
112843704 TATATGATTTATATATT-TATATATTTTAT
1 TATAT-ATATATATATTATATA-ATTTTAT
112843733 T
1 T
112843734 TGTAAATTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
24 10 0.22
25 9 0.20
26 2 0.04
27 1 0.02
28 4 0.09
29 19 0.42
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (28 bp):
TATATATATATATATTATATAATTTTAT
Found at i:112843717 original size:31 final size:29
Alignment explanation
Indices: 112843641--112843728 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 29
112843631 CTTTCTTTCT
*
112843641 TATATATATATATATATATATATATTATA
1 TATATATATTTATATATATATATATTATA
* * * *
112843670 TACATTTTATTATATATATGTATATATTATT
1 TATA-TATATT-TATATATATATATATTATA
*
112843701 TATTATATGATTTATATATTTATATATT
1 TA-TATAT-ATTTATATATATATATATT
112843729 TTATTTGTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
29 3 0.06
30 4 0.09
31 36 0.77
32 4 0.09
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (29 bp):
TATATATATTTATATATATATATATTATA
Found at i:112855903 original size:78 final size:78
Alignment explanation
Indices: 112855759--112856542 Score: 1203
Period size: 78 Copynumber: 10.1 Consensus size: 78
112855749 GTAACAGGCT
* * * *
112855759 AAGACATAGCAGATTTGACCTTCATTAAAGCAGATCCAAAATGATTTGGCGTCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
112855824 GGGGAGCAGATCG
66 GGGGAGCAGATCG
* * * * ** *
112855837 AAGACACAGCAGATCTAACCTTTATTGAAGCAGATCCAAGATAATTTGGCATCTCCATATTCGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
112855902 GGGGAGCAGATCG
66 GGGGAGCAGATCG
* **
112855915 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCTAAGATGATTTGGCATCTCCATATTCA-A
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATT-AGA
*
112855979 CGGAGAGCAGATCG
65 CGGGGAGCAGATCG
* * * *
112855993 AAGACATAGCAGCTCTGACCTTTATTGAAGTAGATCCAAGATTATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
112856058 GGAGAGCAGATCG
66 GGGGAGCAGATCG
* ** *
112856071 AAGAAATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCAATATTCGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
112856136 GGAGAGCAGATCG
66 GGGGAGCAGATCG
*
112856149 AAGACATAGCAGATCTGACCTTCATTGAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
112856214 GGGGAGCAGATCG
66 GGGGAGCAGATCG
* *
112856227 AAGACATAGCAGATCTGACCTTCATTAAAGTAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
112856292 GGGGAGTAGATCG
66 GGGGAGCAGATCG
112856305 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
112856370 AGGGAGCAGATCG
66 GGGGAGCAGATCG
** *
112856383 AAGACATAGCAGATCTGACCTTTTTTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAT
1 AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
*
112856448 GGGGAGCAGATCA
66 GGGGAGCAGATCG
* *
112856461 AAGACATAACAGAT-TAGACCTTCATTAAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGA
1 AAGACATAGCAGATCT-GACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGA
*
112856525 CGGGGAGCAGATCA
65 CGGGGAGCAGATCG
112856539 AAGA
1 AAGA
112856543 TAGTAGATAT
Statistics
Matches: 648, Mismatches: 55, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
77 2 0.00
78 646 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (78 bp):
AAGACATAGCAGATCTGACCTTCATTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTAGAC
GGGGAGCAGATCG
Found at i:112858158 original size:20 final size:20
Alignment explanation
Indices: 112858111--112858158 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
112858101 ATTCTGTTAT
* *
112858111 ATTTATATTTTATTATATGTT
1 ATTTAT-TTTTATTATATATC
*
112858132 ATATATTTTTATTATATATC
1 ATTTATTTTTATTATATATC
112858152 ATTTATT
1 ATTTATT
112858159 CTACTATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (20 bp):
ATTTATTTTTATTATATATC
Found at i:112858274 original size:17 final size:17
Alignment explanation
Indices: 112858232--112858284 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
112858222 ACTATATTTC
112858232 ATTATATTTTATCTAC--
1 ATTATATTTTAT-TACAT
112858248 A-TAT-TTTTATTACAT
1 ATTATATTTTATTACAT
*
112858263 ATTATATTTTATTATAT
1 ATTATATTTTATTACAT
112858280 ATTAT
1 ATTAT
112858285 TCATTATAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
13 3 0.09
14 6 0.19
15 4 0.12
16 4 0.12
17 15 0.47
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATATTTTATTACAT
Found at i:112858338 original size:23 final size:23
Alignment explanation
Indices: 112858308--112858370 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
112858298 TTTCTTTCTT
112858308 TTATATATATTATATACAT-TTTA
1 TTATATATATTATATA-ATATTTA
*
112858331 TTATATATATTTATATATTATTTA
1 TTATATATA-TTATATAATATTTA
112858355 TTATATGAT-TTATATA
1 TTATAT-ATATTATATA
112858371 TTTATATATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
23 17 0.47
24 17 0.47
25 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
TTATATATATTATATAATATTTA
Found at i:112858349 original size:31 final size:31
Alignment explanation
Indices: 112858311--112858380 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
112858301 CTTTCTTTTA
* *
112858311 TATATATTATATA-CATTTTATTATATATATT
1 TATATATTATATATCATATGATT-TATATATT
* *
112858342 TATATATTATTTATTATATGATTTATATATT
1 TATATATTATATATCATATGATTTATATATT
112858373 TATATATT
1 TATATATT
112858381 TTATTTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 28 0.82
32 6 0.18
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (31 bp):
TATATATTATATATCATATGATTTATATATT
Found at i:112858380 original size:24 final size:22
Alignment explanation
Indices: 112858311--112858380 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 22
112858301 CTTTCTTTTA
*
112858311 TATATATTATATACATTTTATTA-
1 TATATATT-TATATA-TTTATTAT
112858334 TATATATTTATATA-TTATTTAT
1 TATATATTTATATATTTA-TTAT
112858356 TATATGATTTATATATTTATATAT
1 TATAT-ATTTATATATTTAT-TAT
112858380 T
1 T
112858381 TTATTTGTAA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 3 0.07
21 3 0.07
22 10 0.24
23 18 0.44
24 7 0.17
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (22 bp):
TATATATTTATATATTTATTAT
Found at i:112858401 original size:33 final size:33
Alignment explanation
Indices: 112858334--112858417 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 33
112858324 CATTTTATTA
* *
112858334 TATATATTTATATA--TTATTTATTATATGATT
1 TATATATTTATATATTTTATTTAGTAAATGATT
*
112858365 TATATATTTATATATTTTATTT-GTAAATTATGT
1 TATATATTTATATATTTTATTTAGTAAATGAT-T
* *
112858398 TATACACTATATATATTTTA
1 TATATA-TTTATATATTTTA
112858418 CCATATTTCC
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
31 14 0.32
32 6 0.14
33 12 0.27
34 12 0.27
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (33 bp):
TATATATTTATATATTTTATTTAGTAAATGATT
Found at i:112860893 original size:23 final size:23
Alignment explanation
Indices: 112860863--112860914 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
112860853 AGACTCACCA
**
112860863 CAGCTCGTATGAGCTTACTAATT
1 CAGCTCGTAAAAGCTTACTAATT
*
112860886 CAGCTCGTAAAAGCTTACTATTT
1 CAGCTCGTAAAAGCTTACTAATT
112860909 CAGCTC
1 CAGCTC
112860915 ATTGCAACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (23 bp):
CAGCTCGTAAAAGCTTACTAATT
Found at i:112860968 original size:22 final size:22
Alignment explanation
Indices: 112860943--112860999 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 22
112860933 AGCTAAAAAA
112860943 AGCTTACTGTTCAACTCAATAG
1 AGCTTACTGTTCAACTCAATAG
*
112860965 AGCTTACCGTTTTCAACTCAATAG
1 AGCTTA-C-TGTTCAACTCAATAG
*
112860989 AGCATACTGTT
1 AGCTTACTGTT
112861000 TATTGGCTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
22 9 0.30
23 2 0.07
24 19 0.63
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (22 bp):
AGCTTACTGTTCAACTCAATAG
Found at i:112860982 original size:24 final size:24
Alignment explanation
Indices: 112860952--112861000 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
112860942 AAGCTTACTG
*
112860952 TTCAACTCAATAGAGCTTACCGTT
1 TTCAACTCAATAGAGCATACCGTT
*
112860976 TTCAACTCAATAGAGCATACTGTT
1 TTCAACTCAATAGAGCATACCGTT
112861000 T
1 T
112861001 ATTGGCTCAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (24 bp):
TTCAACTCAATAGAGCATACCGTT
Found at i:112871451 original size:24 final size:24
Alignment explanation
Indices: 112871424--112871470 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
112871414 GGAACTATTT
112871424 AGCTCAATAGAGCTTACCGTTTTC
1 AGCTCAATAGAGCTTACCGTTTTC
*
112871448 AGCTCAATAGAGCTTACCTTTTT
1 AGCTCAATAGAGCTTACCGTTTT
112871471 TTGGCTCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (24 bp):
AGCTCAATAGAGCTTACCGTTTTC
Found at i:112878448 original size:41 final size:42
Alignment explanation
