Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 38 of 153
Found at i:12966762 original size:30 final size:30
Alignment explanation
Indices: 12966726--12966784 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
12966716 ACATTGATAC
* *
12966726 TTTTTTTT-CCTAATTTGGTACCTAAACTT
1 TTTTTTTTGTCTAATATGGTACCTAAACTT
*
12966755 TTTTTTTTGTCTCATATGGTACCTAAACTT
1 TTTTTTTTGTCTAATATGGTACCTAAACTT
12966785 GTCAAACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.20, C:0.17, G:0.08, T:0.54
Consensus pattern (30 bp):
TTTTTTTTGTCTAATATGGTACCTAAACTT
Found at i:12974438 original size:20 final size:20
Alignment explanation
Indices: 12974403--12974440 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12974393 TTTTAGCCCA
*
12974403 TAATTATTTTTAAAATTTTT
1 TAATTATTTTCAAAATTTTT
*
12974423 TAATTATTTTCCAAATTT
1 TAATTATTTTCAAAATTT
12974441 AGAATAAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (20 bp):
TAATTATTTTCAAAATTTTT
Found at i:12974958 original size:42 final size:42
Alignment explanation
Indices: 12974855--12975003 Score: 165
Period size: 42 Copynumber: 3.5 Consensus size: 42
12974845 TCAGTGATAC
* * * ** *
12974855 GGGGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGATACG
1 GGGGAATCAACACTTAGCAACCACCTTT-AGAATCAATAAT-TG
*
12974898 GTGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATTG
1 GGGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATTG
* * * *
12974940 GGGGAATTAGCACTTAGCAACCACATTTAGAATCAATAATTC
1 GGGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATTG
*
12974982 GGGGAATCAACACTTGGCAACC
1 GGGGAATCAACACTTAGCAACC
12975004 CCTCGGGGAA
Statistics
Matches: 90, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
42 57 0.63
43 28 0.31
44 5 0.06
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (42 bp):
GGGGAATCAACACTTAGCAACCACCTTTAGAATCAATAATTG
Found at i:12975021 original size:26 final size:26
Alignment explanation
Indices: 12974980--12975032 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
12974970 AATCAATAAT
*
12974980 TCGGGGAATCAACACTTGGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
**
12975006 TCGGGGAATCTGCACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
12975032 T
1 T
12975033 TTTTGATCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.34, G:0.23, T:0.19
Consensus pattern (26 bp):
TCGGGGAATCAACACTTAGCAACCCC
Found at i:12975069 original size:67 final size:68
Alignment explanation
Indices: 12974940--12975073 Score: 173
Period size: 67 Copynumber: 2.0 Consensus size: 68
12974930 TCAATAATTG
*
12974940 GGGGAATTAGCACTTAGCAACCACATTTAGAATCAATAATTCGGGGAATCAACACTTGGCAACCC
1 GGGGAATTAGCACTTAGCAACCACATTTAGAATCAATAATTCGGGGAATCAACACTTAGCAACCC
12975005 CTC
66 CTC
* * * * * **
12975008 GGGGAATCT-GCACTTAGCAACCCCTTTTTG-ATCAGTGATTCGGGGAATCTGCACTTAGCAACC
1 GGGGAAT-TAGCACTTAGCAACCACATTTAGAATCAATAATTCGGGGAATCAACACTTAGCAACC
12975071 CCT
65 CCT
12975074 TACATTCAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
67 31 0.54
68 25 0.44
69 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (68 bp):
