Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold195
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: 1914327
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.29
Warning! 179916 characters in sequence are not A, C, G, or T
File 6 of 12
Found at i:725563 original size:7 final size:6
Alignment explanation
Indices: 725532--725643 Score: 79
Period size: 6 Copynumber: 18.2 Consensus size: 6
725522 AGAAAGTGTA
* * *
725532 AAAAAG AAAAAG TTAAAAC ATAAAG AGAAAAG AAAAAAG AAAAA- AAAAAG
1 AAAAAG AAAAAG -AAAAAG AAAAAG A-AAAAG -AAAAAG AAAAAG AAAAAG
* *
725582 -AAAAG -GAAAG AAAAAG AAAAAG AAAAA- AGAAAAG AAAATAAG AAATAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AAAAG -AAA-AAG AAAAAG
*
725630 AAAGAAA AAAAAG A
1 AAA-AAG AAAAAG A
725644 TGAGGAAACA
Statistics
Matches: 84, Mismatches: 12, Indels: 20
0.72 0.10 0.17
Matches are distributed among these distances:
5 15 0.18
6 42 0.50
7 22 0.26
8 5 0.06
ACGTcount: A:0.79, C:0.01, G:0.16, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:725567 original size:5 final size:5
Alignment explanation
Indices: 725557--725643 Score: 57
Period size: 5 Copynumber: 18.6 Consensus size: 5
725547 AAACATAAAG
* *
725557 AGAAA AGAAA A-AAGA A-AAA A-AAA AGAAA AGGAA AGAAAA AGAAA A-AGA
1 AGAAA AGAAA AGAA-A AGAAA AGAAA AGAAA AGAAA AG-AAA AGAAA AGAAA
*
725605 A-AAA AGAAA AG-AA A-ATA AGAAA TAG-AA AGAAA A-AAA AGA
1 AGAAA AGAAA AGAAA AGAAA AGAAA -AGAAA AGAAA AGAAA AGA
725644 TGAGGAAACA
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
4 25 0.37
5 36 0.54
6 6 0.09
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (5 bp):
AGAAA
Found at i:725580 original size:18 final size:18
Alignment explanation
Indices: 725559--725640 Score: 85
Period size: 19 Copynumber: 4.2 Consensus size: 18
725549 ACATAAAGAG
725559 AAAAGAAAAAAGAAAAAA
1 AAAAGAAAAAAGAAAAAA
725577 AAAAGAAAAGGAAAGAAAAAGA
1 AAAAG-AAA--AAAGAAAAA-A
725599 AAAAGAAAAAAGAAAAGAA
1 AAAAGAAAAAAGAAAA-AA
*
725618 AATAAG-AAATAGAAAGAAA
1 AA-AAGAAAAAAGAAA-AAA
725637 AAAA
1 AAAA
725641 AGATGAGGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 14
0.79 0.01 0.20
Matches are distributed among these distances:
18 7 0.12
19 26 0.46
20 5 0.09
21 12 0.21
22 6 0.11
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAAAA
Found at i:725601 original size:23 final size:22
Alignment explanation
Indices: 725557--725638 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 22
725547 AAACATAAAG
* *
725557 AGAAAAGAAAAAAGAAAAAAAAA
1 AGAAAAGAAAGAA-AAAGAAAAA
725580 AGAAAAGGAAAGAAAAAG-AAAA
1 AGAAAA-GAAAGAAAAAGAAAAA
725602 AG-AAA-AAAG-AAAAGAAAATA
1 AGAAAAGAAAGAAAAAGAAAA-A
725622 AGAAATAGAAAGAAAAA
1 AGAAA-AGAAAGAAAAA
725639 AAAGATGAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
18 5 0.10
19 7 0.14
20 3 0.06
21 5 0.10
22 7 0.14
23 13 0.26
24 10 0.20
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (22 bp):
AGAAAAGAAAGAAAAAGAAAAA
Found at i:731451 original size:35 final size:35
Alignment explanation
Indices: 731402--731566 Score: 118
Period size: 35 Copynumber: 4.7 Consensus size: 35
731392 CCTTGATGAT
* *
731402 TTTTTTAAATATTTTAAAAGCCTCTCCTAAGGATA
1 TTTTTTAAAGATTTTAAAAGCCTCTCTTAAGGATA
* ** *
731437 TTTTTTAGAGATTTTTAAAA-CCTCT-TTCAAAAACA
1 TTTTTTAAAGA-TTTTAAAAGCCTCTCTT-AAGGATA
* ** * *
731472 TTTTTTAGAGATTTTAAAAATCTTTCTTAAGGGTA
1 TTTTTTAAAGATTTTAAAAGCCTCTCTTAAGGATA
* * * * * *
731507 TTTTTCAAAAATTTTTAAAGCCTCTCTTGATGACA
1 TTTTTTAAAGATTTTAAAAGCCTCTCTTAAGGATA
* * *
731542 TTTTTCAAAAATTTTAAAAACCTCT
1 TTTTTTAAAGATTTTAAAAGCCTCT
731567 ATTGCAAACA
Statistics
Matches: 101, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
34 9 0.09
35 82 0.81
36 10 0.10
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (35 bp):
TTTTTTAAAGATTTTAAAAGCCTCTCTTAAGGATA
Found at i:731578 original size:35 final size:35
Alignment explanation
Indices: 731506--731594 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
731496 TCTTAAGGGT
* * * *
731506 ATTTTTCAAAAATTTTTAAAGCCTCTCTTGATGAC
1 ATTTTTCAAAAATTTTAAAAACCTCTATTGATAAC
731541 ATTTTTCAAAAATTTTAAAAACCTCTATTGCA-AAC
1 ATTTTTCAAAAATTTTAAAAACCTCTATTG-ATAAC
731576 ATTTTTCAAAAAGTTTTAA
1 ATTTTTCAAAAA-TTTTAA
731595 GATTTTCTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
35 41 0.85
36 7 0.15
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.42
Consensus pattern (35 bp):
ATTTTTCAAAAATTTTAAAAACCTCTATTGATAAC
Found at i:731635 original size:69 final size:70
Alignment explanation
Indices: 731506--731635 Score: 172
Period size: 69 Copynumber: 1.9 Consensus size: 70
731496 TCTTAAGGGT
* * * * *
731506 ATTTTTCAAAAATTTTTAAAGCCTCTCTTGATGACATTTTTCAAAAATTTTAAAAACCTCTATTG
1 ATTTTTCAAAAAGTTTTAAAGACTCTCTTGAAGAAAATTTTCAAAAATTTTAAAAACCTCTATTG
731571 CAAAC
66 CAAAC
* * * *
731576 ATTTTTCAAAAAGTTTT-AAGATTTTCTTGAAGAAAATTTTCAAAGATTTTAAAAGCCTCT
1 ATTTTTCAAAAAGTTTTAAAGACTCTCTTGAAGAAAATTTTCAAAAATTTTAAAAACCTCT
731636 CTAGATGACA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
69 35 0.69
70 16 0.31
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.41
Consensus pattern (70 bp):
ATTTTTCAAAAAGTTTTAAAGACTCTCTTGAAGAAAATTTTCAAAAATTTTAAAAACCTCTATTG
CAAAC
Found at i:731680 original size:104 final size:103
Alignment explanation
Indices: 731403--731767 Score: 282
Period size: 104 Copynumber: 3.5 Consensus size: 103
731393 CTTGATGATT
* * * * *
731403 TTTTTAAATATTTTAAAAGCCTCTCCTA-AGGATATTTTTTAGAGATTTTTAAAACCTCTTTCAA
1 TTTTCAAAAATTTTAAAAGCCTCT-CTAGATGACATTTTTTAGA-ATTTTAAAAACCTCTTT-AA
* * * ** *
731467 AAACATTTTTTAGAGATTTTAAAAATCTTTCTTAAGGGTAT
63 AAACATTTTTCAAAAATTTTAAAAATCTTTCTTAAGGAAAA
* * * * **
731508 TTTTCAAAAATTTTTAAAGCCTCTCTTGATGACATTTTTCAAAAATTTTAAAAACCTCTATTGCA
1 TTTTCAAAAATTTTAAAAGCCTCTCTAGATGACATTTTT-TAGAATTTTAAAAACCTCT-TTAAA
*
731573 AACATTTTTCAAAAAGTTTT-AAGAT-TTTCTTGAA-GAAAA
64 AACATTTTTCAAAAA-TTTTAAAAATCTTTCTT-AAGGAAAA
*
731612 TTTTCAAAGATTTTAAAAGCCTCTCTAGATGACATTTTTTAGAATTTTCAAAAACCTCTCTTAAA
1 TTTTCAAAAATTTTAAAAGCCTCTCTAGATGACATTTTTTAGAATTTT-AAAAACCTCT-TTAAA
* * * * *
731677 AACA--TTT-AATAGTTTTCAAAAGTCTTTCTTGAGG-ATA
64 AACATTTTTCAAAAATTTT-AAAAATCTTTCTTAAGGAAAA
* * * *
731714 TTTCATCAAAGATTTTCAAAGCCTCTTTTGA-GAACATTTTTTA-AGATTTTAAAA
1 TTT--TCAAAAATTTTAAAAGCCTCTCTAGATG-ACATTTTTTAGA-ATTTTAAAA
731768 GCTTTATTTT
Statistics
Matches: 211, Mismatches: 35, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
100 4 0.02
101 3 0.01
102 12 0.06
103 20 0.09
104 101 0.48
105 63 0.30
106 8 0.04
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (103 bp):
TTTTCAAAAATTTTAAAAGCCTCTCTAGATGACATTTTTTAGAATTTTAAAAACCTCTTTAAAAA
CATTTTTCAAAAATTTTAAAAATCTTTCTTAAGGAAAA
Found at i:731818 original size:32 final size:31
Alignment explanation
Indices: 731753--731811 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
731743 GAGAACATTT
*
731753 TTTAAGATTTTAAAAGCTTTATTTTAAGACA
1 TTTAAGATTTTAAAAGCCTTATTTTAAGACA
731784 TTTAATGATTTTTAAAA-CCTT-TTTTAAG
1 TTTAA-GA-TTTTAAAAGCCTTATTTTAAG
731812 GGCATTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 12 0.48
32 5 0.20
33 8 0.32
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (31 bp):
TTTAAGATTTTAAAAGCCTTATTTTAAGACA
Found at i:731945 original size:65 final size:65
Alignment explanation
Indices: 731876--732038 Score: 152
Period size: 65 Copynumber: 2.5 Consensus size: 65
731866 GTTGAGCTTA
* *
731876 AAGATTGGCTCTAAGGTTTATTCTTTTTAAATTGA-ACCTATTTCTAATTAAATAAGTCAAGCCT
1 AAGATTGG-TCTAAGGTTTATTCTTTTTAAATTCACACCTATTTCTAAGTAAATAAGTCAAGCCT
731940 T
65 T
** * * * * * *
731941 AAGATTATTTCTAAGGCTTCTTCTTTTT-AAGTCACCCCTATTTCTTAGTAAATAAGTCGAGCCT
1 AAGATT-GGTCTAAGGTTTATTCTTTTTAAATTCACACCTATTTCTAAGTAAATAAGTCAAGCCT
732005 T
65 T
* *
732006 AGGATTGTTGT-TAAGGTTTTTTTCTTTTTAAAT
1 AAGATTG--GTCTAAGG-TTTATTCTTTTTAAAT
732039 CAAATCTGTC
Statistics
Matches: 76, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
64 4 0.05
65 59 0.78
66 11 0.14
67 2 0.03
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (65 bp):
AAGATTGGTCTAAGGTTTATTCTTTTTAAATTCACACCTATTTCTAAGTAAATAAGTCAAGCCTT
Found at i:737410 original size:13 final size:13
Alignment explanation
Indices: 737392--737417 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
737382 TACAGCAAGT
737392 ATGTATCGATACA
1 ATGTATCGATACA
737405 ATGTATCGATACA
1 ATGTATCGATACA
737418 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:739664 original size:21 final size:21
Alignment explanation
Indices: 739631--739675 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
739621 TTGCAAGTTG
*
739631 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
739653 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
739673 AAA
1 AAA
739676 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:741499 original size:15 final size:15
Alignment explanation
Indices: 741479--741509 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
741469 TAAAAATGTC
*
741479 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
741494 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
741509 C
1 C
741510 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:743606 original size:13 final size:13
Alignment explanation
Indices: 743588--743626 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
743578 ACATTTTTCT
743588 TTGTATCGATACA
1 TTGTATCGATACA
743601 TTGTATCGATACA
1 TTGTATCGATACA
743614 TTGTATCGATACA
1 TTGTATCGATACA
743627 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:746188 original size:13 final size:13