Indices: 112878316--112878480 Score: 201
Period size: 42 Copynumber: 4.0 Consensus size: 42
112878306 CAGTGATATA
* * *
112878316 ATATCAAGCTTATTACCTAGTAGGCTTTGATGCCGGTGCATG
1 ATATCAGGCTTATTACCTAGCAGGCTTTGATGCCGGTGTATG
* *
112878358 ATATCAGGCTTATTGCCTAGTAGGCTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTACCTAGCAGGCTTTGATGCCGGTGTATG
* *
112878400 ATATCAGGCTTAATACCTAGCAGGCTTT-ATGCCGGTGTATT
1 ATATCAGGCTTATTACCTAGCAGGCTTTGATGCCGGTGTATG
* * * *
112878441 A-ACTCAGGTTTATTGCCTAGCAGGCTCTG-TGCCGATGTAT
1 ATA-TCAGGCTTATTACCTAGCAGGCTTTGATGCCGGTGTAT
112878481 TATACTAGGC
Statistics
Matches: 109, Mismatches: 12, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
40 1 0.01
41 44 0.40
42 64 0.59
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (42 bp):
ATATCAGGCTTATTACCTAGCAGGCTTTGATGCCGGTGTATG
Found at i:112878466 original size:83 final size:83
Alignment explanation
Indices: 112878316--112878480 Score: 217
Period size: 83 Copynumber: 2.0 Consensus size: 83
112878306 CAGTGATATA
* * *
112878316 ATATCAAGCTTATTACCTAGTAGGCTTTGATGCCGGTGCATGATATCAGGCTTATTGCCTAGTAG
1 ATATCAAGCTTAATACCTAGCAGGCTTTGATGCCGGTGCATGATATCAGGCTTATTGCCTAGCAG
* *
112878381 GCTTTGATGCCGGTGTATG
66 GCTCTG-TGCCGATGTATG
* * * *
112878400 ATATCAGGCTTAATACCTAGCAGGCTTT-ATGCCGGTGTATTA-ACTCAGGTTTATTGCCTAGCA
1 ATATCAAGCTTAATACCTAGCAGGCTTTGATGCCGGTGCATGATA-TCAGGCTTATTGCCTAGCA
112878463 GGCTCTGTGCCGATGTAT
65 GGCTCTGTGCCGATGTAT
112878481 TATACTAGGC
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
82 11 0.15
83 35 0.49
84 25 0.35
ACGTcount: A:0.22, C:0.19, G:0.25, T:0.34
Consensus pattern (83 bp):
ATATCAAGCTTAATACCTAGCAGGCTTTGATGCCGGTGCATGATATCAGGCTTATTGCCTAGCAG
GCTCTGTGCCGATGTATG
Found at i:112878481 original size:41 final size:42
Alignment explanation
Indices: 112878323--112878500 Score: 186
Period size: 42 Copynumber: 4.3 Consensus size: 42
112878313 ATAATATCAA
* * * *
112878323 GCTTATTACCTAGTAGGCTTTGATGCCGGTGCATGATA-TCAG
1 GCTTATTGCCTAGCAGGCTTTG-TGCCGGTGTATTATACTCAG
* *
112878365 GCTTATTGCCTAGTAGGCTTTGATGCCGGTGTATGATA-TCAG
1 GCTTATTGCCTAGCAGGCTTTG-TGCCGGTGTATTATACTCAG
* * *
112878407 GCTTAATACCTAGCAGGCTTTATGCCGGTGTATTA-ACTCAG
1 GCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATACTCAG
* * *
112878448 GTTTATTGCCTAGCAGGCTCTGTGCCGATGTATTATACT-AG
1 GCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATACTCAG
112878489 GCTT-TATGCCTA
1 GCTTAT-TGCCTA
112878501 ACAAATTTTA
Statistics
Matches: 119, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.02
41 56 0.47
42 61 0.51
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.35
Consensus pattern (42 bp):
GCTTATTGCCTAGCAGGCTTTGTGCCGGTGTATTATACTCAG
Found at i:112895100 original size:37 final size:37
Alignment explanation
Indices: 112895050--112895124 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
112895040 TGAAATATAG
112895050 AACTAAAGATGAAATGAATAGATAATTTCATTAACTA
1 AACTAAAGATGAAATGAATAGATAATTTCATTAACTA
112895087 AACTAAAGATGAAATGAATAGATAATTTCATTAACTA
1 AACTAAAGATGAAATGAATAGATAATTTCATTAACTA
112895124 A
1 A
112895125 CAAAGCAGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (37 bp):
AACTAAAGATGAAATGAATAGATAATTTCATTAACTA
Found at i:112904779 original size:24 final size:25
Alignment explanation
Indices: 112904752--112904801 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
112904742 TAGAAGTTTT
112904752 AACA-AATATAATAAT-AGAAAAAAG
1 AACACAATA-AATAATAAGAAAAAAG
* *
112904776 AACACAATACATAATAAGTAAAAAG
1 AACACAATAAATAATAAGAAAAAAG
112904801 A
1 A
112904802 GATGAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (25 bp):
AACACAATAAATAATAAGAAAAAAG
Found at i:112914590 original size:10 final size:10
Alignment explanation
Indices: 112914575--112914607 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
112914565 TAAATACATT
112914575 TAATTAAAGA
1 TAATTAAAGA
112914585 TAATTAAAGA
1 TAATTAAAGA
112914595 TAATTAAA-A
1 TAATTAAAGA
112914604 TAAT
1 TAAT
112914608 ATCTTAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 5 0.22
10 18 0.78
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:112914632 original size:27 final size:27
Alignment explanation
Indices: 112914602--112914659 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
112914592 AGATAATTAA
112914602 AATAA-TATCTTAAAATTAAATAATCCT
1 AATAATTATCTTAAAATTAAAT-ATCCT
* *
112914629 AATAATTATCTTAATATTAACTATCCT
1 AATAATTATCTTAAAATTAAATATCCT
112914656 AATA
1 AATA
112914660 TAAATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (27 bp):
AATAATTATCTTAAAATTAAATATCCT
Found at i:112915755 original size:25 final size:24
Alignment explanation
Indices: 112915727--112915791 Score: 58
Period size: 25 Copynumber: 2.6 Consensus size: 24
112915717 CTGATACTTG
*
112915727 GCTCTCATGAGCTTCCCATTATTT
1 GCTCTCATGAGCTTCCCATTATAT
* * * *
112915751 AGCTCTTATAAGCATCCTATTATAT
1 -GCTCTCATGAGCTTCCCATTATAT
*
112915776 GACTCTCTTGAGCTTC
1 G-CTCTCATGAGCTTC
112915792 TTGATTTATA
Statistics
Matches: 30, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (24 bp):
GCTCTCATGAGCTTCCCATTATAT
Found at i:112915832 original size:50 final size:50
Alignment explanation
Indices: 112915707--112915833 Score: 123
Period size: 50 Copynumber: 2.5 Consensus size: 50
112915697 CCACTACTCT
* * * *
112915707 TATGAGCGTCCTGATACTTGGCTCTCATGAGCTTCCCATTATTTAGCTCT
1 TATGAGCATCCTGATAATTGGCTCTCATGAGCTTCCCATTATATAGCTCG
* * * * **
112915757 TATAAGCATCCT-ATTATATGACTCTCTTGAGCTTCTTGATT-TATAGCTCG
1 TATGAGCATCCTGATAAT-TGGCTCTCATGAGCTTC-CCATTATATAGCTCG
*
112915807 TATGAGCTTCCTGATAATTGGCTCTCA
1 TATGAGCATCCTGATAATTGGCTCTCA
112915834 AAAGCTTCAC
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
49 3 0.05
50 49 0.83
51 7 0.12
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.39
Consensus pattern (50 bp):
TATGAGCATCCTGATAATTGGCTCTCATGAGCTTCCCATTATATAGCTCG
Found at i:112916058 original size:17 final size:19
Alignment explanation
Indices: 112916020--112916058 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
112916010 GCATTCTGGA
*
112916020 ATATGAATTGACAGATATT
1 ATATAAATTGACAGATATT
112916039 ATATAAATTGAC-GA-ATT
1 ATATAAATTGACAGATATT
112916056 ATA
1 ATA
112916059 CTTTTGTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 11 0.58
ACGTcount: A:0.46, C:0.05, G:0.13, T:0.36
Consensus pattern (19 bp):
ATATAAATTGACAGATATT
Found at i:112916824 original size:26 final size:26
Alignment explanation
Indices: 112916788--112916842 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
112916778 TTTGTTAAGC
112916788 ATGGATACTTGGTCATATATGATGAT
1 ATGGATACTTGGTCATATATGATGAT
112916814 ATGGATACTTGGTCATATATGATGAT
1 ATGGATACTTGGTCATATATGATGAT
112916840 ATG
1 ATG
112916843 TCATGTATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (26 bp):
ATGGATACTTGGTCATATATGATGAT
Found at i:112918255 original size:36 final size:38
Alignment explanation
Indices: 112918214--112918292 Score: 126
Period size: 36 Copynumber: 2.1 Consensus size: 38
112918204 AATCTTTAAG
112918214 GATATGCAATCTTAGATATG-ATGCAATCTT-AGATAT
1 GATATGCAATCTTAGATATGAATGCAATCTTAAGATAT
112918250 GATATGCAATCTTAGATATGATATGCAATCTTGAAGATAT
1 GATATGCAATCTTAGATATGA-ATGCAATCTT-AAGATAT
112918290 GAT
1 GAT
112918293 CTTGTAATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 20 0.51
38 10 0.26
40 9 0.23
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGAATGCAATCTTAAGATAT
Found at i:112918258 original size:19 final size:19
Alignment explanation
Indices: 112918214--112918292 Score: 126
Period size: 19 Copynumber: 4.2 Consensus size: 19
112918204 AATCTTTAAG
112918214 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112918233 G--ATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112918250 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
112918269 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
112918290 GAT
1 GAT
112918293 CTTGTAATCT
Statistics
Matches: 56, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.30
19 30 0.54
21 9 0.16
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:112928696 original size:40 final size:40
Alignment explanation
Indices: 112928640--112928727 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
112928630 AACGTCGCTA
**
112928640 TAAAAAATGCCACTATAGATCAAGTATTAGCAGCGCTTTT
1 TAAAAAATGCCACTATAGATCAACCATTAGCAGCGCTTTT
* * * * *
112928680 TTAAAAGTGCCACTATAGGTCGACCATTAGCGGCGCTTTT
1 TAAAAAATGCCACTATAGATCAACCATTAGCAGCGCTTTT
112928720 TAAAAAAT
1 TAAAAAAT
112928728 TCTGCAAAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (40 bp):