GGGGAATTAGCACTTAGCAACCACATTTAGAATCAATAATTCGGGGAATCAACACTTAGCAACCC
CTC
Found at i:12981490 original size:21 final size:21
Alignment explanation
Indices: 12981452--12981493 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
12981442 CCTCTTCCCC
*
12981452 TTTATTTGTTTTCTTTTTTGT
1 TTTATTTCTTTTCTTTTTTGT
12981473 TTTATCTTCTTTTCTTTTTTG
1 TTTAT-TTCTTTTCTTTTTTG
12981494 AAAACGGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.05, C:0.10, G:0.07, T:0.79
Consensus pattern (21 bp):
TTTATTTCTTTTCTTTTTTGT
Found at i:12993361 original size:41 final size:41
Alignment explanation
Indices: 12993318--12993461 Score: 206
Period size: 41 Copynumber: 3.6 Consensus size: 41
12993308 AATAAATATA
*
12993318 TTTATTTTTTTTAATTTTAAAATATTTTT-ACATAC---TT
1 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
12993355 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
1 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
*
12993396 TTTAATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
1 TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
* **
12993437 TTAATTTTTTAAAATTTTTAAAATA
1 TTTATTTTTTTTAA-TTTTAAAATA
12993462 AAAATAGACC
Statistics
Matches: 96, Mismatches: 6, Indels: 5
0.90 0.06 0.05
Matches are distributed among these distances:
37 29 0.30
38 5 0.05
41 52 0.54
42 10 0.10
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (41 bp):
TTTATTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT
Found at i:12993436 original size:31 final size:31
Alignment explanation
Indices: 12993401--12993461 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
12993391 TTTTTTTTAA
12993401 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAA-ATTTTTAAAATAC
*
12993432 TTTTTTTAATTTTTTAAAATTTTTAAAATA
1 TTTTTTTAATTTTTAAAAATTTTTAAAATA
12993462 AAAATAGACC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 21 0.75
32 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.61
Consensus pattern (31 bp):
TTTTTTTAATTTTTAAAAATTTTTAAAATAC
Found at i:12996090 original size:19 final size:17
Alignment explanation
Indices: 12996066--12996103 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 17
12996056 CACCAATGAA
12996066 TAAATAATAATAATTTTTT
1 TAAATAA-AAT-ATTTTTT
12996085 TAAATAAAATATTTTTT
1 TAAATAAAATATTTTTT
12996102 TA
1 TA
12996104 TATTTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TAAATAAAATATTTTTT
Found at i:12996214 original size:27 final size:27
Alignment explanation
Indices: 12996180--12996239 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
12996170 GGTGGCGCCT
*
12996180 CCAATGAAAGTGCCTCATAGAGAGGCG
1 CCAATGAAAGTGCCTCATAAAGAGGCG
*
12996207 CCAATGAAGGTGCCTCATAAAGAGGCG
1 CCAATGAAAGTGCCTCATAAAGAGGCG
12996234 CCAATG
1 CCAATG
12996240 GTGGCCTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.23, G:0.28, T:0.15
Consensus pattern (27 bp):
CCAATGAAAGTGCCTCATAAAGAGGCG
Found at i:12996379 original size:17 final size:18
Alignment explanation
Indices: 12996357--12996405 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
12996347 GAGAAAAAAA
*
12996357 AAGAGAGAA-AGGAGAAG
1 AAGAGAGAAGAGAAGAAG