Alignment explanation
Indices: 746170--746195 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
746160 TACAGCAAGT
746170 ATGTATCGATACA
1 ATGTATCGATACA
746183 ATGTATCGATACA
1 ATGTATCGATACA
746196 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:749966 original size:13 final size:13
Alignment explanation
Indices: 749948--749973 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
749938 ACATTTTATC
749948 ATGTATCGATACA
1 ATGTATCGATACA
749961 ATGTATCGATACA
1 ATGTATCGATACA
749974 TCTTGTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:749969 original size:33 final size:32
Alignment explanation
Indices: 749926--749993 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
749916 CGTTACAAGC
* *
749926 CAATGCATCGATACATTTTATCATGTATCGATA
1 CAATGCATCGATACATCTTAT-ATGTATCAATA
* *
749959 CAATGTATCGATACATCTTGTATGTATCAATA
1 CAATGCATCGATACATCTTATATGTATCAATA
749991 CAA
1 CAA
749994 ATAGTTAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
CAATGCATCGATACATCTTATATGTATCAATA
Found at i:750059 original size:13 final size:13
Alignment explanation
Indices: 750041--750065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
750031 TACAGTGGTC
750041 ATGTATCGATACA
1 ATGTATCGATACA
750054 ATGTATCGATAC
1 ATGTATCGATAC
750066 TGTGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:752585 original size:13 final size:13
Alignment explanation
Indices: 752567--752603 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
752557 ATAAACCCCT
*
752567 TGTATCGATACAG
1 TGTATCGATACAA
752580 TGTATCGATACAA
1 TGTATCGATACAA
752593 TGTATCGATAC
1 TGTATCGATAC
752604 TGAGAATGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:758798 original size:13 final size:13
Alignment explanation
Indices: 758782--758807 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
758772 ACATTTTATC
758782 ATGTATCGATACA
1 ATGTATCGATACA
758795 ATGTATCGATACA
1 ATGTATCGATACA
758808 TCCAAGATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:758801 original size:20 final size:20
Alignment explanation
Indices: 758762--758801 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
758752 TTACAAGCCA
* *
758762 ATGTATCAATACATTTTATC
1 ATGTATCAATACAATGTATC
*
758782 ATGTATCGATACAATGTATC
1 ATGTATCAATACAATGTATC
758802 GATACATCCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
ATGTATCAATACAATGTATC
Found at i:758823 original size:32 final size:32
Alignment explanation
Indices: 758782--758859 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 32
758772 ACATTTTATC
758782 ATGTATCGATACAATGTATCGATACATCCAAG-
1 ATGTATCGATACAATGTATCGATACAT-CAAGT
* * **
758814 ATGTATCGATACATTGTATCTATACATCTTGT
1 ATGTATCGATACAATGTATCGATACATCAAGT
758846 ATGTATCGATACAA
1 ATGTATCGATACAA
758860 ACAGTTAAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 2 0.05
32 38 0.95
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.35
Consensus pattern (32 bp):
ATGTATCGATACAATGTATCGATACATCAAGT
Found at i:758946 original size:13 final size:13
Alignment explanation
Indices: 758928--758954 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
758918 TAAAGTGGTC
758928 ATGTATCGATACA
1 ATGTATCGATACA
758941 ATGTATCGATACA
1 ATGTATCGATACA
758954 A
1 A
758955 ATACCTATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:762858 original size:2 final size:2
Alignment explanation
Indices: 762851--762876 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
762841 CCGTAAATTT
762851 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
762877 AAGGAGAAAG
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:763012 original size:12 final size:12
Alignment explanation
Indices: 762993--763022 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
762983 CTTAAAGAGA
762993 AAAAATAATAAT
1 AAAAATAATAAT
*
763005 AGAAATAATAAT
1 AAAAATAATAAT
763017 AAAAAT
1 AAAAAT
763023 GGAAAGATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:763511 original size:2 final size:2
Alignment explanation
Indices: 763506--763544 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
763496 TATTGTCTTT
* *
763506 TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA CA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
763545 TCTTATGATC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:764038 original size:15 final size:14
Alignment explanation
Indices: 764018--764073 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
764008 GAAATATAAA
*
764018 AAAAAAAAAATTCTT
1 AAAAAAAAAATT-TG
764033 AAAAAAAAAATTTG
1 AAAAAAAAAATTTG
*
764047 AAAAAGAAAAAAATTG
1 -AAAA-AAAAAATTTG
*
764063 AAAACAAAAAT
1 AAAAAAAAAAT
764074 AGAATATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
14 6 0.17
15 20 0.57
16 9 0.26
ACGTcount: A:0.73, C:0.04, G:0.05, T:0.18
Consensus pattern (14 bp):
AAAAAAAAAATTTG
Found at i:764056 original size:16 final size:15
Alignment explanation
Indices: 764016--764072 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
764006 TAGAAATATA
*
764016 AAAAAAAAAAAATTCT
1 AAAAAAAAAAAATT-G
* *
764032 TAAAAAAAAAATTTG
1 AAAAAAAAAAAATTG
764047 AAAAAGAAAAAAATTG
1 AAAAA-AAAAAAATTG
*
764063 AAAACAAAAA
1 AAAAAAAAAA
764073 TAGAATATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
15 9 0.26
16 25 0.74
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (15 bp):
AAAAAAAAAAAATTG
Found at i:764805 original size:18 final size:18
Alignment explanation
Indices: 764765--764805 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
764755 TAAAAATAAA
*
764765 AAATAATATATTAATTAT
1 AAATAATATATTAAATAT
*
764783 AAATAATATTTTAAATAT
1 AAATAATATATTAAATAT
*
764801 CAATA
1 AAATA
764806 TCAACATCGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATAATATATTAAATAT
Found at i:767314 original size:18 final size:19
Alignment explanation
Indices: 767268--767314 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
767258 TATTTTTCAT
767268 ATTAT-ATATGTTTTATGC
1 ATTATGATATGTTTTATGC
767286 ATTCCATGATAT-TTTTATGC
1 ATT--ATGATATGTTTTATGC
767306 ATTATGATA
1 ATTATGATA
767315 ATGATTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 9 0.35
20 13 0.50
21 4 0.15
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.51
Consensus pattern (19 bp):
ATTATGATATGTTTTATGC
Found at i:767633 original size:15 final size:15
Alignment explanation
Indices: 767613--767642 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
767603 AACTATTATG
767613 TCATTTCATGCATTT
1 TCATTTCATGCATTT
767628 TCATTTCATGCATTT
1 TCATTTCATGCATTT
767643 AGAAGTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.07, T:0.53
Consensus pattern (15 bp):
TCATTTCATGCATTT
Found at i:767766 original size:57 final size:57
Alignment explanation
Indices: 767685--767843 Score: 173
Period size: 57 Copynumber: 2.8 Consensus size: 57
767675 TTTTTTTTTC
* * *
767685 ATTTCATACATTTTAGCA-CTATTTTAGTCATTTTCCATGATTTAGG-GATTATAATGTA
1 ATTTCATGCATTTTAGCATC-ATTTTAGTCATTTTCCATGATTTAGGACATT-T-ATGCA
* ** *
767743 ATTTCATGCATTTT-TCATCATTTTAGTCATTTGACATGTTTTAGGACCATTTATGCA
1 ATTTCATGCATTTTAGCATCATTTTAGTCATTTTCCATGATTTAGGA-CATTTATGCA
*
767800 ATTTCATGCATTTTAGGATCATTTTAG-CATTTTACCATGATTTA
1 ATTTCATGCATTTTAGCATCATTTTAGTCATTTT-CCATGATTTA
767844 AGACTGTTAG
Statistics
Matches: 84, Mismatches: 12, Indels: 10
0.79 0.11 0.09
Matches are distributed among these distances:
57 48 0.57
58 33 0.39
59 3 0.04
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (57 bp):
ATTTCATGCATTTTAGCATCATTTTAGTCATTTTCCATGATTTAGGACATTTATGCA
Found at i:767843 original size:29 final size:28
Alignment explanation
Indices: 767759--767843 Score: 75
Period size: 29 Copynumber: 2.9 Consensus size: 28
767749 TGCATTTTTC
* *
767759 ATCATTTTAGTCATTTGACATGTTTTAGG
1 ATCATTTTAG-CATTTTACATGATTTAGG
* *
767788 ACCA-TTTATGCAATTT-CATGCATTTTAGG
1 ATCATTTTA-GCATTTTACATG-A-TTTAGG
767817 ATCATTTTAGCATTTTACCATGATTTA
1 ATCATTTTAGCATTTTA-CATGATTTA
767844 AGACTGTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
27 4 0.09
28 8 0.18
29 23 0.52
30 5 0.11
31 4 0.09
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (28 bp):
ATCATTTTAGCATTTTACATGATTTAGG
Found at i:768177 original size:13 final size:13
Alignment explanation
Indices: 768159--768183 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
768149 AGATTGCACA
768159 GTATCGATACATT
1 GTATCGATACATT
768172 GTATCGATACAT
1 GTATCGATACAT
768184 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:768196 original size:20 final size:21
Alignment explanation
Indices: 768171--768223 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
768161 ATCGATACAT
*
768171 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGTA-AAGAA
*
768191 TGTATCGATACTTGTAAAGAA
1 TGTATCGATACATGTAAAGAA
768212 TGTATCGATACA
1 TGTATCGATACA
768224 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATGTAAAGAA
Found at i:768308 original size:20 final size:20
Alignment explanation
Indices: 768265--768316 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
768255 CTTAACTGTT
*
768265 TGTATCGATACA-CACAAGA
1 TGTATCGATACATCACAAAA
*
768284 TGTATCGATACATCCCAAAA
1 TGTATCGATACATCACAAAA
768304 TGTATCGATACAT
1 TGTATCGATACAT
768317 TGGCTTGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.27
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:770443 original size:21 final size:20
Alignment explanation
Indices: 770395--770452 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
770385 TCGTTAGGCC
770395 AAATGTATCGATACAATTCA
1 AAATGTATCGATACAATTCA
* *