TAAAAAATGCCACTATAGATCAACCATTAGCAGCGCTTTT
Found at i:112932258 original size:19 final size:19
Alignment explanation
Indices: 112932234--112932273 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
112932224 TTAAATACAT
112932234 AACCAAAATTCAACATTTC
1 AACCAAAATTCAACATTTC
112932253 AACCAAAATTCAACATTTC
1 AACCAAAATTCAACATTTC
112932272 AA
1 AA
112932274 AAGTATGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (19 bp):
AACCAAAATTCAACATTTC
Found at i:112937685 original size:48 final size:48
Alignment explanation
Indices: 112937469--112937741 Score: 224
Period size: 48 Copynumber: 5.7 Consensus size: 48
112937459 TAGGGTGTAA
* * * *
112937469 TACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAG
1 TACCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAT-ACG
* * * *
112937518 T--CGATGCCATGTCCCAGACATGGTCGTACACTGAC-TATCGAAATCG
1 TACCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATA-CG
* * * * * *
112937564 -AGGCCAATACCATGTCCCAGACATGGTCTTACACTAGCTCTCA-CATATCCA
1 TA--CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATC-TATACG
* * * *
112937615 TACTGATGCCATGTCCTAGACATGGTCTTACACTAACACCTCTATACG
1 TACCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACG
*
112937663 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC--T-CG
1 TACCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACG
*
112937708 TACTCGATG-CATATCCCAGACAT-GTCTTACACTG
1 TAC-CGATGCCATGTCCCAGACATGGTCTTACACTG
112937742 GCTTACATCT
Statistics
Matches: 180, Mismatches: 32, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
44 11 0.06
45 18 0.10
46 11 0.06
47 32 0.18
48 43 0.24
49 30 0.17
50 29 0.16
51 3 0.02
52 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (48 bp):
TACCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTATACG
Found at i:112937797 original size:46 final size:46
Alignment explanation
Indices: 112937664--112937882 Score: 162
Period size: 46 Copynumber: 4.7 Consensus size: 46
112937654 CTCTATACGT
* * *
112937664 GCCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTA-
1 GCCGATG-CATATCCCAGACAT-GTCTTACACTAGTTCTCATCTCG-AG
* *
112937710 -CTCGATGCATATCCCAGACATGTCTTACACTGGCTT-ACATCTCGAG
1 GC-CGATGCATATCCCAGACATGTCTTACACTAG-TTCTCATCTCGAG
* * *
112937756 GCCGATGCATATCCCAGACACGTCTTACACTAGTTCTCATCTCAAT
1 GCCGATGCATATCCCAGACATGTCTTACACTAGTTCTCATCTCGAG
* * * * * * *
112937802 GCAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATG-CATATCCCAGACAT-GTCTTACACTAGTTCTCAT-CTCGAG
* * *
112937850 GCTGATGCATGTCCCAGACATGTATTACACTAG
1 GCCGATGCATATCCCAGACATGTCTTACACTAG
112937883 CGCACAAATG
Statistics
Matches: 142, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
44 10 0.07
45 18 0.13
46 65 0.46
47 25 0.18
48 23 0.16
49 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATATCCCAGACATGTCTTACACTAGTTCTCATCTCGAG
Found at i:112937842 original size:48 final size:47
Alignment explanation
Indices: 112937472--112937843 Score: 241
Period size: 46 Copynumber: 7.9 Consensus size: 47
112937462 GGTGTAATAC
112937472 CGATGCCATGTCCCAGACATGGTCTTACACTGG--CTCATCCATCAA-G
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-C-TCAATG
* * * ** * *
112937518 TCGATGCCATGTCCCAGACATGGTCGTACACTGACTATCGAAATCGAGG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATCTCAATG
* * * * * *
112937567 CCAATACCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCATA
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATCTCAATG
* ** *
112937617 CTGATGCCATGTCCTAGACATGGTCTTACACTAACAC-C-TCT-ATACGTG
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCA-A--TG
* * *
112937665 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTACT-
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTC--AATG
* * *
112937712 CGATG-CATATCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCTCAATG
* * * *
112937757 CCGATG-CATATCCCAGACA-CGTCTTACACTAGTTCTCATCTCAATG
1 -CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
*
112937803 CAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCAT
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT
112937844 AATGTGGCTG
Statistics
Matches: 256, Mismatches: 43, Indels: 51
0.73 0.12 0.15
Matches are distributed among these distances:
44 10 0.04
45 15 0.06
46 58 0.23
47 45 0.18
48 54 0.21
49 36 0.14
50 36 0.14
51 2 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAATG
Found at i:112937857 original size:48 final size:47
Alignment explanation
Indices: 112937471--112937880 Score: 235
Period size: 47 Copynumber: 8.7 Consensus size: 47
112937461 GGGTGTAATA
112937471 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GT-
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTG
* * * *
112937519 -CGATGCCATGTCCCAGACATGGTCGTACACTGACTATCGA-AATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATAAT-G-TG
* * * * * *
112937567 CCAATACCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCATA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT--GTG
* * ** * *
112937617 CTGATGCCATGTCCTAGACATGGTCTTACACTAACACCTC-TATACGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATA-ATGTG
* * * *
112937665 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-T--CGTA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTG
* * *
112937710 CTCGATG-CATATCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGAGG
1 C-CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-G-TG
* * * *
112937757 CCGATG-CATATCCCAGACA-CGTCTTACACTAGTTCTCATCTCAA--TG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--T-AATGTG
* *
112937803 CAGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-G
* *
112937851 CTGATG-CATGTCCCAGACAT-GTATTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
112937881 AGCGCACAAA
Statistics
Matches: 287, Mismatches: 47, Indels: 58
0.73 0.12 0.15
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 15 0.05
45 20 0.07
46 57 0.20
47 61 0.21
48 60 0.21
49 33 0.11
50 35 0.12
51 4 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:112939677 original size:43 final size:43
Alignment explanation
Indices: 112939629--112939954 Score: 431
Period size: 43 Copynumber: 7.6 Consensus size: 43
112939619 AAATATTTTT
* *
112939629 TAAAGGTCATATTCTTTATCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
112939672 TAAAGGTC-TGTTCTATAGCGGTGTTCGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
112939714 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAAACGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGG-AAAAGCGCCGC
* *
112939758 TAAAGGTCATGTTCTTTAGTGGCATTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* *
112939801 TAAAGGTCATGTTCTTTAGCGGTGTTTCTGGGAAAAGCGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
112939844 TAAAGGTCATTTTCTTTAACGGCGTTTGTGGGAAAAGTGCCGC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * * * * *
112939887 TAAATGCCATGTTCTTTAGCAGCGTTTGTCGTAAAA-CTGCCAC
1 TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGC-GCCGC
*
112939930 TAAAGGTCATGTTCTATAGCGGCGT
1 TAAAGGTCATGTTCTTTAGCGGCGT
112939955 GCAAAATATT
Statistics
Matches: 246, Mismatches: 34, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
42 37 0.15
43 170 0.69
44 39 0.16
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:112944277 original size:25 final size:24
Alignment explanation
Indices: 112944255--112944305 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
112944245 TTTGATTAAG
112944255 ACTTAAT-TAATTTAATTTAATTA
1 ACTTAATATAATTTAATTTAATTA
112944278 ACTTAATCATAATTTAA-TTAACTTA
1 ACTTAAT-ATAATTTAATTTAA-TTA
112944303 ACT
1 ACT
112944306 AGTTATTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 7 0.28
24 4 0.16
25 14 0.56
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (24 bp):
ACTTAATATAATTTAATTTAATTA
Found at i:112962512 original size:23 final size:24
Alignment explanation
Indices: 112962476--112962541 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
112962466 TATATATATA
* *
112962476 TATATATAAGAAAAATAAT-AA-G
1 TATATAGAATAAAAATAATCAACG
112962498 TAATATAGAATAAAAATAATCAACG
1 T-ATATAGAATAAAAATAATCAACG
112962523 T-TATAGAATAAAACATAAT
1 TATATAGAATAAAA-ATAAT
112962542 TTGAATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 1 0.03
23 28 0.74
24 7 0.18
25 2 0.05
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.27
Consensus pattern (24 bp):
TATATAGAATAAAAATAATCAACG
Found at i:112962682 original size:22 final size:20
Alignment explanation
Indices: 112962649--112962691 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
112962639 TAATACAAGT
112962649 AAAATATATTAATAATATATA