12996374 AAGAGA-AAGAGAAGAAG
1 AAGAGAGAAGAGAAGAAG
12996391 AAGA-AGAAGA-AAGAA
1 AAGAGAGAAGAGAAGAA
12996406 AGAAAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (18 bp):
AAGAGAGAAGAGAAGAAG
Found at i:12996383 original size:23 final size:23
Alignment explanation
Indices: 12996356--12996400 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
12996346 AGAGAAAAAA
*
12996356 AAAGAG-AGAAAGGAGAAGAAGAG
1 AAAGAGAAG-AAGAAGAAGAAGAG
12996379 AAAGAGAAGAAGAAGAAGAAGA
1 AAAGAGAAGAAGAAGAAGAAGA
12996401 AAGAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (23 bp):
AAAGAGAAGAAGAAGAAGAAGAG
Found at i:12996578 original size:22 final size:21
Alignment explanation
Indices: 12996552--12996785 Score: 121
Period size: 22 Copynumber: 11.0 Consensus size: 21
12996542 TAGATTAGAA
12996552 TTTTGTATGAATATTCTAACTT
1 TTTTGTATGAATATTCTAA-TT
*
12996574 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
*
12996595 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTCTAATT
* *
12996613 TATTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
* *
12996634 ATTT-TAT--A-ATT-AAATT
1 TTTTGTATGAATATTCTAATT
* * * * *
12996650 TGTATT-TAT-AGTTTTGGATTAGTA
1 T-T-TTGTATGAATATT---CTAATT
*
12996674 TTTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTCTAATT
*
12996695 TTTTGTATGAATATTGTAATTT
1 TTTTGTATGAATATTCTAA-TT
*
12996717 TTTTGTATGAATATTGTAATATTAT
1 TTTTGTATGAATATTCT-A-A-T-T
12996742 AATTTTGTATGAATATTGC-AATTT
1 --TTTTGTATGAATATT-CTAA-TT
*
12996766 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTCTAAT
12996786 ATTGTAATTT
Statistics
Matches: 173, Mismatches: 18, Indels: 43
0.74 0.08 0.18
Matches are distributed among these distances:
16 4 0.02
17 4 0.02
18 9 0.05
19 14 0.08
20 19 0.11
21 31 0.18
22 56 0.32
23 5 0.03
24 11 0.06
25 4 0.02
26 1 0.01
27 15 0.09
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTCTAATT
Found at i:12996588 original size:61 final size:60
Alignment explanation
Indices: 12996523--12996709 Score: 175
Period size: 61 Copynumber: 3.1 Consensus size: 60
12996513 TAAATTATCT
* *
12996523 ATATTTAGTGTTTATAGTTTAGATTAGAATTTTGTATGAATATTCTAACTTTTTTGTATGA
1 ATATTTAGTATTTATAGTTTAGATTAGAATTTTGTATGAATATTGTAA-TTTTTTGTATGA
* * * ** * * * *
12996584 ATATTGTAATTTTTTTA-TGAATATT-GTAATATTGTATGAATATTGTAATTATTTTATAATTA
1 ATATT-TAGTATTTATAGTTTAGATTAG-AATTTTGTATGAATATTGTAATT-TTTTGT-ATGA
* *
12996646 A-ATTT-GTATTTATAGTTTTGGATTAGTATTTTGTATGAATATTGTAATTTTTTGTATGA
1 ATATTTAGTATTTATAG-TTTAGATTAGAATTTTGTATGAATATTGTAATTTTTTGTATGA
12996705 ATATT
1 ATATT
12996710 GTAATTTTTT
Statistics
Matches: 97, Mismatches: 21, Indels: 17
0.72 0.16 0.13
Matches are distributed among these distances:
59 10 0.10
60 12 0.12
61 62 0.64
62 13 0.13
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (60 bp):
ATATTTAGTATTTATAGTTTAGATTAGAATTTTGTATGAATATTGTAATTTTTTGTATGA
Found at i:12996623 original size:19 final size:19
Alignment explanation
Indices: 12996576--12996839 Score: 99
Period size: 19 Copynumber: 13.9 Consensus size: 19
12996566 TCTAACTTTT
*
12996576 TTGTATGAATATTGTAATTT
1 TTGTATGAATATTGTAA-TA