770415 TAATGTATCGATACAATTTA
1 AAATGTATCGATACAATTCA
*
770435 AACATGTATTGATACAAT
1 AA-ATGTATCGATACAAT
770453 CACAAGGTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACAATTCA
Found at i:770470 original size:22 final size:21
Alignment explanation
Indices: 770398--770482 Score: 61
Period size: 21 Copynumber: 4.0 Consensus size: 21
770388 TTAGGCCAAA
770398 TGTATCGATACAATTCATAA---
1 TGTATCGATACAA-TCA-AAGGT
* **
770418 TGTATCGATACAATTTAAA-CA
1 TGTATCGATACAA-TCAAAGGT
*
770439 TGTATTGATACAATCACAAGGT
1 TGTATCGATACAATCA-AAGGT
*
770461 TGTATCGATATAATCAAAGGT
1 TGTATCGATACAATCAAAGGT
770482 T
1 T
770483 AGCTACTGCC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.04
20 18 0.33
21 20 0.37
22 14 0.26
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (21 bp):
TGTATCGATACAATCAAAGGT
Found at i:770482 original size:21 final size:22
Alignment explanation
Indices: 770439--770482 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
770429 AATTTAAACA
*
770439 TGTATTGATACAATCACAAGGT
1 TGTATCGATACAATCACAAGGT
*
770461 TGTATCGATATAATCA-AAGGT
1 TGTATCGATACAATCACAAGGT
770482 T
1 T
770483 AGCTACTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (22 bp):
TGTATCGATACAATCACAAGGT
Found at i:770878 original size:13 final size:13
Alignment explanation
Indices: 770860--770899 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
770850 ACATCTTGCT
770860 TTGTATCGATACA
1 TTGTATCGATACA
770873 TTGTATCGATACA
1 TTGTATCGATACA
*
770886 TTGTATCTATACA
1 TTGTATCGATACA
770899 T
1 T
770900 GGACAATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:770989 original size:33 final size:32
Alignment explanation
Indices: 770952--771015 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 32
770942 TCACTATTTG
770952 TATCGATACATG-GTACAATGTATCGATACATTA
1 TATCGATACATGAG-A-AATGTATCGATACATTA
770985 TATCGATACATGAAGAAATGTATCGATACAT
1 TATCGATACATG-AGAAATGTATCGATACAT
771016 AGCTTGTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (32 bp):
TATCGATACATGAGAAATGTATCGATACATTA
Found at i:773047 original size:20 final size:19
Alignment explanation
Indices: 773024--773087 Score: 74
Period size: 20 Copynumber: 3.2 Consensus size: 19
773014 GGCGTCCTCC
773024 ACAAAAAAAAAACCAAATAA
1 ACAAAAAAAAAACCAAA-AA
**
773044 ACAAAAAAAAAGAAGAAAAA
1 ACAAAAAAAAA-ACCAAAAA
*
773064 ACAAAAAAAAAACAAAAATA
1 ACAAAAAAAAAACCAAAA-A
773084 ACAA
1 ACAA
773088 CAACAAAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.13
20 29 0.76
21 4 0.11
ACGTcount: A:0.83, C:0.11, G:0.03, T:0.03
Consensus pattern (19 bp):
ACAAAAAAAAAACCAAAAA
Found at i:773064 original size:10 final size:9
Alignment explanation
Indices: 773028--773096 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 9
773018 TCCTCCACAA
773028 AAAAAAAAC
1 AAAAAAAAC
* *
773037 CAAATAAAC
1 AAAAAAAAC
*
773046 AAAAAAAAAG
1 -AAAAAAAAC
773056 AAGAAAAAAC
1 AA-AAAAAAC
773066 AAAAAAAA-
1 AAAAAAAAC
* *
773074 AACAAAAAT
1 AAAAAAAAC
* *
773083 AACAACAAC
1 AAAAAAAAC
773092 AAAAA
1 AAAAA
773097 GGGTCCGGAT
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
8 7 0.15
9 26 0.55
10 14 0.30
ACGTcount: A:0.83, C:0.12, G:0.03, T:0.03
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:774822 original size:117 final size:117
Alignment explanation
Indices: 774534--774895 Score: 563
Period size: 116 Copynumber: 3.1 Consensus size: 117
774524 TTCCTCACCC
*
774534 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCATAAGTCAGTGGCAACCTTCAAAGC
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAGC
* * *
774599 CCATAAATCAGTGGCACCCTTTTCCCAAAGCCTATAAGTCAGTGGCACCCTT
66 CCACAAATCAGTGGCACCCTTTTCCCAAAGCCCACAAGTCAGTGGCACCCTT
* * * *
774651 TTCCAAAGCCCACAAGTCAGTGGCAAC--CTTCAAAAGCCTACAAGTCAGTGGCAACCTTCAAAA
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTC-AAAGCCCACAAGTCAGTGGCAACCTTC-AAA
* *
774714 GCCCACAAGTCAGTGGCACCATTTT-CCAAAGCCCACAAGTCAGTGGCACCCTT
64 GCCCACAAATCAGTGGCACCCTTTTCCCAAAGCCCACAAGTCAGTGGCACCCTT
774767 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAGC
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAGC
* *
774832 CCACAAATTAGTGGCACCCTTTTCCCAAAGCCCACAAGTCAGTGGCAACC--
66 CCACAAATCAGTGGCACCCTTTTCCCAAAGCCCACAAGTCAGTGGCACCCTT
774882 TTCAAAAGCCCACA
1 TTCAAAAGCCCACA
774896 CAAGTTGGTG
Statistics
Matches: 222, Mismatches: 18, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
115 17 0.08
116 101 0.45
117 101 0.45
118 3 0.01
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.20
Consensus pattern (117 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAGC
CCACAAATCAGTGGCACCCTTTTCCCAAAGCCCACAAGTCAGTGGCACCCTT
Found at i:774908 original size:30 final size:28
Alignment explanation
Indices: 774532--774895 Score: 360
Period size: 30 Copynumber: 12.6 Consensus size: 28
774522 TATTCCTCAC
*
774532 CCTTCAAAAGCCCACAAGTCAGTGGCAT
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* *
774560 CTTTTTC-AAAGCCCATAAGTCAGTGGCAA
1 C--CTTCAAAAGCCCACAAGTCAGTGGCAA
* * *
774589 CCTTC-AAAGCCCATAAATCAGTGGCAC
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* * * *
774616 CCTTTTCCCAAAGCCTATAAGTCAGTGGCAC
1 CC--TT-CAAAAGCCCACAAGTCAGTGGCAA
*
774647 CCTTTTCCAAAGCCCACAAGTCAGTGGCAA
1 CC--TTCAAAAGCCCACAAGTCAGTGGCAA
*
774677 CCTTCAAAAGCCTACAAGTCAGTGGCAA
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
774705 CCTTCAAAAGCCCACAAGTCAGTGGC-A
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
* *
774732 CCATTTTCCAAAGCCCACAAGTCAGTGGCAC
1 CC---TTCAAAAGCCCACAAGTCAGTGGCAA
*
774763 CCTTTTCAAAAGCCCACAAGTCAGTGGCAT
1 CC--TTCAAAAGCCCACAAGTCAGTGGCAA
*
774793 CTTTTTC-AAAGCCCACAAGTCAGTGGCAA
1 C--CTTCAAAAGCCCACAAGTCAGTGGCAA
* * *
774822 CCTTC-AAAGCCCACAAATTAGTGGCAC
1 CCTTCAAAAGCCCACAAGTCAGTGGCAA
*
774849 CCTTTTCCCAAAGCCCACAAGTCAGTGGCAA
1 CC--TT-CAAAAGCCCACAAGTCAGTGGCAA
774880 CCTTCAAAAGCCCACA
1 CCTTCAAAAGCCCACA
774896 CAAGTTGGTG
Statistics
Matches: 292, Mismatches: 28, Indels: 32
0.83 0.08 0.09
Matches are distributed among these distances:
27 52 0.18
28 61 0.21
29 49 0.17
30 81 0.28
31 49 0.17
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.20
Consensus pattern (28 bp):
CCTTCAAAAGCCCACAAGTCAGTGGCAA
Found at i:774981 original size:49 final size:49
Alignment explanation
Indices: 774912--775099 Score: 196
Period size: 49 Copynumber: 3.8 Consensus size: 49
774902 GGTGGCATCT
* * *
774912 TCTTCTAAGTCCAATATCGCTGGCTTTGAATCAGCATAGTGGCACCGTCA
1 TCTT-TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
* * * * *
774962 TCTTTAAGACCAATGTCGCTGGCCTCGAATCAGCACATTGGCATCTTCA
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
* ** * *
775011 TCTTTAAGTCCGGTATCGCTAGCTTTGAATCAGCATATTGGCACCGTCA
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
* * ** * *
775060 TTTTTAAGATCAACGTCGCTGGCCATGAATCAGCACATTG
1 TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTG
775100 TCATTTTTCG
Statistics
Matches: 109, Mismatches: 29, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
49 105 0.96
50 4 0.04
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (49 bp):
TCTTTAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCGTCA
Found at i:775090 original size:98 final size:96
Alignment explanation
Indices: 774904--775099 Score: 286
Period size: 98 Copynumber: 2.0 Consensus size: 96
774894 CACAAGTTGG
*
774904 TGGCATCTTCTTCTAAGTCCAATATCGCTGGCTTTGAATCAGCATAGTGGCACCGTCATCTTTAA
1 TGGCATCTTCTTCTAAGTCCAATATCGCTAGCTTTGAATCAGCATAGTGGCACCGTCATCTTTAA
*
774969 GACCAATGTCGCTGGCCTCGAATCAGCACAT
66 GACCAACGTCGCTGGCCTCGAATCAGCACAT
* ** * *
775000 TGGCATCTTCATCTTTAAGTCCGGTATCGCTAGCTTTGAATCAGCATATTGGCACCGTCATTTTT
1 TGGCATCTTC-T-TCTAAGTCCAATATCGCTAGCTTTGAATCAGCATAGTGGCACCGTCATCTTT
*
775065 AAGATCAACGTCGCTGGCCAT-GAATCAGCACAT
64 AAGACCAACGTCGCTGGCC-TCGAATCAGCACAT
775098 TG
1 TG
775100 TCATTTTTCG
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
96 10 0.11
97 1 0.01
98 77 0.87
99 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (96 bp):
TGGCATCTTCTTCTAAGTCCAATATCGCTAGCTTTGAATCAGCATAGTGGCACCGTCATCTTTAA
GACCAACGTCGCTGGCCTCGAATCAGCACAT
Found at i:775906 original size:13 final size:13
Alignment explanation
Indices: 775888--775944 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
775878 CATAAAGTGT
775888 TGTATCGATACAA
1 TGTATCGATACAA
775901 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
775916 GTTTTGTATCGATATAA
1 ----TGTATCGATACAA
775933 TGTATCGATACA
1 TGTATCGATACA
775945 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:775925 original size:19 final size:19
Alignment explanation
Indices: 775866--775963 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 19
775856 ATTTCAATGA
775866 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACAT-AAGT
*
775886 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
775901 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
775918 TTTGTATCGAT--ATAA--
1 TTTGTATCGATACATAAGT
775933 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
775950 TTTGTATCGATACA
1 TTTGTATCGATACA
775964 ATGTAAGCTA
Statistics
Matches: 65, Mismatches: 1, Indels: 25
0.71 0.01 0.27
Matches are distributed among these distances:
13 20 0.31
15 6 0.09
17 6 0.09
19 21 0.32
20 12 0.18
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:775928 original size:32 final size:32
Alignment explanation
Indices: 775868--775968 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
775858 TTCAATGATT
*
775868 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTTTTGTATCGATACAA
*