1 AAAATATATTAATAATA-ATA
*
112962670 AAAATAATGTTAATAATAATA
1 AAAAT-ATATTAATAATAATA
112962691 A
1 A
112962692 TAATTTGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAATATATTAATAATAATA
Found at i:112962727 original size:20 final size:19
Alignment explanation
Indices: 112962704--112962745 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
112962694 ATTTGTGAAA
112962704 AATAATATACGATAAATAAT
1 AATAATATACGATAAA-AAT
* *
112962724 AATAATGTATGATAAAAAT
1 AATAATATACGATAAAAAT
112962743 AAT
1 AAT
112962746 CTTATAGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 6 0.30
20 14 0.70
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (19 bp):
AATAATATACGATAAAAAT
Found at i:112964133 original size:14 final size:15
Alignment explanation
Indices: 112964116--112964149 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
112964106 TAGGACCTTG
112964116 TAATTTGGAC-TTTT
1 TAATTTGGACATTTT
112964130 TAA-TTGGACATTTT
1 TAATTTGGACATTTT
112964144 TAATTT
1 TAATTT
112964150 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.33
14 10 0.56
15 2 0.11
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (15 bp):
TAATTTGGACATTTT
Found at i:112967882 original size:2 final size:2
Alignment explanation
Indices: 112967875--112967910 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
112967865 AACTAATAAT
112967875 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
112967911 GAGTTTAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112968290 original size:13 final size:14
Alignment explanation
Indices: 112968267--112968296 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
112968257 ATAAAAATAA
112968267 ATATCAATATATAT
1 ATATCAATATATAT
112968281 ATAT-AATATATAT
1 ATATCAATATATAT
112968294 ATA
1 ATA
112968297 GAACAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATCAATATATAT
Found at i:112974150 original size:13 final size:14
Alignment explanation
Indices: 112974131--112974174 Score: 65
Period size: 13 Copynumber: 3.2 Consensus size: 14
112974121 CGGGTAAACA
112974131 ATTAATTTAATTAT
1 ATTAATTTAATTAT
112974145 -TTAATTTAATTTAT
1 ATTAATTTAA-TTAT
112974159 ATT-ATTTAATTAT
1 ATTAATTTAATTAT
112974172 ATT
1 ATT
112974175 GTACATTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 16 0.57
14 10 0.36
15 2 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTAATTTAATTAT
Found at i:112974164 original size:19 final size:18
Alignment explanation
Indices: 112974132--112974169 Score: 67
Period size: 19 Copynumber: 2.1 Consensus size: 18
112974122 GGGTAAACAA
112974132 TTAATTTAATTATTTAAT
1 TTAATTTAATTATTTAAT
112974150 TTAATTTATATTATTTAAT
1 TTAATTTA-ATTATTTAAT
112974169 T
1 T
112974170 ATATTGTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTAATTTAATTATTTAAT
Found at i:112975124 original size:18 final size:18
Alignment explanation
Indices: 112975092--112975130 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
112975082 ACCTCTCATG
* *
112975092 TATCCTCCTCCTCAAATA
1 TATCCTCCACATCAAATA
*
112975110 TATCCTCCACATCAATTA
1 TATCCTCCACATCAAATA
112975128 TAT
1 TAT
112975131 GAAAACCAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (18 bp):
TATCCTCCACATCAAATA
Found at i:112977844 original size:18 final size:17
Alignment explanation
Indices: 112977821--112977861 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
112977811 TATAGTTCTA
*
112977821 TATCTTAATGAACAGTTG
1 TATCTT-ATGAACAATTG
*
112977839 TATCTTTTGAACAATTG
1 TATCTTATGAACAATTG
112977856 TATCTT
1 TATCTT
112977862 TTGGTGAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (17 bp):
TATCTTATGAACAATTG
Found at i:112977871 original size:20 final size:17
Alignment explanation
Indices: 112977829--112977864 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
112977819 TATATCTTAA
*
112977829 TGAACAGTTGTATCTTT
1 TGAACAATTGTATCTTT
112977846 TGAACAATTGTATCTTT
1 TGAACAATTGTATCTTT
112977863 TG
1 TG
112977865 GTGAACAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.11, G:0.17, T:0.47
Consensus pattern (17 bp):
TGAACAATTGTATCTTT
Found at i:112981515 original size:22 final size:23
Alignment explanation
Indices: 112981467--112981516 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
112981457 AGGGGCCCTA
*
112981467 TAAAACTTTATCAAATGAAAAGC
1 TAAAACTTTATCAAAAGAAAAGC
*
112981490 TAAAAC-TTAT-AAAAGAAAGAGT
1 TAAAACTTTATCAAAAGAAA-AGC
112981512 TAAAA
1 TAAAA
112981517 TAAAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.29
22 11 0.46
23 6 0.25
ACGTcount: A:0.58, C:0.08, G:0.10, T:0.24
Consensus pattern (23 bp):
TAAAACTTTATCAAAAGAAAAGC
Found at i:112983934 original size:26 final size:26
Alignment explanation
Indices: 112983870--112983975 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 26
112983860 TGGTACAAAT
112983870 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
112983896 T-ATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112983921 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112983947 TGATAATGGGTTA-GTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112983972 TGAT
1 TGAT
112983976 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
25 39 0.52
26 36 0.48
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112983946 original size:51 final size:51
Alignment explanation
Indices: 112983870--112983975 Score: 178
Period size: 51 Copynumber: 2.1 Consensus size: 51
112983860 TGGTACAAAT
112983870 TGATAATGGGTTAGGTAAATGTTCCAT-ATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTA-GTAAATATTCCA
* *
112983921 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGTAAATATTCCA
112983972 TGAT
1 TGAT
112983976 GGGCATTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
51 42 0.81
52 10 0.19
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGTAAATATTCCA
Found at i:112985481 original size:25 final size:25
Alignment explanation
Indices: 112985453--112985503 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
112985443 TTTACAGTTT
112985453 TACCCTAGGAGATAAATT-ACCGAAA
1 TACCCTAGG-GATAAATTGACCGAAA
* *
112985478 TACCCTAGGGTTAAATTGACCTAAA
1 TACCCTAGGGATAAATTGACCGAAA
112985503 T
1 T
112985504 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (25 bp):
TACCCTAGGGATAAATTGACCGAAA
Found at i:112990875 original size:26 final size:26
Alignment explanation
Indices: 112990836--112990942 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
112990826 TGGTACAAAT
112990836 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
112990862 TTATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112990888 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
112990914 TGATAATGGGTTAGGTAAATGTT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
112990939 TGAT
1 TGAT
112990943 GGCATTTCAT
Statistics
Matches: 75, Mismatches: 6, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
25 6 0.08
26 69 0.92
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:112992213 original size:22 final size:22
Alignment explanation
Indices: 112992185--112992230 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
112992175 TTAAATACCA
112992185 AGCTCCCTTCGGATCCAATCCT
1 AGCTCCCTTCGGATCCAATCCT
112992207 AGCTCCCTTCGGATCCAATCCT
1 AGCTCCCTTCGGATCCAATCCT
112992229 AG
1 AG
112992231 ACATGCATAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.39, G:0.15, T:0.26
Consensus pattern (22 bp):
AGCTCCCTTCGGATCCAATCCT
Found at i:112993144 original size:25 final size:25
Alignment explanation
Indices: 112993107--112993157 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
112993097 TCAAACATGC
112993107 ATTTAGGTCAATTTAACCCTAGGGGT
1 ATTTAGGTCAATTT-ACCCTAGGGGT
* *
112993133 ATTTCGGT-AATTTATCCTAGGGGT
1 ATTTAGGTCAATTTACCCTAGGGGT
112993157 A
1 A
112993158 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 5 0.22
26 7 0.30
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (25 bp):
ATTTAGGTCAATTTACCCTAGGGGT
Found at i:112994679 original size:26 final size:26
Alignment explanation
Indices: 112994603--112994685 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
112994593 CATGAAATTC
*
112994603 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
112994629 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
112994655 TTATCATGGAACATTTACCTAACCT-
1 TTATCATGAAACATTTACCTAACCTA
112994680 TTATCA
1 TTATCA
112994686 ATTGTACCAT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
25 6 0.11
26 49 0.89
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:113005676 original size:32 final size:32
Alignment explanation