*
12996596 TTTTATGAATATTGTAATA
1 TTGTATGAATATTGTAATA
12996615 TTGTATGAATATTGTAATTA
1 TTGTATGAATATTGTAA-TA
* *
12996635 TTTTAT-AATTAAATTTGTATTTA
1 TTGTATGAA-T--A-TTGTA-ATA
* * * * *
12996658 TAGTTTTGGAT-TAGT-ATT
1 TTG-TATGAATATTGTAATA
*
12996676 TTGTATGAATATTGTAATTTT
1 TTGTATGAATATTGTAA--TA
12996697 TTGTATGAATATTGTAAT-
1 TTGTATGAATATTGTAATA
* *
12996715 TTTTTTG--TA-TG-AATA
1 TTGTATGAATATTGTAATA
* *
12996730 TTG--T-AATATTATAATT
1 TTGTATGAATATTGTAATA
* *
12996746 TTGTATGAATATTGCAATTTTT
1 TTGTATGAATATTGTAA---TA
12996768 TTGTATGAATATTGTAATA
1 TTGTATGAATATTGTAATA
* *
12996787 TTG--T-AATTTTGTATTA
1 TTGTATGAATATTGTAATA
* * * *
12996803 ATAT-TGTAATTTTGTAATT
1 TTGTATG-AATATTGTAATA
12996822 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
12996840 GTCGGGATAT
Statistics
Matches: 183, Mismatches: 34, Indels: 55
0.67 0.12 0.20
Matches are distributed among these distances:
13 1 0.01
14 5 0.03
15 5 0.03
16 19 0.10
17 7 0.04
18 12 0.07
19 55 0.30
20 29 0.16
21 19 0.10
22 19 0.10
23 8 0.04
24 3 0.02
25 1 0.01
ACGTcount: A:0.31, C:0.00, G:0.13, T:0.55
Consensus pattern (19 bp):
TTGTATGAATATTGTAATA
Found at i:12996755 original size:27 final size:26
Alignment explanation
Indices: 12996695--12996839 Score: 180
Period size: 27 Copynumber: 5.8 Consensus size: 26
12996685 TATTGTAATT
12996695 TTTTGTATGAATATTGT-A-ATTT--
1 TTTTGTATGAATATTGTAATATTTAA
12996717 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATT-TAA
*
12996744 TTTTGTATGAATATTG-CA-ATTT--
1 TTTTGTATGAATATTGTAATATTTAA
12996766 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATT-TAA
* *
12996793 TTTTGTATTAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATT-TAA
12996820 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
12996840 GTCGGGATAT
Statistics
Matches: 108, Mismatches: 5, Indels: 15
0.84 0.04 0.12
Matches are distributed among these distances:
22 33 0.31
23 2 0.02
24 7 0.06
25 5 0.05
26 1 0.01
27 60 0.56
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (26 bp):
TTTTGTATGAATATTGTAATATTTAA
Found at i:12996756 original size:49 final size:49
Alignment explanation
Indices: 12996695--12996839 Score: 218
Period size: 49 Copynumber: 2.9 Consensus size: 49
12996685 TATTGTAATT
12996695 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
* *
12996744 TTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
*
12996793 TTTTGTATTAATATTGTAATTTTGTAATTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAA--TT-T--TTTTGTATGAATATTGTAAT
12996840 GTCGGGATAT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
49 64 0.74
51 2 0.02
52 1 0.01
54 20 0.23
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (49 bp):
TTTTGTATGAATATTGTAATTTTTTTGTATGAATATTGTAATATTATAA
Found at i:12996788 original size:8 final size:8
Alignment explanation
Indices: 12996775--12996863 Score: 52
Period size: 8 Copynumber: 10.1 Consensus size: 8
12996765 TTTTTGTATG
12996775 AATATTGT
1 AATATTGT
12996783 AATATTGT
1 AATATTGT
*
12996791 AATTTTGTATT
1 AATATTG---T
12996802 AATATTGT
1 AATATTGT
*
12996810 AATTTTGT
1 AATATTGT