775901 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
775933 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTTTTGTATCGATACAA
775965 TGTA
1 TGTA
775969 AGCTACATTA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 52 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTTTTGTATCGATACAA
Found at i:775989 original size:65 final size:65
Alignment explanation
Indices: 775868--775994 Score: 159
Period size: 65 Copynumber: 2.0 Consensus size: 65
775858 TTCAATGATT
* * **
775868 TGTATCGATACATAAAGTGTTGTATCGATACAATGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAATGTATAGATACATAACTAATGTATCGATATAA
* * *
775933 TGTATCGATACAT-AAGTTTTGTATCGATACAATGTA-AGCTACATTACTCAAATGTATCGATA
1 TGTATCGATACATAAAGTGTTGTATCGATACAATGTATAGATACATAACT--AATGTATCGATA
775995 CATTACTCAA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
63 8 0.15
64 22 0.42
65 23 0.43
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (65 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAATGTATAGATACATAACTAATGTATCGATATAA
Found at i:775998 original size:21 final size:21
Alignment explanation
Indices: 775972--776059 Score: 176
Period size: 21 Copynumber: 4.2 Consensus size: 21
775962 CAATGTAAGC
775972 TACATTACTCAAATGTATCGA
1 TACATTACTCAAATGTATCGA
775993 TACATTACTCAAATGTATCGA
1 TACATTACTCAAATGTATCGA
776014 TACATTACTCAAATGTATCGA
1 TACATTACTCAAATGTATCGA
776035 TACATTACTCAAATGTATCGA
1 TACATTACTCAAATGTATCGA
776056 TACA
1 TACA
776060 CTGATCTTTG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 67 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (21 bp):
TACATTACTCAAATGTATCGA
Found at i:776090 original size:63 final size:63
Alignment explanation
Indices: 775972--776090 Score: 152
Period size: 63 Copynumber: 1.9 Consensus size: 63
775962 CAATGTAAGC
* * *
775972 TACATTACTCAAATGTATCGATACATTACTCAAATGTATCGATACATTACTCAAATGTATCGA
1 TACATTACTCAAATGTATCGATACATGACTCAAATGTATCGATACATCACGCAAATGTATCGA
** *
776035 TACATTACTCAAATGTATCGATACACTGA-TC-TTTGTATCGATACATGCAGGCAAAT
1 TACATTACTCAAATGTATCGATACA-TGACTCAAATGTATCGATACAT-CACGCAAAT
776091 TTGCCTAGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
62 13 0.27
63 33 0.69
64 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (63 bp):
TACATTACTCAAATGTATCGATACATGACTCAAATGTATCGATACATCACGCAAATGTATCGA
Found at i:776125 original size:52 final size:52
Alignment explanation
Indices: 776068--776193 Score: 234
Period size: 52 Copynumber: 2.4 Consensus size: 52
776058 CACTGATCTT
*
776068 TGTATCGATACATGCAGGCAAATTTGCCTAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
776120 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
776172 TGTATCGATACATGCAGACAAA
1 TGTATCGATACATGCAGGCAAA
776194 ATTTCATATT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:777579 original size:18 final size:19
Alignment explanation
Indices: 777558--777598 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
777548 AATTGTCAAA
777558 ACAC-TTAAAAGTATCGAT
1 ACACATTAAAAGTATCGAT
*
777576 ACACAATTCAAAGTATCGAT
1 ACAC-ATTAAAAGTATCGAT
777596 ACA
1 ACA
777599 TGTTGCAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
20 16 0.80
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.24
Consensus pattern (19 bp):
ACACATTAAAAGTATCGAT
Found at i:777697 original size:13 final size:13
Alignment explanation
Indices: 777679--777704 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
777669 TACACCAAGT
777679 ATGTATCGATACA
1 ATGTATCGATACA
777692 ATGTATCGATACA
1 ATGTATCGATACA
777705 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:777702 original size:32 final size:33
Alignment explanation
Indices: 777661--777724 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
777651 TAGCCAAACT
**
777661 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
777693 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
777725 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:781789 original size:15 final size:15
Alignment explanation
Indices: 781769--781799 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
781759 TAAAAATGTC
*
781769 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
781784 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
781799 C
1 C
781800 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:784066 original size:20 final size:20
Alignment explanation
Indices: 784023--784068 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
784013 AAATCTTTTG
784023 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
784044 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
784064 CAAAA
1 CAAAA
784069 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:789799 original size:13 final size:13
Alignment explanation
Indices: 789781--789808 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
789771 ATACATTATT
789781 CAATGTATCGATA
1 CAATGTATCGATA
789794 CAATGTATCGATA
1 CAATGTATCGATA
789807 CA
1 CA
789809 TTGATCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:789804 original size:33 final size:33
Alignment explanation
Indices: 789762--789828 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
789752 TTGCCAAGGA
789762 AATGTATCGATACATT-ATTCAATGTATCGATAC
1 AATGTATCGATACATTGA-TCAATGTATCGATAC
**
789795 AATGTATCGATACATTGATCTTTGTATCGATAC
1 AATGTATCGATACATTGATCAATGTATCGATAC
789828 A
1 A
789829 TCTAGAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (33 bp):
AATGTATCGATACATTGATCAATGTATCGATAC
Found at i:790768 original size:20 final size:20
Alignment explanation
Indices: 790723--790768 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
790713 GTTAACAGCC
*
790723 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTTGAG
790743 CTATGTTTCATGCA-TTTGCAG
1 C-ATGTTTCATGCATTTTG-AG
790764 CATGT
1 CATGT
790769 CCAGCACCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (20 bp):
CATGTTTCATGCATTTTGAG
Found at i:793941 original size:13 final size:13
Alignment explanation
Indices: 793923--793947 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
793913 CATAAAATGT
793923 TGTATCGATACAA
1 TGTATCGATACAA
793936 TGTATCGATACA
1 TGTATCGATACA
793948 TATTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:794031 original size:13 final size:13
Alignment explanation
Indices: 794013--794037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
794003 ATTACTCACA
794013 TGTATCGATACAT
1 TGTATCGATACAT
794026 TGTATCGATACA
1 TGTATCGATACA
794038 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:794174 original size:52 final size:52
Alignment explanation
Indices: 794046--794166 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
794036 CACTGATCTT
*
794046 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
794098 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
794150 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
794167 ATAAATTTTC
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:797382 original size:67 final size:68
Alignment explanation
Indices: 797271--797429 Score: 196
Period size: 67 Copynumber: 2.4 Consensus size: 68
797261 AGTAACCTAT
* * * *
797271 TGTCAC-TAGCTTATATACTGAAATGTCAATCAAACCTTTGAGGTCGTTTATTAGTATAAGTGAC
1 TGTCACTTA-CTTATATACTGAGATGTCAATCAAACCTTTAAGGTCGTTTATTAGCATAAATGAC
797335 TTGG
65 TTGG
* ** * *
797339 T-TCACTTACTTATATGCTGAGATGTTGATCAGACCTTTAAGGTCGTTTATTAGCCTAAATGACT
1 TGTCACTTACTTATATACTGAGATGTCAATCAAACCTTTAAGGTCGTTTATTAGCATAAATGACT
797403 TGG
66 TGG
**
797406 TGTCACTTGTTTATATACTGAGAT
1 TGTCACTTACTTATATACTGAGAT
797430 TTCGAATATA
Statistics
Matches: 77, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
67 55 0.71
68 22 0.29
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (68 bp):
TGTCACTTACTTATATACTGAGATGTCAATCAAACCTTTAAGGTCGTTTATTAGCATAAATGACT
TGG
Found at i:799649 original size:27 final size:27
Alignment explanation
Indices: 799611--799663 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
799601 ACCGGATATT
799611 GAATTTTATCTATTTCCTTAACTAAGA
1 GAATTTTATCTATTTCCTTAACTAAGA
799638 GAATTTTATCTATTTCCTTAACTAAG
1 GAATTTTATCTATTTCCTTAACTAAG
799664 GCAACGATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.45
Consensus pattern (27 bp):
GAATTTTATCTATTTCCTTAACTAAGA
Found at i:804672 original size:20 final size:21
Alignment explanation
Indices: 804639--804677 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
804629 AAAATATAAA
*
804639 TAAAATTAATTATTTATATTC
1 TAAAATTAATTATTAATATTC
*
804660 TAAAATTTA-TATTAATAT
1 TAAAATTAATTATTAATAT
804678 ATATTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAAATTAATTATTAATATTC
Found at i:805205 original size:161 final size:158
Alignment explanation
Indices: 804982--805287 Score: 451
Period size: 161 Copynumber: 1.9 Consensus size: 158
804972 TTCCTATTAA
* *
804982 AAAATATTTTATACTAAACCCAAATTATTTTTTAAAAATAAAAATTATAGAAATATTTTTATATT
1 AAAATATTTTATACTAAACCCAAATTATTTTTAAAAAATAAAAATTATAAAAATATTTTTATATT
805047 AAATCTCAAATTACTATTT-AAAAATAATAAAATTTT-AAAAATATTTTATATTAAAT-TCTAAA
66 AAATCTCAAATTACTATTTAAAAAAT-A-AAAATTTTAAAAAATATTTTATATTAAATCTC-AAA
805109 TTACTA-TTTAAAAATAATAAAAAGTTTTAG
128 TTACTATTTTAAAAATAATAAAAAGTTTTAG
* * *
805139 AAAATATTTTATACTAAATCTCGAATTGTTATTTAAAAATAATAAAAATTATAAAAA-ATATTTT
1 AAAATATTTTATACTAAA-CCCAAATTATT-TTT-AAAA-AATAAAAATTATAAAAATAT-TTTT
*
805203 ATATTAAATCTTAAATTACTATTTAAAAAATAAAAATTTTAAAAAATATTTTATATTAAATCTCA
61 ATATTAAATCTCAAATTACTATTTAAAAAATAAAAATTTTAAAAAATATTTTATATTAAATCTCA
805268 AATTACTATTTTAAAAATAA
126 AATTACTATTTTAAAAATAA
805288 AAATTATATT