Indices: 113005639--113005731 Score: 168
Period size: 32 Copynumber: 2.9 Consensus size: 32
113005629 AATGCTTATC
113005639 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
* *
113005671 ATGCCCAGCATTCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
113005703 ATGCCCATCATCCATTAACTATTAAAATG
1 ATGCCCATCATCCATTAACTATTAAAATG
113005732 GTAAAATGCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.38, C:0.24, G:0.08, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:113009305 original size:19 final size:19
Alignment explanation
Indices: 113009269--113009305 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
113009259 TAATTAGGTT
* *
113009269 TTAATTAAGTGAATTTAGC
1 TTAATTAAGAGAAATTAGC
113009288 TTAATTAAGAGAAATTAG
1 TTAATTAAGAGAAATTAG
113009306 GAAAAAGGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.16, T:0.38
Consensus pattern (19 bp):
TTAATTAAGAGAAATTAGC
Found at i:113009644 original size:20 final size:19
Alignment explanation
Indices: 113009621--113009668 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
113009611 ATTAAATAGA
113009621 TATTTATTATATTATATTAT
1 TATTTATTAT-TTATATTAT
*
113009641 TATTAATTGATTTATATTAT
1 TATTTATT-ATTTATATTAT
113009661 TA-TTATTA
1 TATTTATTA
113009669 AATAAATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.04
19 4 0.16
20 18 0.72
21 2 0.08
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTATTATTTATATTAT
Found at i:113014912 original size:21 final size:23
Alignment explanation
Indices: 113014854--113014912 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
113014844 AATTTATATT
*
113014854 TATA-ATAAAATAA-TTATATAA
1 TATATATAAAATAAGTTATAGAA
113014875 TATATATAAATATAAGTT-TAGAA
1 TATATATAAA-ATAAGTTATAGAA
113014898 TA-ATATAAAATAAGT
1 TATATATAAAATAAGT
113014913 AATTAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (23 bp):
TATATATAAAATAAGTTATAGAA
Found at i:113015091 original size:18 final size:17
Alignment explanation
Indices: 113015051--113015121 Score: 60
Period size: 16 Copynumber: 4.2 Consensus size: 17
113015041 ACCTTTAATG
* *
113015051 ATAATAATATAT-AGAT
1 ATAAAAATATATAATAT
113015067 A-AAAAATATATAATAGT
1 ATAAAAATATATAATA-T
*
113015084 ATAAAAATAACATAATAT
1 ATAAAAAT-ATATAATAT
113015102 A-AAATAAT-TATAATAT
1 ATAAA-AATATATAATAT
113015118 ATAA
1 ATAA
113015122 TATGGAAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
15 9 0.20
16 11 0.24
17 7 0.16
18 11 0.24
19 7 0.16
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (17 bp):
ATAAAAATATATAATAT
Found at i:113015230 original size:58 final size:59
Alignment explanation
Indices: 113015068--113015293 Score: 151
Period size: 58 Copynumber: 3.7 Consensus size: 59
113015058 TATATAGATA
* * **
113015068 AAAAATAT-ATAATAGTATAAAAATAACATAATATAAAATAATTATAATATATAATATGGAAGT
1 AAAAATATAATAATAATATATAAAT-ACATAATATAAAATAA-TA-AATATAT--TATAAAAGT
* * * * * * *
113015131 ATATATGTAAAAATAATATATAATATATATAA-AT-AATTAATAAATATATTATACAAGT
1 AAAAATATAATAATAATATATAA-ATACATAATATAAAATAATAAATATATTATAAAAGT
* *
113015189 AAAAATATAATAATAATATATAAATA-ATAATGTAAAATAAT-AATAT-TTCGTGAAAAGT
1 AAAAATATAATAATAATATATAAATACATAATATAAAATAATAAATATATT-AT-AAAAGT
*
113015247 AATATATAATAATTAATAATAATATAAATA-ATATATAATAAAATAAT
1 AA-AAAT-ATAA-TAATAAT-ATATAAATACATA-AT-ATAAAATAAT
113015294 TATATAATAT
Statistics
Matches: 131, Mismatches: 20, Indels: 23
0.75 0.11 0.13
Matches are distributed among these distances:
56 6 0.05
57 10 0.08
58 39 0.30
59 3 0.02
60 11 0.08
61 9 0.07
62 17 0.13
63 9 0.07
64 25 0.19
65 2 0.02
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (59 bp):
AAAAATATAATAATAATATATAAATACATAATATAAAATAATAAATATATTATAAAAGT
Found at i:113015232 original size:30 final size:31
Alignment explanation
Indices: 113015195--113015317 Score: 101
Period size: 30 Copynumber: 3.9 Consensus size: 31
113015185 AAGTAAAAAT
*
113015195 ATAA-TAATAATATATAAATAATAATGTAAA
1 ATAATTAATAATATATAAATAATAATATAAA
* * * *
113015225 ATAA-TAAT-ATTTCGTGAAA-AGTAATATATA
1 ATAATTAATAATAT-AT-AAATAATAATATAAA
113015255 ATAATTAATAATAATATAAATAATATATAATAAA
1 ATAATTAATAAT-ATATAAATAATA-AT-ATAAA
*
113015289 ATAATTATATAATATATAATATAAAAATA
1 ATAATTA-ATAATATATAA-ATAATAATA
113015318 AGGTTAAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 17
0.73 0.10 0.17
Matches are distributed among these distances:
29 3 0.04
30 21 0.29
31 10 0.14
32 6 0.08
33 4 0.05
34 19 0.26
35 10 0.14
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (31 bp):
ATAATTAATAATATATAAATAATAATATAAA
Found at i:113015233 original size:19 final size:19
Alignment explanation
Indices: 113015211--113015293 Score: 50
Period size: 19 Copynumber: 4.3 Consensus size: 19
113015201 ATAATATATA
113015211 AATAATAATGTAAAATAAT
1 AATAATAATGTAAAATAAT
*
113015230 AAT-AT-TTCGTGAAAAGTAAT
1 AATAATAAT-GT-AAAA-TAAT
113015250 ATATAATAAT-TAATAATAAT
1 A-ATAATAATGTAA-AATAAT
* *
113015270 -ATAAATAATATATAATAA-
1 AAT-AATAATGTAAAATAAT
113015288 AATAAT
1 AATAAT
113015294 TATATAATAT
Statistics
Matches: 51, Mismatches: 3, Indels: 21
0.68 0.04 0.28
Matches are distributed among these distances:
17 1 0.02
18 9 0.18
19 20 0.39
20 13 0.25
21 5 0.10
22 2 0.04
23 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.35
Consensus pattern (19 bp):
AATAATAATGTAAAATAAT
Found at i:113015266 original size:3 final size:3
Alignment explanation
Indices: 113015246--113015367 Score: 65
Period size: 3 Copynumber: 39.7 Consensus size: 3
113015236 TCGTGAAAAG
113015246 TAA TATA TAA TAA TTAA TAA TAA T-A TAAA TAA TATA TAA TAA -AA TAA
1 TAA TA-A TAA TAA -TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA
* * *** * *
113015293 TTA T-A TAA TATA TAA T-A TAA AAA TAA GGT TAA AAA TAA -AA CAAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
*
113015337 TAA TAA TAA TAA TAA TTTA TATA TAA TAA TA
1 TAA TAA TAA TAA TAA -TAA TA-A TAA TAA TA
113015368 GAAATAAATA
Statistics
Matches: 92, Mismatches: 14, Indels: 26
0.70 0.11 0.20
Matches are distributed among these distances:
2 10 0.11
3 61 0.66
4 21 0.23
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:113015278 original size:12 final size:12
Alignment explanation
Indices: 113015252--113015374 Score: 73
Period size: 12 Copynumber: 10.3 Consensus size: 12
113015242 AAAGTAATAT
113015252 ATAATAAT-T-A
1 ATAATAATATAA
113015262 ATAATAATATAA
1 ATAATAATATAA
113015274 ATAAT-ATATAA
1 ATAATAATATAA
*
113015285 TAAAATAATTATATA
1 -ATAATAA-TATA-A
113015300 ATATATAATATAA
1 ATA-ATAATATAA
113015313 A-AATAAGGT-TAA
1 ATAATAA--TATAA
* *
113015325 A-AATAAAACAA
1 ATAATAATATAA
113015336 ATAATAATA-ATA
1 ATAATAATATA-A
* *
113015348 ATAAT-TTATAT
1 ATAATAATATAA
*
113015359 ATAATAATAGAA
1 ATAATAATATAA
113015371 ATAA
1 ATAA
113015375 ATATATAGGG
Statistics
Matches: 89, Mismatches: 10, Indels: 26
0.71 0.08 0.21
Matches are distributed among these distances:
10 8 0.09
11 22 0.25
12 40 0.45
13 4 0.04
14 10 0.11
15 5 0.06
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (12 bp):
ATAATAATATAA
Found at i:113015328 original size:102 final size:102
Alignment explanation
Indices: 113015139--113015330 Score: 222
Period size: 99 Copynumber: 1.9 Consensus size: 102
113015129 GTATATATGT
*
113015139 AAAAATAATATATAATATATATAAATAATTAATAAATATATTATACAAGTAAAAATATAATAATA
1 AAAAATAATATATAATATATATAAATAATTAATAAATATAATATACAAGTAAAAATATAATAATA
*
113015204 ATATATAAATAATAATGTAAAATAATAATATTTCGTG
66 ATATATAAATAATAAGGTAAAATAATAATATTTCGTG
* *
113015241 AAAAGTAATATATAATA-AT-T-AATAA-TAATATAA-ATAATATATAA-T-AAAATAATTATAT
1 AAAAATAATATATAATATATATAAATAATTAATA-AATATAATATACAAGTAAAAAT-A-TA-AT
*
113015299 AATATATAATATAAA-AATAAGGTTAAA-AATAA
62 AATA-AT-ATATAAATAATAAGGTAAAATAATAA
113015331 AACAAATAAT
Statistics
Matches: 79, Mismatches: 5, Indels: 15
0.80 0.05 0.15
Matches are distributed among these distances:
96 5 0.06
97 2 0.03
98 16 0.20
99 18 0.23
100 13 0.16
101 9 0.11
102 16 0.20
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (102 bp):
AAAAATAATATATAATATATATAAATAATTAATAAATATAATATACAAGTAAAAATATAATAATA
ATATATAAATAATAAGGTAAAATAATAATATTTCGTG
Found at i:113017338 original size:206 final size:206
Alignment explanation
Indices: 113016907--113017452 Score: 774
Period size: 206 Copynumber: 2.7 Consensus size: 206
113016897 AAATTTACTT
* *
113016907 CTTCGATTTGTT-TTCTGACAACACAGAGATGCCAAGTCATCTTAGATTTGCTTCATCGTAAGCA
1 CTTCGATTTGTTCTT-TGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCA
* * *
113016971 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGT-AA-GCATGGATACCAAACCATCT
65 CGTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