*
12996818 AATTTTGTAT
1 AATATTG--T
12996828 GAATATTGT
1 -AATATTGT
* * *
12996837 AATGTCGGG
1 AATAT-TGT
12996846 ATATATTGT
1 A-ATATTGT
12996855 AATATTGT
1 AATATTGT
12996863 A
1 A
12996864 GACAATTTTG
Statistics
Matches: 63, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
8 41 0.65
9 5 0.08
10 4 0.06
11 13 0.21
ACGTcount: A:0.33, C:0.01, G:0.16, T:0.51
Consensus pattern (8 bp):
AATATTGT
Found at i:12996874 original size:76 final size:74
Alignment explanation
Indices: 12996717--12996863 Score: 190
Period size: 76 Copynumber: 2.0 Consensus size: 74
12996707 ATTGTAATTT
* ** *
12996717 TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTG
1 TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAA-TTGTCGGGAT-AATATTG
12996782 TAATATTGTAA
64 TAATATTGTAA
* * * *
12996793 TTTTGTATTAATATTGTAATTTTGTAATTTTGTATGAATATTGTAA-TGTCGGGAT-ATATTGTA
1 TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTGTCGGGATAATATTGTA
12996856 ATATTGTA
66 ATATTGTA
12996864 GACAATTTTG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
72 16 0.25
74 5 0.08
76 42 0.67
ACGTcount: A:0.31, C:0.01, G:0.15, T:0.52
Consensus pattern (74 bp):
TTTTGTATGAATATTGTAATATTATAATTTTGTATGAATATTGCAATTGTCGGGATAATATTGTA
ATATTGTAA
Found at i:12997490 original size:156 final size:156
Alignment explanation
Indices: 12997206--12997517 Score: 615
Period size: 156 Copynumber: 2.0 Consensus size: 156
12997196 CACATCATCG
12997206 ATAAATTATTCTACATTGACCCCAACTTTAGCACAAGCTGCCACGACGTGTGCACATGGAAAATG
1 ATAAATTATTCTACATTGACCCCAACTTTAGCACAAGCTGCCACGACGTGTGCACATGGAAAATG
12997271 AAGTGTTTGAAACCTCCTGCAATCGTACCGTCTATTTCGGAGATCAACTCCGTAGGACCTAGATG
66 AAGTGTTTGAAACCTCCTGCAATCGTACCGTCTATTTCGGAGATCAACTCCGTAGGACCTAGATG
12997336 GTGTATTGGGTCGACAACCGATGGTC
131 GTGTATTGGGTCGACAACCGATGGTC
*
12997362 ATAAATTATTCTACATTGAGCCCAACTTTAGCACAAGCTGCCACGACGTGTGCACATGGAAAATG
1 ATAAATTATTCTACATTGACCCCAACTTTAGCACAAGCTGCCACGACGTGTGCACATGGAAAATG
12997427 AAGTGTTTGAAACCTCCTGCAATCGTACCGTCTATTTCGGAGATCAACTCCGTAGGACCTAGATG
66 AAGTGTTTGAAACCTCCTGCAATCGTACCGTCTATTTCGGAGATCAACTCCGTAGGACCTAGATG
12997492 GTGTATTGGGTCGACAACCGATGGTC
131 GTGTATTGGGTCGACAACCGATGGTC
12997518 TCTGTAACTC
Statistics
Matches: 155, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
156 155 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (156 bp):
ATAAATTATTCTACATTGACCCCAACTTTAGCACAAGCTGCCACGACGTGTGCACATGGAAAATG
AAGTGTTTGAAACCTCCTGCAATCGTACCGTCTATTTCGGAGATCAACTCCGTAGGACCTAGATG
GTGTATTGGGTCGACAACCGATGGTC
Found at i:12999373 original size:87 final size:87
Alignment explanation
Indices: 12999227--12999400 Score: 321
Period size: 87 Copynumber: 2.0 Consensus size: 87
12999217 TTCGTAATCA
**
12999227 ACAGGATCACTACTATAGTATACATCATCACCAATTACATCAGTCTCGGCTGCAGCATTAAGATC
1 ACAGGATCACTACTATAGTATACATCATCACCAACCACATCAGTCTCGGCTGCAGCATTAAGATC
*
12999292 AATATTTATCCCATTTATAGTT
66 AATATTTATCCCATGTATAGTT
12999314 ACAGGATCACTACTATAGTATACATCATCACCAACCACATCAGTCTCGGCTGCAGCATTAAGATC
1 ACAGGATCACTACTATAGTATACATCATCACCAACCACATCAGTCTCGGCTGCAGCATTAAGATC
12999379 AATATTTATCCCATGTATAGTT