Statistics
Matches: 134, Mismatches: 6, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
157 18 0.13
158 8 0.06
159 3 0.02
160 13 0.10
161 73 0.54
162 19 0.14
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.41
Consensus pattern (158 bp):
AAAATATTTTATACTAAACCCAAATTATTTTTAAAAAATAAAAATTATAAAAATATTTTTATATT
AAATCTCAAATTACTATTTAAAAAATAAAAATTTTAAAAAATATTTTATATTAAATCTCAAATTA
CTATTTTAAAAATAATAAAAAGTTTTAG
Found at i:805212 original size:54 final size:53
Alignment explanation
Indices: 804979--805394 Score: 402
Period size: 52 Copynumber: 8.0 Consensus size: 53
804969 AATTTCCTAT
* * **
804979 TAAAAAATATTTTATACTAAA-CCCAAATTA-T-TTTTTAAAAATAAAAATTA
1 TAAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAAATAAAAATTA
*
805029 T-AGAAATATTTTTATATTAAATCTCAAATTACTATTTAAAAATAAT-AAAATT-
1 TAAAAAATA-TTTTATATTAAATCTCAAATTACTATTTAAAAA-AATAAAAATTA
* *
805081 TTAAAAATATTTTATATTAAAT-TCTAAATTACTATTTAAAAATAATAAAAAGTTT
1 TAAAAAATATTTTATATTAAATCTC-AAATTACTATTTAAAAA-AATAAAAA-TTA
* * * **
805136 TAGAAAATATTTTATACTAAATCTCGAATTGTTATTTAAAAATAATAAAAATTA
1 TAAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAA-AATAAAAATTA
* *
805190 TAAAAAATATTTTATATTAAATCTTAAATTACTATTT-AAAAAATAAAAATTT
1 TAAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAAATAAAAATTA
*
805242 TAAAAAATATTTTATATTAAATCTCAAATTACTATTT-TAAAAATAAAAA-T-
1 TAAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAAATAAAAATTA
* * *
805292 T-----ATATTTTATATCAAATTTCTAATTACTATTTAAAAATAATAAAAA--A
1 TAAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAA-AATAAAAATTA
*** ** *
805339 T-AAAAATATTTTAGGGTAAATCTTGAATTATTATTTTAAAAAAATAAAAAATTA
1 TAAAAAATATTTTATATTAAATCTCAAATTACTA-TTTAAAAAAAT-AAAAATTA
805393 TA
1 TA
805395 TATTTATTGG
Statistics
Matches: 309, Mismatches: 34, Indels: 41
0.80 0.09 0.11
Matches are distributed among these distances:
45 28 0.09
46 3 0.01
47 9 0.03
49 6 0.02
50 13 0.04
51 34 0.11
52 106 0.34
53 26 0.08
54 40 0.13
55 42 0.14
56 2 0.01
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (53 bp):
TAAAAAATATTTTATATTAAATCTCAAATTACTATTTAAAAAAATAAAAATTA
Found at i:805300 original size:97 final size:97
Alignment explanation
Indices: 805189--805401 Score: 240
Period size: 96 Copynumber: 2.2 Consensus size: 97
805179 AATAAAAATT
* *
805189 ATAAAAA--ATATTTTATATTAAATCTT-AAATTACTATTT-AAAA-AATAAAAATTTTAAAAAA
1 ATAAAAATTATATTTTATATCAAAT-TTCAAATTACTATTTAAAAATAATAAAAA--AT-AAAAA
* *
805249 TATTTTATATTAAATCTCAAATTACTATTTT-AAAA
62 TATTTTAGAGTAAATCTCAAATTACTATTTTAAAAA
*
805284 ATAAAAATTATATTTTATATCAAATTTCTAATTACTATTTAAAAATAATAAAAAATAAAAATATT
1 ATAAAAATTATATTTTATATCAAATTTCAAATTACTATTTAAAAATAATAAAAAATAAAAATATT
* ** *
805349 TTAGGGTAAATCTTGAATTATTATTTTAAAAAA
66 TTAGAGTAAATCTCAAATTACTATTTT-AAAAA
805382 ATAAAAAATTATATATTTAT
1 AT-AAAAATTATAT-TTTAT
805402 TGGGTTTAAT
Statistics
Matches: 100, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
95 7 0.07
96 32 0.32
97 27 0.27
98 10 0.10
99 19 0.19
100 5 0.05
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (97 bp):
ATAAAAATTATATTTTATATCAAATTTCAAATTACTATTTAAAAATAATAAAAAATAAAAATATT
TTAGAGTAAATCTCAAATTACTATTTTAAAAA
Found at i:805781 original size:22 final size:21
Alignment explanation
Indices: 805756--805802 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
805746 TTTTACTATA
* *
805756 TTTACTATATGTACATATTAT
1 TTTACTACATATACATATTAT
*
805777 CTTTATTACATATACATATTAT
1 -TTTACTACATATACATATTAT
805799 TTTA
1 TTTA
805803 TTCGAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTACTACATATACATATTAT
Found at i:805945 original size:22 final size:22
Alignment explanation
Indices: 805853--805946 Score: 100
Period size: 22 Copynumber: 4.3 Consensus size: 22
805843 TAGGCAAAAA
*
805853 ATATTATTTTT-TTAAATGTAC
1 ATATTATTTTTACTAAATGTAC
* *
805874 ATATTGTTTTTACTAAATGCAC
1 ATATTATTTTTACTAAATGTAC
* * * *
805896 ATACTGTTTTTACTAAATATAT
1 ATATTATTTTTACTAAATGTAC
* *
805918 ACATTATTTTTACTAAATGTAT
1 ATATTATTTTTACTAAATGTAC
805940 ATATTAT
1 ATATTAT
805947 CTTATTGAAA
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
21 10 0.17
22 50 0.83
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (22 bp):
ATATTATTTTTACTAAATGTAC
Found at i:806434 original size:64 final size:64
Alignment explanation
Indices: 806333--806460 Score: 238
Period size: 64 Copynumber: 2.0 Consensus size: 64
806323 TGCCTAAAAT
* *
806333 CAATTATTTTCAATTATGAATTAATTAAAATTGAGTTTTAAATGACTATAAAACTCTATTACAA
1 CAATTATTTTCAATTATGAATTAATTAAAATTAAGTTTTAAATAACTATAAAACTCTATTACAA
806397 CAATTATTTTCAATTATGAATTAATTAAAATTAAGTTTTAAATAACTATAAAACTCTATTACAA
1 CAATTATTTTCAATTATGAATTAATTAAAATTAAGTTTTAAATAACTATAAAACTCTATTACAA
806461 ATATAAAACT
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (64 bp):
CAATTATTTTCAATTATGAATTAATTAAAATTAAGTTTTAAATAACTATAAAACTCTATTACAA
Found at i:810321 original size:2 final size:2
Alignment explanation
Indices: 810272--810302 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
810262 TAATTGCTTT
*
810272 TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
810303 AATTTTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:813058 original size:20 final size:19
Alignment explanation
Indices: 813008--813064 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
812998 ATGTATCGAT
* *
813008 ACATTGTATGGATACATGT
1 ACATTGTATCGATACATGG
* *
813027 TCATTATATCGATACATGG
1 ACATTGTATCGATACATGG
813046 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
813065 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:813127 original size:13 final size:13
Alignment explanation
Indices: 813109--813139 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
813099 CGATACATGG
*
813109 TACATTCTATCGA
1 TACATTATATCGA
813122 TACATTATATCGA
1 TACATTATATCGA
813135 TACAT
1 TACAT
813140 GATGAATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.39
Consensus pattern (13 bp):
TACATTATATCGA
Found at i:813138 original size:33 final size:33
Alignment explanation
Indices: 813096--813160 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
813086 CCACTGTTTG
*
813096 TATCGATACATGGT-ACATTCTATCGATACATTA
1 TATCGATACATGATGA-ATTCTATCGATACATTA
*
813129 TATCGATACATGATGAATTGTATCGATACATT
1 TATCGATACATGATGAATTCTATCGATACATT
813161 GCTTGTAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (33 bp):
TATCGATACATGATGAATTCTATCGATACATTA
Found at i:819266 original size:21 final size:22
Alignment explanation
Indices: 819242--819282 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
819232 GAAATGCTGT
819242 AAATGCATGAAACAT-AGCTCA
1 AAATGCATGAAACATGAGCTCA
* *
819263 AAATGGATGAATCATGAGCT
1 AAATGCATGAAACATGAGCT
819283 GTTAACATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (22 bp):
AAATGCATGAAACATGAGCTCA
Found at i:820238 original size:13 final size:13
Alignment explanation
Indices: 820220--820247 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
820210 ATACAAAGAT
820220 CAATGTATCGATA
1 CAATGTATCGATA
820233 CAATGTATCGATA
1 CAATGTATCGATA
820246 CA
1 CA
820248 TTGAGCAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:820244 original size:33 final size:33
Alignment explanation
Indices: 820202--820267 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
820192 TTTTACCCAG
*
820202 ATGTATCGATACAAAGATCAATGTATCGATACA
1 ATGTATCGATACAAAGAGCAATGTATCGATACA
**
820235 ATGTATCGATACATTGAGCAATGTATCGATACA
1 ATGTATCGATACAAAGAGCAATGTATCGATACA
820268 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGAGCAATGTATCGATACA
Found at i:820307 original size:13 final size:13
Alignment explanation
Indices: 820285--820342 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
820275 GGCAGTAGCT
*
820285 TTGTAGCGATACA
1 TTGTATCGATACA
820298 TTGTATCGATACAACA
1 TTGTATCGAT---ACA
820314 CTTATGTATCGATACA
1 --T-TGTATCGATACA
820330 TTGTATCGATACA
1 TTGTATCGATACA
820343 ACACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:820323 original size:19 final size:19
Alignment explanation
Indices: 820299--820361 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
820289 AGCGATACAT
820299 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
820318 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
820331 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
820350 TGTATCGATACA
1 TGTATCGATACA
820362 GTTACTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 1 0.03
19 21 0.55
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:820332 original size:32 final size:32
Alignment explanation
Indices: 820286--820361 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
820276 GCAGTAGCTT
*
820286 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
820318 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
820350 TGTATCGATACA
1 TGTATCGATACA
820362 GTTACTGTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:820757 original size:19 final size:19
Alignment explanation
Indices: 820713--820768 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
820703 TTGCCAATCT
* **
820713 CATGTATTGATACAATTGTC
1 CATGTATCGATACAA-TGAA
820733 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
820752 CATGTATCGATACAATG
1 CATGTATCGATACAATG
820769 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:820771 original size:13 final size:13
Alignment explanation
Indices: 820753--820779 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
820743 TACAATGAAC
820753 ATGTATCGATACA
1 ATGTATCGATACA
820766 ATGTATCGATACA
1 ATGTATCGATACA
820779 A
1 A