* * * * * ** * *
113017034 TGGATTTGCTTCAGTCTAATCATTTGAAGGTTAGATCTGCTATGTGTTTCCCCCCCGTCGAATAT
130 TGGATCTACTTCAGTATAAGCATCTGAAGGCCAGATCTGCTATGTATCTCCCCCCCGTCGAATAT
113017099 GGAGACGCCAAA
195 GGAGACGCCAAA
* * * * *
113017111 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAACCATCTTAGACTTGCTTCAGCGTAAGCAT
1 CTTCGATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* * * **
113017176 GCGAAAACCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAACACAAGGATGCCAAATTATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * * * *
113017241 GGATCTACTTCAGTATAAGGATCTGAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCGAATTTG
131 GGATCTACTTCAGTATAAGCATCTGAAGGCCAGATCTGCTATGTATCTCCCCCCCGTCGAATATG
113017306 GAGACGCCAAA
196 GAGACGCCAAA
*
113017317 CTTCGATTTGTTCTTTGACAATACAGAGATGCCAAATCATTTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
* *
113017382 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
113017447 GGATCT
131 GGATCT
113017453 TGCTTCAGCC
Statistics
Matches: 297, Mismatches: 42, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
204 93 0.31
205 3 0.01
206 201 0.68
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (206 bp):
CTTCGATTTGTTCTTTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTACTTCAGTATAAGCATCTGAAGGCCAGATCTGCTATGTATCTCCCCCCCGTCGAATATG
GAGACGCCAAA
Found at i:113025594 original size:15 final size:15
Alignment explanation
Indices: 113025563--113025593 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
113025553 ATTTTGATTC
113025563 AATTTCATTTAGAAA
1 AATTTCATTTAGAAA
113025578 AATTT-ATTTAGAAA
1 AATTTCATTTAGAAA
113025592 AA
1 AA
113025594 AAATATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (15 bp):
AATTTCATTTAGAAA
Found at i:113029377 original size:18 final size:19
Alignment explanation
Indices: 113029329--113029387 Score: 59
Period size: 18 Copynumber: 3.2 Consensus size: 19
113029319 ACAATATATA
* *
113029329 ATATATAATAACAAAAATT
1 ATATATAAGAATAAAAATT
* *
113029348 -TATAAAAGAATAATAATT
1 ATATATAAGAATAAAAATT
*
113029366 ATATATAA-AATAAAAAAT
1 ATATATAAGAATAAAAATT
113029384 ATAT
1 ATAT
113029388 TGGTTTAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
18 26 0.81
19 6 0.19
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
ATATATAAGAATAAAAATT
Found at i:113029670 original size:18 final size:17
Alignment explanation
Indices: 113029630--113029700 Score: 60
Period size: 16 Copynumber: 4.2 Consensus size: 17
113029620 ACCTTTAATG
* *
113029630 ATAATAATATAT-AGAT
1 ATAAAAATATATAATAT
113029646 A-AAAAATATATAATAGT
1 ATAAAAATATATAATA-T
*
113029663 ATAAAAATAACATAATAT
1 ATAAAAAT-ATATAATAT
113029681 A-AAATAAT-TATAATAT
1 ATAAA-AATATATAATAT
113029697 ATAA
1 ATAA
113029701 TATGAAAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
15 9 0.20
16 11 0.24
17 7 0.16
18 11 0.24
19 7 0.16
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.32
Consensus pattern (17 bp):
ATAAAAATATATAATAT
Found at i:113029781 original size:56 final size:55
Alignment explanation
Indices: 113029662--113029792 Score: 128
Period size: 56 Copynumber: 2.4 Consensus size: 55
113029652 TATATAATAG
* * *
113029662 TATAAAAAT-A-ACATAATATAAAATAATTATAATATATAATATGAAAGTATATA
1 TATAAAAATAAGATATAATATAAAATAATTATAATATATAATATGAAAGTAAAAA
* * *
113029715 TGTAAAAATAAGATATAATATATAAATATTTAATAA-ATATATTAT-ACAAGTAAAAA
1 TATAAAAATAAGATATAATATA-AAATAATT-ATAATATATAATATGA-AAGTAAAAA
* *
113029771 TATAATAATAATATATAA-ATAA
1 TATAAAAATAAGATATAATATAA
113029793 TAATGTAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 9
0.78 0.11 0.11
Matches are distributed among these distances:
53 8 0.12
54 2 0.03
55 13 0.20
56 37 0.58
57 4 0.06
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (55 bp):
TATAAAAATAAGATATAATATAAAATAATTATAATATATAATATGAAAGTAAAAA
Found at i:113029806 original size:30 final size:30
Alignment explanation
Indices: 113029648--113029894 Score: 82
Period size: 32 Copynumber: 8.0 Consensus size: 30
113029638 ATATAGATAA
* *
113029648 AAAATATATAATAGTATAAAAATAACATAATAT
1 AAAATA-ATAATAATATATAAAT-A-ATAATAT
* *
113029681 AAAATAATTATAATATATAATATGAA-AGTAT
1 AAAATAATAATAATATATAA-AT-AATAATAT
** * *
113029712 ATATGTAAAAATAAGATAT-AATATATAAATAT
1 A-AAATAATAATAATATATAAATA-AT-AATAT
** * * *
113029744 TTAATAA-ATATATTATACAAGTAA-AA-AT
1 AAAATAATA-ATAATATATAAATAATAATAT
* *
113029772 ATAATAATAAT---ATATAAATAATAATGT
1 AAAATAATAATAATATATAAATAATAATAT
* * *
113029799 AAAATAATAAT-ATTTCGTGAAA-AGTAATAT
1 AAAATAATAATAATAT-AT-AAATAATAATAT
*
113029829 ATAATAAATAATAATAATATAAATAATATATAAT
1 AAAAT-AATAATAAT-ATATAAATAATA-AT-AT
*
113029863 AAAATAATTATATAATATATAATATAAAAATA
1 AAAATAA-TA-ATAATATATAA-ATAATAATA
113029895 AGGTTAAAAA
Statistics
Matches: 157, Mismatches: 34, Indels: 46
0.66 0.14 0.19
Matches are distributed among these distances:
25 8 0.05
26 2 0.01
27 11 0.07
28 10 0.06
29 5 0.03
30 15 0.10
31 28 0.18
32 37 0.24
33 15 0.10
34 16 0.10
35 10 0.06
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (30 bp):
AAAATAATAATAATATATAAATAATAATAT
Found at i:113029841 original size:3 final size:3
Alignment explanation
Indices: 113029823--113029895 Score: 55
Period size: 3 Copynumber: 24.0 Consensus size: 3
113029813 TCGTGAAAAG
113029823 TAA TATA TAA TAAA TAA TAA TAA T-A TAAA TAA TATA TAA TAA -AA TAA
1 TAA TA-A TAA T-AA TAA TAA TAA TAA T-AA TAA TA-A TAA TAA TAA TAA
* *
113029870 TTA T-A TAA TATA TAA T-A TAA AAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA
113029896 GGTTAAAAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
2 8 0.14
3 36 0.62
4 14 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:113029850 original size:18 final size:18
Alignment explanation
Indices: 113029823--113029943 Score: 77
Period size: 20 Copynumber: 6.3 Consensus size: 18
113029813 TCGTGAAAAG
113029823 TAAT-ATATAATAAATAA
1 TAATAATATAATAAATAA
113029840 TAATAATATAA-ATAATATA
1 TAATAATATAATA-AATA-A
* *
113029859 TAATAAAATAATTATATAA
1 TAATAATATAA-TAAATAA
113029878 TATATAATATAA-AAATAA
1 TA-ATAATATAATAAATAA
* * *
113029896 GGTTAAAAATAAAACAAATAA
1 ---TAATAATATAATAAATAA
*
113029917 TAAATATATATATATATATAA
1 T-AATA-ATATA-ATAAATAA
113029938 TAATAA
1 TAATAA
113029944 GGGAAATAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 24
0.70 0.09 0.21
Matches are distributed among these distances:
17 5 0.06
18 16 0.20
19 18 0.22
20 26 0.32
21 16 0.20
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.34
Consensus pattern (18 bp):
TAATAATATAATAAATAA
Found at i:113029855 original size:12 final size:12
Alignment explanation
Indices: 113029829--113029942 Score: 66
Period size: 12 Copynumber: 9.8 Consensus size: 12
113029819 AAAGTAATAT
113029829 ATAATAA-AT-A
1 ATAATAATATAA
113029839 ATAATAATATAA
1 ATAATAATATAA
113029851 ATAAT-ATATAA
1 ATAATAATATAA
*
113029862 TAAAATAATTATATA
1 -ATAATAA-TATA-A
113029877 ATATATAATATAA
1 ATA-ATAATATAA
113029890 A-AATAAGGT-TAA
1 ATAATAA--TATAA
* *
113029902 A-AATAAAACAA
1 ATAATAATATAA
*
113029913 ATAATAA-ATAT
1 ATAATAATATAA
*
113029924 AT-AT-ATATAT
1 ATAATAATATAA
113029934 ATAATAATA
1 ATAATAATA
113029943 AGGGAAATAA
Statistics
Matches: 84, Mismatches: 6, Indels: 26
0.72 0.05 0.22
Matches are distributed among these distances:
9 1 0.01
10 15 0.18
11 21 0.25
12 28 0.33
13 4 0.05
14 10 0.12
15 5 0.06
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (12 bp):
ATAATAATATAA
Found at i:113029874 original size:16 final size:15
Alignment explanation
Indices: 113029632--113029888 Score: 95
Period size: 15 Copynumber: 17.6 Consensus size: 15
113029622 CTTTAATGAT
113029632 AATAATATATAGATAA
1 AATAATATATA-ATAA
113029648 AA-AATATATAAT--
1 AATAATATATAATAA
* *
113029660 AGT-ATA-AAAATAA
1 AATAATATATAATAA
* *
113029673 CATAATATAAAATAA
1 AATAATATATAATAA
*
113029688 TTATAATATATAATATGA
1 -AATAATATATAATA--A
*
113029706 AAGT-ATATAT-GTAAA
1 AA-TAATATATAAT-AA
*
113029721 AATAAGATATAAT-A
1 AATAATATATAATAA
* *
113029735 TATAAATATTTAAT-A
1 AAT-AATATATAATAA
113029750 AAT-ATAT-T-ATACA
1 AATAATATATAATA-A
* *
113029763 AGTAA-AAAT-ATAA
1 AATAATATATAATAA
*
113029776 TAATAATATATAA-AT
1 -AATAATATATAATAA
* *
113029791 AATAATGTA-AA-AT
1 AATAATATATAATAA
* **
113029804 AATAATATTTCGTGAA
1 AATAATATATAAT-AA
113029820 AAGTAATATATAAT-A
1 AA-TAATATATAATAA
113029835 AATAATA-ATAATATA
1 AATAATATATAATA-A
113029850 AATAATATATAATAA
1 AATAATATATAATAA
113029865 AATAATTATATAAT-A
1 AATAA-TATATAATAA
*
113029880 TATAATATA
1 AATAATATA
113029889 AAAATAAGGT
Statistics
Matches: 184, Mismatches: 29, Indels: 58
0.68 0.11 0.21
Matches are distributed among these distances:
11 6 0.03
12 5 0.03
13 26 0.14
14 35 0.19
15 60 0.33
16 34 0.18
17 16 0.09
18 2 0.01
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (15 bp):
AATAATATATAATAA
Found at i:113029889 original size:25 final size:25
Alignment explanation
Indices: 113029650--113029891 Score: 91
Period size: 25 Copynumber: 9.6 Consensus size: 25
113029640 ATAGATAAAA
*
113029650 AATATATAATAGTATAAA-AATAACAT
1 AATATATAATA-TA-AAATAATAATAT
*
113029676 AATATA-AA-ATAATTATAAT-ATAT
1 AATATATAATATAA-AATAATAATAT
**
113029699 AATATGA-AAGTATATATGTAA-AA-AT
1 AATAT-ATAA-TATA-AAATAATAATAT
* *
113029724 AAGATATAATATATAAATATTTAATA-
1 AATATATAATATA-AAATA-ATAATAT
* *
113029750 AATATAT--TATACAAGTAAAAATAT
1 AATATATAATATA-AAATAATAATAT
*
113029774 AATA-ATAATATATAAATAATAATGT
1 AATATATAATATA-AAATAATAATAT
* **** *
113029799 AAAATAATAATATTTCGTGAA-AA-GT
1 AATAT-ATAATATAAAAT-AATAATAT
113029824 AATATATAATA-AATAATAATAATAT
1 AATATATAATATAA-AATAATAATAT
*
113029849 AA-ATAATATATAATAAAATAATTATAT
1 AATAT-ATA-AT-ATAAAATAATAATAT
113029876 AATATATAATATAAAA
1 AATATATAATATAAAA
113029892 ATAAGGTTAA
Statistics
Matches: 163, Mismatches: 28, Indels: 51
0.67 0.12 0.21
Matches are distributed among these distances:
22 1 0.01
23 19 0.12
24 39 0.24
25 44 0.27
26 29 0.18
27 27 0.17
28 4 0.02
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (25 bp):
AATATATAATATAAAATAATAATAT
Found at i:113033256 original size:31 final size:31
Alignment explanation
Indices: 113033221--113033284 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
113033211 CCTTTTCATA
113033221 TTTCATATTTCATAATACCGGGCCGAAGCCT
1 TTTCATATTTCATAATACCGGGCCGAAGCCT
* *
113033252 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACCGGGCCGAAGCCT
113033283 TT
1 TT
113033285 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAATACCGGGCCGAAGCCT
Found at i:113033543 original size:26 final size:26
Alignment explanation
Indices: 113033510--113033582 Score: 137
Period size: 26 Copynumber: 2.8 Consensus size: 26
113033500 TCTTTTTAAT
113033510 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
113033536 AAGTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
113033562 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
113033583 GCACTTCCTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:113033698 original size:20 final size:20
Alignment explanation
Indices: 113033632--113033688 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
113033622 TTATGAATAC
113033632 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
113033652 AACATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
113033672 ATCATGTGCATGTCATA
1 ATCATGTGCATATCATA
113033689 TCAATTATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:113037271 original size:20 final size:20
Alignment explanation
Indices: 113037228--113037276 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
113037218 GGGGGCTAGT
*
113037228 AAATCAATTTGATTAAAATA
1 AAATCAAATTGATTAAAATA
* *
113037248 AAATCAAATTGATTAGAATC
1 AAATCAAATTGATTAAAATA
*
113037268 AAATAAAAT
1 AAATCAAAT
113037277 CAGGATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:113041424 original size:39 final size:39
Alignment explanation
Indices: 113041192--113041413 Score: 336
Period size: 39 Copynumber: 5.6 Consensus size: 39
113041182 TCGTTCAAAC
* * * * * *
113041192 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCATATCTCGCACAATT
* * * *
113041232 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATC
1 GCCTTCGGG-CTTAGCCCGGATATCATATCTCGCACAATT
113041272 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
113041311 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
113041350 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
113041389 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
113041414 CAATTCGCAC
Statistics
Matches: 170, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 129 0.76
40 41 0.24
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
Found at i:113049388 original size:39 final size:39
Alignment explanation
Indices: 113049156--113049377 Score: 336
Period size: 39 Copynumber: 5.6 Consensus size: 39
113049146 TCGTTCAAAC
* * * * * *
113049156 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCATATCTCGCACAATT
* * * *
113049196 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATC
1 GCCTTCGGG-CTTAGCCCGGATATCATATCTCGCACAATT
113049236 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
113049275 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
113049314 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
113049353 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
113049378 CAATTCGCAC
Statistics
Matches: 170, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
39 129 0.76
40 41 0.24
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.25
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATATCTCGCACAATT
Found at i:113052093 original size:86 final size:86
Alignment explanation
Indices: 113051935--113052098 Score: 202
Period size: 86 Copynumber: 1.9 Consensus size: 86
113051925 ATTAAAATCC
* * * * * *
113051935 AATAAAATTTATTAAACAGCAGGAATAAGTCCTAACATAAATTTTATTTAATTTTCATTCTTGTT
1 AATAAAATTCATTAAACAGCAGGAATAAATCCTAAAATAAATTTTATTTAACTTTAATTCTTATT
*
113052000 CGGAAATAAAATAAAAAATGA
66 CGCAAATAAAATAAAAAATGA
* * * * *
113052021 AATAAAATTCATTGAACGGCGGGAATAAATCCTAAAATAGATTTTATTTAACTTTAATTTTTATT
1 AATAAAATTCATTAAACAGCAGGAATAAATCCTAAAATAAATTTTATTTAACTTTAATTCTTATT
**
113052086 TTCAAATAAAATA
66 CGCAAATAAAATA
113052099 TAATATTTTT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 64 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.37
Consensus pattern (86 bp):
AATAAAATTCATTAAACAGCAGGAATAAATCCTAAAATAAATTTTATTTAACTTTAATTCTTATT
CGCAAATAAAATAAAAAATGA
Found at i:113052236 original size:22 final size:23
Alignment explanation
Indices: 113052206--113052253 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
113052196 GTTAGTGAAC
*
113052206 AAAATATATAAATATA-TAAATA
1 AAAAAATATAAATATATTAAATA
**
113052228 AAAAAATATTTATATATTAAATA
1 AAAAAATATAAATATATTAAATA
113052251 AAA
1 AAA
113052254 TATAAATTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAAAATATAAATATATTAAATA
Found at i:113052243 original size:20 final size:20
Alignment explanation
Indices: 113052218--113052256 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
113052208 AATATATAAA
113052218 TATATAAATAAA-AAAATATT
1 TATAT-AATAAATAAAATATT
*
113052238 TATATATTAAATAAAATAT
1 TATATAATAAATAAAATAT
113052257 AAATTGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TATATAATAAATAAAATATT
Found at i:113052743 original size:20 final size:20
Alignment explanation
Indices: 113052700--113052748 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
113052690 AGGGGCTATT
*
113052700 AAATCAATTTGATTAAAATA
1 AAATCAAATTGATTAAAATA
* *
113052720 AAATCAAATTGATTAGAATC
1 AAATCAAATTGATTAAAATA
*
113052740 AAATAAAAT
1 AAATCAAAT
113052749 CAGGATATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATA
Found at i:113056189 original size:20 final size:19
Alignment explanation
Indices: 113056164--113056206 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
113056154 GACTTTTTCT
113056164 TTTTTA-ATATATTATAAATA
1 TTTTTATAT-TATTA-AAATA
*
113056184 TTTTTATATTATTAAATTA
1 TTTTTATATTATTAAAATA
113056203 TTTT
1 TTTT
113056207 ATTATCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 8 0.38
20 11 0.52
21 2 0.10
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTATATTATTAAAATA
Found at i:113056192 original size:19 final size:20
Alignment explanation
Indices: 113056164--113056206 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
113056154 GACTTTTTCT
113056164 TTTTTAATA-TATTATAAATA
1 TTTTTAATATTATTA-AAATA
*
113056184 TTTTT-ATATTATTAAATTA
1 TTTTTAATATTATTAAAATA
113056203 TTTT
1 TTTT
113056207 ATTATCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTAATATTATTAAAATA
Found at i:113056193 original size:17 final size:19
Alignment explanation
Indices: 113056171--113056206 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
113056161 TCTTTTTTAA
113056171 TATATTA-TAAA-TATTTT
1 TATATTATTAAATTATTTT
113056188 TATATTATTAAATTATTTT
1 TATATTATTAAATTATTTT
113056207 ATTATCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 4 0.24
19 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATTATTAAATTATTTT
Found at i:113058518 original size:2 final size:2
Alignment explanation