820780 AGCATAATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:821355 original size:21 final size:22
Alignment explanation
Indices: 821323--821400 Score: 104
Period size: 22 Copynumber: 3.5 Consensus size: 22
821313 AGTTTTCATT
*
821323 TTTCTCCCCCTTAATTAAAGAA
1 TTTCTCCCCTTTAATTAAAGAA
*
821345 TTTCTCCCCTTTAA-TAAAAAA
1 TTTCTCCCCTTTAATTAAAGAA
* *
821366 TTTCTCCCCTTTAATCAAAGCA
1 TTTCTCCCCTTTAATTAAAGAA
821388 TTTCTCCCTCTTT
1 TTTCTCCC-CTTT
821401 GTCAAATCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 20 0.41
22 25 0.51
23 4 0.08
ACGTcount: A:0.27, C:0.29, G:0.03, T:0.41
Consensus pattern (22 bp):
TTTCTCCCCTTTAATTAAAGAA
Found at i:823226 original size:18 final size:21
Alignment explanation
Indices: 823183--823226 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 21
823173 ATTTGAAGAA
823183 TTTTGAAGAAGGATTGTTAGG
1 TTTTGAAGAAGGATTGTTAGG
*
823204 GTTTG-AGAA-GATT-TTAGG
1 TTTTGAAGAAGGATTGTTAGG
823222 TTTTG
1 TTTTG
823227 GGGTGTTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 9 0.43
19 4 0.19
20 4 0.19
21 4 0.19
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (21 bp):
TTTTGAAGAAGGATTGTTAGG
Found at i:834255 original size:20 final size:20
Alignment explanation
Indices: 834210--834256 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
834200 GTTAACAGCC
* *
834210 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTTCAG
834230 CTATGTTTCATGC-TTTTACAG
1 C-ATGTTTCATGCATTTT-CAG
834251 CATGTT
1 CATGTT
834257 CAGCACCTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.21, C:0.17, G:0.17, T:0.45
Consensus pattern (20 bp):
CATGTTTCATGCATTTTCAG
Found at i:836778 original size:19 final size:20
Alignment explanation
Indices: 836750--836800 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
836740 CATTTTATGG
* *
836750 TGTATTGATACAATG-AACA
1 TGTATCGATACAAAGTAACA
*
836769 TGTATCGATACAAAGTAATA
1 TGTATCGATACAAAGTAACA
836789 TGTATCGATACA
1 TGTATCGATACA
836801 TCTAGGTGTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (20 bp):
TGTATCGATACAAAGTAACA
Found at i:837808 original size:15 final size:16
Alignment explanation
Indices: 837778--837810 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
837768 AACAAAGATG
837778 AAGAAAAAATAAAAGA
1 AAGAAAAAATAAAAGA
*
837794 AAGAGAAAA-AAAAGA
1 AAGAAAAAATAAAAGA
837809 AA
1 AA
837811 CTTGTGTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (16 bp):
AAGAAAAAATAAAAGA
Found at i:840550 original size:154 final size:154
Alignment explanation
Indices: 840187--840579 Score: 452
Period size: 154 Copynumber: 2.5 Consensus size: 154
840177 CCCTAACTTA
* * * * *
840187 TACCTTCAGCATAAAAGCAAACCTAGTAAAAACCTAAGAGTTGGTTTTGAAAAATTACAAAAATG
1 TACCTTCGGCATAAAAGCAGACCTAGTAACAACCTAAGA-CTCGTTTTGAAAAATTACAAAAATG
* * *
840252 CCCCTAGGGCATACCTTCAATGTAAAAGTACCTGATATCTCTAAAGGACTTAAAAAGGATTTTAA
65 ACCCTAGGGCATACCTTCAATGTAAAAGTACCCGATACCTCTAAAGGACTTAAAAAGGATTTTAA
*
840317 AAGGGATGAACCTATCCTAAATGCC
130 AAGAGATGAACCTATCCTAAATGCC
* * * * ** * **
840342 CACCTTTGGCATAAAAACGGACCCGGTGACAACCTAAGACTCGATTCTTG-AAAATTATGAAAAT
1 TACCTTCGGCATAAAAGCAGACCTAGTAACAACCTAAGACTCG-TT-TTGAAAAATTACAAAAAT
* *
840406 -ACCCTAAGGG-ATACCTTCGATGTAAAAGTACCCGATACC-CTTAAAGGACTTAACAAGGATTT
64 GACCCT-AGGGCATACCTTCAATGTAAAAGTACCCGATACCTC-TAAAGGACTTAAAAAGGATTT
*
840468 TAAAAGAGATGAATCTATCCTAAATGCC
127 TAAAAGAGATGAACCTATCCTAAATGCC
* * * *
840496 TACCTTCGGCATGAAAGCAGACCTAGCAACAACCTAGGACTCAGTTTTGAAAAATTACAAAGATG
1 TACCTTCGGCATAAAAGCAGACCTAGTAACAACCTAAGACTC-GTTTTGAAAAATTACAAAAATG
* *
840561 CCCCTATGGGTATACCTTC
65 ACCCTA-GGGCATACCTTC
840580 GACATGAAAG
Statistics
Matches: 194, Mismatches: 35, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
153 4 0.02
154 124 0.64
155 55 0.28
156 11 0.06
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (154 bp):
TACCTTCGGCATAAAAGCAGACCTAGTAACAACCTAAGACTCGTTTTGAAAAATTACAAAAATGA
CCCTAGGGCATACCTTCAATGTAAAAGTACCCGATACCTCTAAAGGACTTAAAAAGGATTTTAAA
AGAGATGAACCTATCCTAAATGCC
Found at i:842045 original size:22 final size:22
Alignment explanation
Indices: 842003--842043 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
841993 CGAAAAATTG
842003 ATTTTTTTCTTAGTGTTTTTGT
1 ATTTTTTTCTTAGTGTTTTTGT
*
842025 ATTTTTTTCTT-GTTTTTTT
1 ATTTTTTTCTTAGTGTTTTT
842044 TGCTTCAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.07, C:0.05, G:0.10, T:0.78
Consensus pattern (22 bp):
ATTTTTTTCTTAGTGTTTTTGT
Found at i:844158 original size:48 final size:48
Alignment explanation
Indices: 844087--844183 Score: 169
Period size: 48 Copynumber: 2.0 Consensus size: 48
844077 TAGGAAAAGG
844087 TTTGTTCTTTAAGATAAGAGCTAACATGAACATTGAAATCTACTTAGA
1 TTTGTTCTTTAAGATAAGAGCTAACATGAACATTGAAATCTACTTAGA
*
844135 TTTGTTCTTTAAGATGAA-AGCTAACATGAACATTGAAATCTATTTAGA
1 TTTGTTCTTTAAGAT-AAGAGCTAACATGAACATTGAAATCTACTTAGA
844183 T
1 T
844184 GTTGACTTGG
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 45 0.96
49 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (48 bp):
TTTGTTCTTTAAGATAAGAGCTAACATGAACATTGAAATCTACTTAGA
Found at i:847517 original size:36 final size:35
Alignment explanation
Indices: 847429--847525 Score: 132
Period size: 36 Copynumber: 2.9 Consensus size: 35
847419 CTTACAACAT
*
847429 TATCTTTT-GAAGGCTAAGATAGAA---C-CTTCC
1 TATCTTTTCAAAGGCTAAGATAGAACCTCTCTTCC
*
847459 TATCTTTTCACAGGCTAAGATAGAACCTCTCTTCC
1 TATCTTTTCAAAGGCTAAGATAGAACCTCTCTTCC
847494 TATCTTTTCCAAAGGCTAAGATAGAACCTCTC
1 TATCTTTT-CAAAGGCTAAGATAGAACCTCTC
847526 AATCACTTCA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
30 8 0.14
31 14 0.24
34 1 0.02
35 13 0.22
36 22 0.38
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (35 bp):
TATCTTTTCAAAGGCTAAGATAGAACCTCTCTTCC
Found at i:847989 original size:20 final size:20
Alignment explanation
Indices: 847962--848009 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
847952 TCAATGTACT
847962 GATACAATTCACCATGTATC
1 GATACAATTCACCATGTATC
* *
847982 GATCCAATTCATCATGTATC
1 GATACAATTCACCATGTATC
848002 GATACAAT
1 GATACAAT
848010 GTGTCGATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.31
Consensus pattern (20 bp):
GATACAATTCACCATGTATC
Found at i:848016 original size:13 final size:13
Alignment explanation
Indices: 847995--848031 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
847985 CCAATTCATC
847995 ATGTATCGATACA
1 ATGTATCGATACA
*
848008 ATGTGTCGATACA
1 ATGTATCGATACA
848021 ATGTATCGATA
1 ATGTATCGATA
848032 TAAAGTGCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:848118 original size:13 final size:13
Alignment explanation
Indices: 848100--848125 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
848090 TACCATGAAC
848100 ATGTATCGATATA
1 ATGTATCGATATA
848113 ATGTATCGATATA
1 ATGTATCGATATA
848126 TCTGGGTGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
ATGTATCGATATA
Found at i:851387 original size:21 final size:20
Alignment explanation
Indices: 851363--851412 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
851353 TTTTATTAGT
*
851363 TAACTCATCATTTTCATTTTG
1 TAACTCATCATTTTC-TTTTC
*
851384 TAACTCACTTATTTTCTTTTC
1 TAACTCA-TCATTTTCTTTTC
*
851405 CAACTCAT
1 TAACTCAT
851413 TTACTTTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.50
Consensus pattern (20 bp):
TAACTCATCATTTTCTTTTC
Found at i:851420 original size:21 final size:21
Alignment explanation
Indices: 851385--851424 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
851375 TTCATTTTGT
*
851385 AACTCACTTATTTTCTTTTCC
1 AACTCACTTACTTTCTTTTCC
*
851406 AACTCATTTACTTTCTTTT
1 AACTCACTTACTTTCTTTT
851425 GAAGAGTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (21 bp):
AACTCACTTACTTTCTTTTCC
Found at i:853006 original size:30 final size:31
Alignment explanation
Indices: 852972--853034 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
852962 CCTTACAACA
* *
852972 CTATCTTTTGA-AGGCTAAGATAGAACCTCC
1 CTATCTTTTCACAAGCTAAGATAGAACCTCC
853002 CTATCTTTTCACAAGCTAAGATAGAACCTCC
1 CTATCTTTTCACAAGCTAAGATAGAACCTCC
853033 CT
1 CT
853035 CCCTATCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 10 0.33
31 20 0.67
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (31 bp):
CTATCTTTTCACAAGCTAAGATAGAACCTCC
Found at i:853023 original size:31 final size:30
Alignment explanation
Indices: 852972--853067 Score: 102
Period size: 36 Copynumber: 3.0 Consensus size: 30
852962 CCTTACAACA
* *
852972 CTATCTTTTGAAGGCTAAGATAGAACCTCC
1 CTATCTTTTCAAAGCTAAGATAGAACCTCC
853002 CTATCTTTTCACAAGCTAAGATAGAACCTCCCTCC
1 CTATCTTTTCA-AAGCTAAGATAGAA----CCTCC
*
853037 CTATCTTTTTCAAAGGCTAAGATAAAACCTC
1 CTATC-TTTTCAAA-GCTAAGATAGAACCTC
853068 TCAATTACTT
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
30 10 0.18
31 13 0.23
32 4 0.07
35 12 0.21
36 17 0.30
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.30
Consensus pattern (30 bp):
CTATCTTTTCAAAGCTAAGATAGAACCTCC
Found at i:853056 original size:36 final size:36
Alignment explanation
Indices: 852982--853067 Score: 112
Period size: 36 Copynumber: 2.5 Consensus size: 36
852972 CTATCTTTTG
852982 AAGGCTAAGATAGAA----CCTCCCTATCTTTTCAC
1 AAGGCTAAGATAGAACCTCCCTCCCTATCTTTTCAC
853014 AA-GCTAAGATAGAACCTCCCTCCCTATCTTTTTCA-
1 AAGGCTAAGATAGAACCTCCCTCCCTATC-TTTTCAC
*
853049 AAGGCTAAGATAAAACCTC
1 AAGGCTAAGATAGAACCTC
853068 TCAATTACTT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
31 12 0.26
32 2 0.04
35 12 0.26
36 21 0.45
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.27
Consensus pattern (36 bp):
AAGGCTAAGATAGAACCTCCCTCCCTATCTTTTCAC
Found at i:853524 original size:20 final size:20
Alignment explanation
Indices: 853499--853554 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
853489 GTTGGGCTCA
*
853499 ATGTATCAATACAATTCACC
1 ATGTATCGATACAATTCACC
*
853519 ATGTATCGATACAATTCATC
1 ATGTATCGATACAATTCACC
853539 ATGTATCGATACAATT
1 ATGTATCGATACAATT
853555 TATTGATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCACC
Found at i:853616 original size:20 final size:20
Alignment explanation
Indices: 853591--853643 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
853581 CTGCCAGTTT
*
853591 TATGTATCCATA-TAATTCAA
1 TATGTATCCATACTAA-GCAA
*
853611 TATGTATCGATACTAAGCAA
1 TATGTATCCATACTAAGCAA
*
853631 TATGTATCGATAC
1 TATGTATCCATAC
853644 ATCAGGGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 27 0.90
21 3 0.10
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (20 bp):
TATGTATCCATACTAAGCAA
Found at i:859313 original size:156 final size:154
Alignment explanation
Indices: 859022--859711 Score: 653
Period size: 155 Copynumber: 4.5 Consensus size: 154
859012 TAAGTTCAAG
* * * * * * * * *
859022 AAAAATTATGAAAATGCTCCTATGGGATACCTTCAACGTAAAAGT-TCCCATA-TCCTAAAAGAC
1 AAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTATCTCGTACCCCTAAAGGAC
* * * **
859085 TT-AAAAGGACTATAAAAGGGATGAACATATCCTAAATACCCACTTTCAGCATAAAAGCAGATTC
66 TTAAAAAGGACTATAAAAGGGATAAAC-TATCCTAAATACCCACCTTCGGCATAAAAGCAGACCC
* *
859149 GATTATAACCTAAGACTCGGTTCTA
130 GATGATAACCTAAGACTCGATTCTA
*
859174 AAAAATTATGAAAATACCCCTAGGGGATACTTTCGACGTGAAAGTATCTCGCTACCCCTAAAGGA
1 AAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTATCTCG-TACCCCTAAAGGA
* * *
859239 CTTAAAAAGGACTATAAAAGGGGTAAACTAATCCTAAATACCCATCTTCGGCATAAAAGCATACC
65 CTTAAAAAGGACTATAAAAGGGATAAACT-ATCCTAAATACCCACCTTCGGCATAAAAGCAGACC
* * *
859304 C-AGTGATAACCTAGGA-TCGATTTTG
129 CGA-TGATAACCTAAGACTCGATTCTA
* ** * * *
859329 AAAAATTA-CAAAATTATTCCTAGGGGACACCTTCGACGTGAAAGTATCTTAGTACCCTTAAAGG
1 AAAAATTATGAAAA-TACCCCTAGGGGATACCTTCGACGTGAAAGTATC-TCGTACCCCTAAAGG
* * * *
859393 ATTTAAACAA-GATTATAAAAGGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGA
64 ACTTAAA-AAGGACTATAAAAGGGAT-AAACTATCCTAAATACCCACCTTCGGCATAAAAGCAGA
* *
859457 CCCGATGATAACCTATA-ACTCGATTTTG
127 CCCGATGATAACCTA-AGACTCGATTCTA
* * * *
859485 AAAAATTACGAAAATACCCCTAGGGAATACCTTCGAAGTGAAAGTA-CTCGATAACCCTAAAGGA
1 AAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTATCTCG-TACCCCTAAAGGA
* * * * * * * * * *
859549 CTTAAAGAGG-GTAATAGAAGAGAGGAACCTATCCTAAATATCTACCTTCGACATAAAAGCAAAC
65 CTTAAAAAGGACT-ATAAAAGGGA-TAAACTATCCTAAATACCCACCTTCGGCATAAAAGCAGAC
* ** * *
859613 CCGGTGGCAACCTAGGACTCGGTTCTA
128 CCGATGATAACCTAAGACTCGATTCTA
* * * * * *
859640 AAAAATTATGAAATTACCCCTAGGAGATACCTTCGACGTAAAAGTACCTAGTATCCCTAAAGGAC
1 AAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTATCTCGTACCCCTAAAGGAC
*
859705 TTTAAAA
66 TTAAAAA
859712 TGATATGGAT
Statistics
Matches: 443, Mismatches: 75, Indels: 37
0.80 0.14 0.07
Matches are distributed among these distances:
152 39 0.09
153 3 0.01
154 10 0.02
155 268 0.60
156 119 0.27
157 4 0.01
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (154 bp):
AAAAATTATGAAAATACCCCTAGGGGATACCTTCGACGTGAAAGTATCTCGTACCCCTAAAGGAC
TTAAAAAGGACTATAAAAGGGATAAACTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCG
ATGATAACCTAAGACTCGATTCTA
Found at i:859674 original size:311 final size:311
Alignment explanation
Indices: 859050--859710 Score: 777
Period size: 311 Copynumber: 2.1 Consensus size: 311
859040 CCTATGGGAT
* * * * * *
859050 ACCTTCAACGTAAAAGTTCCCA-TAT-CCTAAAAGAC-TTAAA-AGGACTATAAAAGGGATGAAC
1 ACCTTCGACGTAAAAGTACCTAGTATCCCTAAAGGACTTTAAACAAGATTATAAAAGGGATGAAC
* ** * *
859111 ATATCCTAAATACCCACTTTCAGCATAAAAGCAGATTCGATTATAACCTAAGACTCGGTTCTAAA
66 ATATCCTAAATACCCACCTTCAGCATAAAAGCAGACCCGATGATAACCTAAGACTCGATTCTAAA
* * * * * *
859176 AAATTATGAAAATACCCCTAGGGGATACTTTCGACGTGAAAGTATCTCGCTACCCCTAAAGGACT
131 AAATTACGAAAATACCCCTAGGGAATACCTTCGAAGTGAAAGTATCTCGATAACCCTAAAGGACT
* * * *
859241 TAAAAAGGACTATAAAAGGGGTAAACTAATCCTAAATACCCATCTTCGGCATAAAAGCATACCCA
196 TAAAAAGGACTATAAAAGAGGTAAACTAATCCTAAATACCCACCTTCGACATAAAAGCAAACCCA
* * * ** *
859306 GTGATAACCTAGGATCGATTTTGAAAAATTACAAAATTATTCCTAGGGGAC
261 GTGACAACCTAGGATCGATTCTAAAAAATTACAAAATTACCCCTAGGAGAC
* *
859357 ACCTTCGACGTGAAAGTATCTTAGTA-CCCTTAAAGGA-TTTAAACAAGATTATAAAAGGGATGA
1 ACCTTCGACGTAAAAGTA-CCTAGTATCCC-TAAAGGACTTTAAACAAGATTATAAAAGGGATGA
* * * *
859420 ACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACCCGATGATAACCTATA-ACTCGATTTT
64 ACATATCCTAAATACCCACCTTCAGCATAAAAGCAGACCCGATGATAACCTA-AGACTCGATTCT
*
859484 GAAAAATTACGAAAATACCCCTAGGGAATACCTTCGAAGTGAAAGTA-CTCGATAACCCTAAAGG
128 AAAAAATTACGAAAATACCCCTAGGGAATACCTTCGAAGTGAAAGTATCTCGATAACCCTAAAGG
* * * * *
859548 ACTTAAAGAGG-GTAATAGAAGAGAGG-AACCT-ATCCTAAATATCTACCTTCGACATAAAAGCA
193 ACTTAAAAAGGACT-ATA-AA-AGAGGTAAACTAATCCTAAATACCCACCTTCGACATAAAAGCA
* * * ** *
859610 AACCCGGTGGCAACCTAGGACTCGGTTCTAAAAAATTATGAAATTACCCCTAGGAGAT
255 AACCCAGTGACAACCTAGGA-TCGATTCTAAAAAATTACAAAATTACCCCTAGGAGAC
859668 ACCTTCGACGTAAAAGTACCTAGTATCCCTAAAGGACTTTAAA
1 ACCTTCGACGTAAAAGTACCTAGTATCCCTAAAGGACTTTAAA
859711 ATGATATGGA
Statistics
Matches: 294, Mismatches: 47, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
307 15 0.05
308 2 0.01
309 5 0.02
310 95 0.32
311 172 0.59
312 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.16, T:0.24
Consensus pattern (311 bp):
ACCTTCGACGTAAAAGTACCTAGTATCCCTAAAGGACTTTAAACAAGATTATAAAAGGGATGAAC
ATATCCTAAATACCCACCTTCAGCATAAAAGCAGACCCGATGATAACCTAAGACTCGATTCTAAA
AAATTACGAAAATACCCCTAGGGAATACCTTCGAAGTGAAAGTATCTCGATAACCCTAAAGGACT
TAAAAAGGACTATAAAAGAGGTAAACTAATCCTAAATACCCACCTTCGACATAAAAGCAAACCCA
GTGACAACCTAGGATCGATTCTAAAAAATTACAAAATTACCCCTAGGAGAC
Found at i:861178 original size:21 final size:21
Alignment explanation
Indices: 861134--861180 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
861124 TTGGTGGAAA
*
861134 TTTGGTTTTTTTTCTTAGTGTT
1 TTTGGCTTTTTTTCTTA-TGTT
861156 TTTGGCTTTTTTTCTT-TGATT
1 TTTGGCTTTTTTTCTTATG-TT
861177 TTTG
1 TTTG
861181 CTAAAATCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 6 0.26
22 15 0.65
ACGTcount: A:0.04, C:0.06, G:0.17, T:0.72
Consensus pattern (21 bp):
TTTGGCTTTTTTTCTTATGTT
Found at i:861491 original size:14 final size:13
Alignment explanation
Indices: 861474--861507 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
861464 AAATCAATAG
861474 AATTAAATTGTAAA
1 AATTAAATT-TAAA
861488 AATTAAAATTTAAA
1 AATT-AAATTTAAA
861502 AATTAA
1 AATTAA
861508 GATAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 12 0.63
15 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (13 bp):
AATTAAATTTAAA
Found at i:862359 original size:334 final size:331
Alignment explanation
Indices: 861788--862556 Score: 889
Period size: 334 Copynumber: 2.3 Consensus size: 331
861778 TAGTTTCTCG
* * * *
861788 GAAAAAAAGAG-AATTTCAA-CAAAAACTCCAA-AATCATGAAAATGAATTAATTTTTTAAAACT
1 GAAAAAAAGAGAAAGTTCAAGCAAAAATTCAAACAATCATGAAAATGAATTAA-TTTTTAAAAAT
* * * *
861850 AAATTAATA-CAAATCAAATGATGATATTTGATGAATTTTAAAAATTGAAAACCGAGAAAAACCC
65 GAATTAATATGAAA-CAAATGATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAACCC
* ** * * *
861914 TTTCGAAAAAATTTACAGAGTAGAAAATACCATATTTCGAAAAAAGGGAAATTTCGAGGAAAAAA
129 -TTC-AAAAAATTTACAGAGTAGAAAATAACATATTTAAAAAAAAGAGAAATTTCAAGAAAAAAA
* * * * * * **
861979 TTAATAACTCATGAAGATGAATTAATTTTTTAAAACTGAATTAATATGAAATAAATGATAATGTT
192 TTAAAAACTCATGAAAATAAATTAATTTTTGAAAACAGAATTAATATGAAATAAATAATAACATT
* * * *
862044 TGATGAATTTTAAAAATTAAAAA-CTGAGAAAAATCCTCTCCAAAAAA-TTTACGGAGTAGAAAA
257 TGATGAATTTAAAAAATTAAAAATC-AAGAAAAATCCCCTCCAAAAAATTTTACGAAGTAGAAAA
*
862107 C-ACAGTATTTT
321 CAAC-GTACTTT
* * *
862118 AGAAAAAAAGAGAAAGTTCAAGGAAAGAATTTAAA-AACTTATGAAAATGAATTAATTTTTAAAA
1 -GAAAAAAAGAGAAAGTTCAAGCAAA-AATTCAAACAA-TCATGAAAATGAATTAATTTTTAAAA
*
862182 ATGGAATTAATATGAAACAAATAATAATATTTGATGAATTTTAAAAATT-AGAAACCAAGAAAAA
63 AT-GAATTAATATGAAACAAATGATAATATTTGATGAATTTTAAAAATTGA-AAACCAAGAAAAA
* *
862246 TTCCC-T-AAAAAATTTTA-TGAAGTAGAAAATAACGTATTTAAAAAAAAGAG-AATTTCAAGAA
126 --CCCTTCAAAAAA-TTTACAG-AGTAGAAAATAACATATTTAAAAAAAAGAGAAATTTCAAGAA
* *
862307 AAAAATTTAAAAACTCATGAAAATAAATTAATTTTTGAAAACAGAATTAATATGAATTCAATAAT
187 AAAAA-TTAAAAACTCATGAAAATAAATTAATTTTTGAAAACAGAATTAATATGAAATAAATAAT
**
862372 AACATTTGATGAATTTAAAAAATTAAAAATCAAGAAAAATCCCCTTGAAAAAATTTTACGAAGTA
251 AACATTTGATGAATTTAAAAAATTAAAAATCAAGAAAAATCCCCTCCAAAAAATTTTACGAAGTA
*
862437 GAAAATAACGTACTTT
316 GAAAACAACGTACTTT
* * * *
862453 GAAAAAAAGGGAAATTTCAAGCAAAAATTCAAACAATCATGAAAATAAATTAATTTTTGAAAATT
1 GAAAAAAAGAGAAAGTTCAAGCAAAAATTCAAACAATCATGAAAATGAATTAATTTTT-AAAAAT
* * *
862518 GAATTAATGTGAAATAAATGATAATATTCGATGAATTTT
65 GAATTAATATGAAACAAATGATAATATTTGATGAATTTT
862557 GATGTTTGAA
Statistics
Matches: 372, Mismatches: 49, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
331 11 0.03
332 7 0.02
333 86 0.23
334 171 0.46
335 89 0.24
336 5 0.01
337 3 0.01
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (331 bp):
GAAAAAAAGAGAAAGTTCAAGCAAAAATTCAAACAATCATGAAAATGAATTAATTTTTAAAAATG
AATTAATATGAAACAAATGATAATATTTGATGAATTTTAAAAATTGAAAACCAAGAAAAACCCTT
CAAAAAATTTACAGAGTAGAAAATAACATATTTAAAAAAAAGAGAAATTTCAAGAAAAAAATTAA
AAACTCATGAAAATAAATTAATTTTTGAAAACAGAATTAATATGAAATAAATAATAACATTTGAT
GAATTTAAAAAATTAAAAATCAAGAAAAATCCCCTCCAAAAAATTTTACGAAGTAGAAAACAACG
TACTTT
Found at i:862553 original size:168 final size:166