Indices: 113058511--113058536 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
113058501 CCTACAAAGT
113058511 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
113058537 TCTAACTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:113062248 original size:35 final size:34
Alignment explanation
Indices: 113062156--113062254 Score: 99
Period size: 35 Copynumber: 2.8 Consensus size: 34
113062146 CATAGGTAAG
* **
113062156 TACATGTAAGCTTATATTGAACTGGTATATTCGAC
1 TACATGTGAGCTTATATTGAA-TTTTATATTCGAC
* * * * *
113062191 TGCATGTGAGGTTACATTGAATTTTAATATTTGAT
1 TACATGTGAGCTTATATTGAATTTT-ATATTCGAC
113062226 TACATGTGAGCTTATATTGAATTTATATA
1 TACATGTGAGCTTATATTGAATTT-TATA
113062255 CTCGGTTATA
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
34 2 0.04
35 48 0.94
36 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.42
Consensus pattern (34 bp):
TACATGTGAGCTTATATTGAATTTTATATTCGAC
Found at i:113062268 original size:35 final size:35
Alignment explanation
Indices: 113062193--113062269 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
113062183 TATTCGACTG
* * *
113062193 CATGTGAGGTTACATTGAATTTTAATATTTGATTA
1 CATGTGAGCTTACATTGAATTTTAATACTCGATTA
* *
113062228 CATGTGAGCTTATATTGAA-TTTATATACTCGGTTA
1 CATGTGAGCTTACATTGAATTTTA-ATACTCGATTA
*
113062263 TATGTGA
1 CATGTGA
113062270 AATTATCTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
34 4 0.11
35 31 0.89
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (35 bp):
CATGTGAGCTTACATTGAATTTTAATACTCGATTA
Found at i:113071156 original size:24 final size:26
Alignment explanation
Indices: 113071104--113071156 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
113071094 ACGCTCACGC
* *
113071104 AACACGTTTTAAAAGCTTCCGTAACA
1 AACACGATTTAAAAGCTTCAGTAACA
*
113071130 AACACGATTTAAAAG-TT-AGTAATA
1 AACACGATTTAAAAGCTTCAGTAACA
113071154 AAC
1 AAC
113071157 TAGTTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.33
25 2 0.08
26 14 0.58
ACGTcount: A:0.45, C:0.17, G:0.11, T:0.26
Consensus pattern (26 bp):
AACACGATTTAAAAGCTTCAGTAACA
Found at i:113086513 original size:30 final size:30
Alignment explanation
Indices: 113086463--113086555 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 30
113086453 ACATAAGCCC
* * *
113086463 AAATACCTCAAACCCATTACAACAAACCCA
1 AAATAGCTCAGACCCGTTACAACAAACCCA
*
113086493 AAATAGCTCAGACCCGTTACAGCAAACCCA
1 AAATAGCTCAGACCCGTTACAACAAACCCA
* * *
113086523 AAATAGCCCAGACCCGTTATACACACACCCA
1 AAATAGCTCAGACCCGTTACA-ACAAACCCA
113086554 AA
1 AA
113086556 CAGACCGGTT
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
30 45 0.83
31 9 0.17
ACGTcount: A:0.44, C:0.35, G:0.08, T:0.13
Consensus pattern (30 bp):
AAATAGCTCAGACCCGTTACAACAAACCCA
Found at i:113087890 original size:7 final size:7
Alignment explanation
Indices: 113087873--113088022 Score: 58
Period size: 7 Copynumber: 22.4 Consensus size: 7
113087863 AAATTTGTAG
113087873 ATTAT-T
1 ATTATAT
113087879 ATTATAT
1 ATTATAT
113087886 ATTATAT
1 ATTATAT
113087893 -TT-TA-
1 ATTATAT
113087897 ACTTATAT
1 A-TTATAT
113087905 ATCTTATAT
1 A--TTATAT
*
113087914 ATTTATTT
1 A-TTATAT
113087922 ATT-TAT
1 ATTATAT
*
113087928 ATTATAC
1 ATTATAT
113087935 ATTAT-T
1 ATTATAT
* *
113087941 -TTAAAA
1 ATTATAT
*
113087947 ACTTACAT
1 A-TTATAT
*
113087955 -TTTTAT
1 ATTATAT
113087961 ATTATAT
1 ATTATAT
*
113087968 ATTATAA
1 ATTATAT
*
113087975 ATTATTT
1 ATTATAT
113087982 CATT-TATT
1 -ATTATA-T
113087990 ATTAT-T
1 ATTATAT
113087996 -TT-TAT
1 ATTATAT
113088001 A-TAT-T
1 ATTATAT
113088006 ATTATAT
1 ATTATAT
*
113088013 ATTATCT
1 ATTATAT
113088020 ATT
1 ATT
113088023 TTAAAATTCA
Statistics
Matches: 108, Mismatches: 17, Indels: 37
0.67 0.10 0.23
Matches are distributed among these distances:
4 1 0.01
5 11 0.10
6 23 0.21
7 49 0.45
8 16 0.15
9 8 0.07
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (7 bp):
ATTATAT
Found at i:113087923 original size:21 final size:21
Alignment explanation
Indices: 113087881--113088015 Score: 74
Period size: 21 Copynumber: 6.7 Consensus size: 21
113087871 AGATTATTAT
*
113087881 TATATATTATAT-TTTAACTTA
1 TATATATTATATATTT-ATTTA
*
113087902 TATATCTTATATATTTATTTA
1 TATATATTATATATTTATTTA
* *
113087923 TTTATATTATACA-TTATTT-
1 TATATATTATATATTTATTTA
* * * * *
113087942 TAAAAACTTACATTTTTATAT-
1 TATATA-TTATATATTTATTTA
*
113087963 TATATATTATA-AATTATTTCA
1 TATATATTATATATTTATTT-A
113087984 T-T-TATTAT-TA-TT-TTTA
1 TATATATTATATATTTATTTA
113088000 TATATTATTATATATT
1 TATA-TATTATATATT
113088016 ATCTATTTTA
Statistics
Matches: 85, Mismatches: 18, Indels: 22
0.68 0.14 0.18
Matches are distributed among these distances:
16 2 0.02
17 4 0.05
18 2 0.02
19 21 0.25
20 17 0.20
21 36 0.42
22 3 0.04
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATATTATATATTTATTTA
Found at i:113088005 original size:16 final size:17
Alignment explanation
Indices: 113087957--113088015 Score: 57
Period size: 19 Copynumber: 3.3 Consensus size: 17
113087947 ACTTACATTT
*
113087957 TTATATTATATATTATAAA
1 TTAT-TTATATATTAT-TA
*
113087976 TTATTTCATTTATTATTA
1 TTATTT-ATATATTATTA
113087994 TT-TTTATATATTATTA
1 TTATTTATATATTATTA
113088010 TATATT
1 T-TATT
113088016 ATCTATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 11 0.32
17 4 0.12
18 7 0.21
19 12 0.35
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTATTTATATATTATTA
Found at i:113090866 original size:24 final size:24
Alignment explanation
Indices: 113090831--113090876 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
113090821 GACACACCAT
*
113090831 AGCTCTTATGAGTATCCTGTTATA
1 AGCTCTTATGAGTATCCCGTTATA
*
113090855 AGCTCTCT-TGAGTTTCCCGTTA
1 AGCTCT-TATGAGTATCCCGTTA
113090877 CATGGTTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (24 bp):
AGCTCTTATGAGTATCCCGTTATA
Found at i:113093690 original size:26 final size:26
Alignment explanation
Indices: 113093659--113093766 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
113093649 TGAAATTCCC
*
113093659 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
113093685 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
113093711 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
113093737 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
113093763 ATCA
1 ATCA
113093767 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:113101152 original size:8 final size:8
Alignment explanation
Indices: 113101139--113101219 Score: 82
Period size: 8 Copynumber: 10.4 Consensus size: 8
113101129 AAGTAAATGA
*
113101139 TATTATGT
1 TATTATAT
113101147 TATTATAT
1 TATTATAT
*
113101155 TATTACAT
1 TATTATAT
113101163 TATTATAT
1 TATTATAT
113101171 TA-TAT-T
1 TATTATAT
113101177 ATATTATAT
1 -TATTATAT
113101186 TA-TAT-T
1 TATTATAT
113101192 ATATTAT-T
1 -TATTATAT
113101200 ATATTATAT
1 -TATTATAT
113101209 TATTATAT
1 TATTATAT
113101217 TAT
1 TAT
113101220 ATAACATAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 12
0.81 0.04 0.15
Matches are distributed among these distances:
6 2 0.03
7 10 0.16
8 50 0.78
9 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (8 bp):
TATTATAT
Found at i:113101155 original size:5 final size:5
Alignment explanation
Indices: 113101147--113101221 Score: 85
Period size: 5 Copynumber: 16.6 Consensus size: 5
113101137 GATATTATGT
*
113101147 TATTA TA-T- TATTA CATTA T--TA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
113101193 TA-T- TATTA TATTA TA-T- TATTA TATTA TAT
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT
113101222 AACATAAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 16
0.77 0.03 0.21
Matches are distributed among these distances:
3 9 0.15
4 6 0.10
5 45 0.75
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:113101220 original size:13 final size:13
Alignment explanation
Indices: 113101100--113101221 Score: 112
Period size: 13 Copynumber: 9.4 Consensus size: 13
113101090 ATAAATTACA
113101100 TATATTAATTA-AT
1 TATATT-ATTATAT
113101113 TA-ATTATT-TAT
1 TATATTATTATAT
* *
113101124 TAT-TTAAGTAAAT
1 TATATT-ATTATAT
*
113101137 GATATTATGT-TAT
1 TATATTAT-TATAT
*
113101150 TATATTATTACAT
1 TATATTATTATAT
113101163 TAT-TATATTATAT
1 TATAT-TATTATAT
113101176 TATATTATATTATAT
1 TATA-T-TATTATAT
113101191 TATATTATTATAT
1 TATATTATTATAT
113101204 TATATTATTATAT
1 TATATTATTATAT
113101217 TATAT
1 TATAT
113101222 AACATAAAAT
Statistics
Matches: 91, Mismatches: 8, Indels: 20
0.76 0.07 0.17
Matches are distributed among these distances:
11 9 0.10
12 7 0.08
13 57 0.63
14 4 0.04
15 14 0.15
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.57
Consensus pattern (13 bp):
TATATTATTATAT
Done.