Alignment explanation
Indices: 861708--862556 Score: 859
Period size: 168 Copynumber: 5.1 Consensus size: 166
861698 GTTTAATAAC
* * ** * * * *
861708 AATATTAGATGAGTTTTAAAAATTTTAAACTAAGAAAAATCCCC-CGAAAAAATTTACGATGAAG
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTTGAAAAAATTTACGAAGTAG
* * * * *
861772 AAAACTTA-GT-TTCTCGGAAAAAAAGAG-AATTTCAA-CAAAAACTCCAAAATCATGAAAATGA
66 AAAA-TAACGTATT-T-AGAAAAAAAGAGAAATTTCAAGAAAAAATTCAAAAATCATGAAAATGA
* * *
861833 ATTAATTTTTTAAAACTAAATTAATA-CAAATCAAATGAT
128 ATTAATTTTTGAAAACTGAATTAATATGAAAT-AAATGAT
* * * *
861872 GATATTTGATGAATTTTAAAAATTGAAAACCGAGAAAAA-CCCTTTCGAAAAAATTTAC-AGAGT
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTT-GAAAAAATTTACGA-AGT
* * * * * * *
861935 AGAAAATACCATATTTCG-AAAAAAGGGAAATTTCGAGGAAAAAATT-AATAACTCATGAAGATG
64 AGAAAATAACGTATTTAGAAAAAAAGAGAAATTTC-AAGAAAAAATTCAA-AAATCATGAAAATG
*
861998 AATTAATTTTTTAAAACTGAATTAATATGAAATAAATGAT
127 AATTAATTTTTGAAAACTGAATTAATATGAAATAAATGAT
* ** * ** *
862038 AATGTTTGATGAATTTTAAAAATTAAAAACTGAGAAAAATCCTCTCCAAAAAATTTACGGAGTAG
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTTGAAAAAATTTACGAAGTAG
* * * * *
862103 AAAA-CACAGTATTTTAGAAAAAAAGAGAAAGTTCAAGGAAAGAATTTAAAAACTTATGAAAATG
66 AAAATAAC-GTA-TTTAGAAAAAAAGAGAAATTTCAA-GAAAAAATTCAAAAA-TCATGAAAATG
* * *
862167 AATTAATTTTT-AAAAATGGAATTAATATGAAACAAATAAT
127 AATTAATTTTTGAAAACT-GAATTAATATGAAATAAATGAT
* * *
862207 AATATTTGATGAATTTTAAAAATTAGAAACCAAGAAAAATTCCC-T-AAAAAATTTTATGAAGTA
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTTGAAAAAA-TTTACGAAGTA
* *
862270 GAAAATAACGTATTTA-AAAAAAAGAG-AATTTCAAGAAAAAAATTTAAAAACTCATGAAAATAA
65 GAAAATAACGTATTTAGAAAAAAAGAGAAATTTCAAG-AAAAAATTCAAAAA-TCATGAAAATGA
* * * *
862333 ATTAATTTTTGAAAACAGAATTAATATGAATTCAATAAT
128 ATTAATTTTTGAAAACTGAATTAATATGAAATAAATGAT
* * *
862372 AACATTTGATGAATTTAAAAAATTAAAAATCAAGAAAAATCCCCTTGAAAAAATTTTACGAAGTA
1 AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTTGAAAAAA-TTTACGAAGTA
* * *
862437 GAAAATAACGTACTTT-GAAAAAAAGGGAAATTTCAAGCAAAAATTCAAACAATCATGAAAATAA
65 GAAAATAACGTA-TTTAGAAAAAAAGAGAAATTTCAAGAAAAAATTCAAA-AATCATGAAAATGA
* *
862501 ATTAATTTTTGAAAATTGAATTAATGTGAAATAAATGAT
128 ATTAATTTTTGAAAACTGAATTAATATGAAATAAATGAT
*
862540 AATATTCGATGAATTTT
1 AATATTTGATGAATTTT
862557 GATGTTTGAA
Statistics
Matches: 572, Mismatches: 84, Indels: 54
0.81 0.12 0.08
Matches are distributed among these distances:
163 11 0.02
164 42 0.07
165 123 0.22
166 125 0.22
167 51 0.09
168 127 0.22
169 93 0.16
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.29
Consensus pattern (166 bp):
AATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTTGAAAAAATTTACGAAGTAG
AAAATAACGTATTTAGAAAAAAAGAGAAATTTCAAGAAAAAATTCAAAAATCATGAAAATGAATT
AATTTTTGAAAACTGAATTAATATGAAATAAATGAT
Found at i:863451 original size:21 final size:21
Alignment explanation
Indices: 863418--863460 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
863408 CTAAGTAAAA
863418 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
863439 ATAC-TATTGGTATTAATACAT
1 ATACGTATT-GTATCAATACAT
863460 A
1 A
863461 AGGTTGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:863523 original size:20 final size:19
Alignment explanation
Indices: 863498--863568 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
863488 ACCCTGAAAA
863498 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* *
863518 GTATCGATACAGATTGAAT
1 GTATCGATACACATTAAAT
**
863537 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
863558 GTATCGATACA
1 GTATCGATACA
863569 GGGCATTGGC
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
19 5 0.12
20 36 0.84
21 2 0.05
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:863560 original size:40 final size:40
Alignment explanation
Indices: 863492--863569 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 40
863482 GTCAAAACCC
**
863492 TGAAAAGTATCGATACACATTTAAATGTATCGATACAGAT
1 TGAAAAGTATCGATACACATCAAAATGTATCGATACAGAT
*
863532 TGAATAGTATCGATACACA-CAAATATGTATCGATACAG
1 TGAAAAGTATCGATACACATCAAA-ATGTATCGATACAG
863570 GGCATTGGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 32 0.94
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.28
Consensus pattern (40 bp):
TGAAAAGTATCGATACACATCAAAATGTATCGATACAGAT
Found at i:863621 original size:53 final size:53
Alignment explanation
Indices: 863538--863674 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
863528 AGATTGAATA
*
863538 GTATCGATACACACAAATATGTATCGATACAGGGCATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGGCACTGGCAGTAGCCAAATTT
*
863592 GTATCGATACACACAATATGTATCGATACAGGTCACTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGGCACTGGCAGTAGCCAAATTT
*
863645 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
863675 TTGGTAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGGCACTGGCAGTAGCCAAATTT
Found at i:863788 original size:13 final size:13
Alignment explanation
Indices: 863770--863804 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
863760 TATTCATATT
863770 TCGATACATTGTA
1 TCGATACATTGTA
*
863783 TCGATACAGTGTA
1 TCGATACATTGTA
863796 TCGATACAT
1 TCGATACAT
863805 CACTGTTCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (13 bp):
TCGATACATTGTA
Found at i:865181 original size:89 final size:89
Alignment explanation
Indices: 865030--865193 Score: 285
Period size: 89 Copynumber: 1.8 Consensus size: 89
865020 AAAGTTTAAA
*
865030 AAATCAACAAGATCAAGCATGAAGAAGCTTAAACCTATTCTATCATGATCCAAGCTCATGTCATC
1 AAATCAACAAGAGCAAGCATGAAGAAGCTTAAACCTATTCTATCATGATCCAAGCTCATGTCATC
865095 ATCACTTCATCATAAAACACAAAG
66 ATCACTTCATCATAAAACACAAAG
* *
865119 AAATCAACAAGAGCAAGCAT-AAGCAAGCTTAAACCTATTTTGTCATGATCCAAGCTCATGTCAT
1 AAATCAACAAGAGCAAGCATGAAG-AAGCTTAAACCTATTCTATCATGATCCAAGCTCATGTCAT
865183 CATCACTTCAT
65 CATCACTTCAT
865194 TACAAATATA
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
88 3 0.04
89 68 0.96
ACGTcount: A:0.40, C:0.24, G:0.11, T:0.25
Consensus pattern (89 bp):
AAATCAACAAGAGCAAGCATGAAGAAGCTTAAACCTATTCTATCATGATCCAAGCTCATGTCATC
ATCACTTCATCATAAAACACAAAG
Found at i:873469 original size:156 final size:154
Alignment explanation
Indices: 873183--873475 Score: 401
Period size: 156 Copynumber: 1.9 Consensus size: 154
873173 AAAAATTATG
* * *
873183 AAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTACTTGATACCCCTAAAAGACATAAAAAGGA
1 AAAATACCCCTAGGGGATACCTTCGACGTAAAAGTACTAGATAACCCTAAAAGACATAAAAAGGA
* * **
873248 TAAAAATAGGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGTGGACCTGGCGATGACCT
66 TAAAAATAGGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGGACCCGGCGACAACCT
873313 AGGACTCAAATCTGAAAAAAATGA
131 AGGACTCAAATCTGAAAAAAATGA
* *
873337 AAAATACCCCTAGGGGTATACCTTCGACGTGAAAGTATCCTAG-TAACCCTAAAAGACTTAAAAA
1 AAAATACCCCTAGGGG-ATACCTTCGACGTAAAAGTA--CTAGATAACCCTAAAAGACATAAAAA
* * * * *
873401 -GACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACA
63 GGA-TAAAAATAGGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGGACCCGGCGACA
*
873465 ACCTATGACTC
127 ACCTAGGACTC
873476 GATTCTAAAA
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
154 15 0.12
155 21 0.17
156 81 0.68
157 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (154 bp):
AAAATACCCCTAGGGGATACCTTCGACGTAAAAGTACTAGATAACCCTAAAAGACATAAAAAGGA
TAAAAATAGGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGGACCCGGCGACAACCT
AGGACTCAAATCTGAAAAAAATGA
Found at i:873487 original size:156 final size:154
Alignment explanation
Indices: 873173--873504 Score: 400
Period size: 156 Copynumber: 2.1 Consensus size: 154
873163 TAAATTCAAG
* * * * *
873173 AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACGTAAAAGTACTTGATACCCCTAAAAGAC
1 AAAAATAACGAAAATACCCCTAGGGGATACCTTCGACGTAAAAGTACTAGATAACCCTAAAAGAC
* *
873238 ATAAAAAGGATAAAAATAGGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGTGGACCTG
66 ATAAAAAGGATAAAAATAGGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGGACCCG
** *
873303 GCGATGACCTAGGACTCAAATCTG
131 GCGACAACCTAGGACTCAAATCTA
* *
873327 AAAAA-AATGAAAAATACCCCTAGGGGTATACCTTCGACGTGAAAGTATCCTAG-TAACCCTAAA
1 AAAAATAACG-AAAATACCCCTAGGGG-ATACCTTCGACGTAAAAGTA--CTAGATAACCCTAAA
* * * * *
873390 AGACTTAAAAA-GACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGG
62 AGACATAAAAAGGA-TAAAAATAGGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGG
* * * *
873454 ACCCGGTGACAACCTATGACTCGATTCTA
126 ACCCGGCGACAACCTAGGACTCAAATCTA
*
873483 AAAAATTACGAAAATACCCCTA
1 AAAAATAACGAAAATACCCCTA
873505 TGTCTCGAGT
Statistics
Matches: 151, Mismatches: 21, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
153 3 0.02
154 20 0.13
155 21 0.14
156 102 0.68
157 5 0.03
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.20
Consensus pattern (154 bp):
AAAAATAACGAAAATACCCCTAGGGGATACCTTCGACGTAAAAGTACTAGATAACCCTAAAAGAC
ATAAAAAGGATAAAAATAGGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGGACCCG
GCGACAACCTAGGACTCAAATCTA
Found at i:875381 original size:28 final size:28
Alignment explanation
Indices: 875318--875382 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 28
875308 TATGTAATTC
*
875318 TTTAA-TATTATATAAGATAAATTAGAT
1 TTTAATTATTATATAAGATAAATAAGAT
* *
875345 ATTGATTATT-TATAAGATAAATAATGAT
1 TTTAATTATTATATAAGATAAATAA-GAT
875373 TTTAATTATT
1 TTTAATTATT
875383 GAATTGAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 16 0.52
28 15 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.48
Consensus pattern (28 bp):
TTTAATTATTATATAAGATAAATAAGAT
Done.