66 AATATTTATCCCATGTATAGTT
12999401 GATTGACTAT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.33, C:0.24, G:0.12, T:0.30
Consensus pattern (87 bp):
ACAGGATCACTACTATAGTATACATCATCACCAACCACATCAGTCTCGGCTGCAGCATTAAGATC
AATATTTATCCCATGTATAGTT
Found at i:13001594 original size:9 final size:9
Alignment explanation
Indices: 13001577--13001613 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13001567 TTCGAATTCG
13001577 AATTCGAAT
1 AATTCGAAT
*
13001586 AACTCGAAT
1 AATTCGAAT
13001595 AATTCGAAT
1 AATTCGAAT
13001604 AATTCGAAT
1 AATTCGAAT
13001613 A
1 A
13001614 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13001680 original size:21 final size:21
Alignment explanation
Indices: 13001651--13001691 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13001641 CCCAAACTCC
*
13001651 CAAACCTTTTTACT-TTTCCCT
1 CAAAACTTTTT-CTCTTTCCCT
13001672 CAAAACTTTTTCTCTTTCCC
1 CAAAACTTTTTCTCTTTCCC
13001692 ACTTTCCCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.20, C:0.34, G:0.00, T:0.46
Consensus pattern (21 bp):
CAAAACTTTTTCTCTTTCCCT
Found at i:13003805 original size:27 final size:27
Alignment explanation
Indices: 13003771--13003825 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 27
13003761 AATATTAACA
*
13003771 TATTTTAAT-ATTATTTCAATAAT-TTT
1 TATTTTAATAAATATTT-AATAATATTT
13003797 TATTATTAATAAATATTTAATAATATTT
1 TATT-TTAATAAATATTTAATAATATTT
13003825 T
1 T
13003826 TCAATAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 4 0.16
27 11 0.44
28 10 0.40
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (27 bp):
TATTTTAATAAATATTTAATAATATTT
Found at i:13003839 original size:40 final size:41
Alignment explanation
Indices: 13003776--13003854 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 41
13003766 TAACATATTT
* *
13003776 TAATATTATTTCAATAATTTTTATTATTAATAAATATTTAA
1 TAATATTATTTCAATAATCTTTATTATTAACAAATATTTAA
*
13003817 TAATATT-TTTCAATAATCTTTATTATTAACCAATATTT
1 TAATATTATTTCAATAATCTTTATTATTAACAAATATTT
13003855 GAATTAATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
40 28 0.80
41 7 0.20
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (41 bp):
TAATATTATTTCAATAATCTTTATTATTAACAAATATTTAA
Found at i:13006368 original size:316 final size:316
Alignment explanation
Indices: 13005795--13006430 Score: 1200
Period size: 316 Copynumber: 2.0 Consensus size: 316
13005785 AGTAAATTGC
*
13005795 AAATTATCAGACTGATCCTTCTGGACATAATTGTAATTACTCGAGCCTAATTCTATATATTTGAT
1 AAATTATCAGACTGATCCTTCTGGACATAATTGCAATTACTCGAGCCTAATTCTATATATTTGAT
* * *
13005860 TGGTCCCTTCGGTAGCTCAACAAAAACTCAATCGGATTACATTTGGATTAGAAGAAAATTCTATG
66 TGGTCCCTCCGCTAGCTCAACAAAAACTCAATCGGATTACATTTGGATTAGAAGAAAATTCTATA
13005925 ACTTTGTAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATTAGGCAGCCGTGAGAA
131 ACTTTGTAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATTAGGCAGCCGTGAGAA
13005990 TTGTTCAACTAGAGAATTTGATTCAAGAATTTTCTTGAAAAACTCATTTGGAAAATCTAAGTGAT
196 TTGTTCAACTAGAGAATTTGATTCAAGAATTTTCTTGAAAAACTCATTTGGAAAATCTAAGTGAT
*
13006055 TTTTGGGAAAATTAATTTTGATCAAGTAAAATTAAATTAATCAAGTTAATTAAAAT
261 TTTTGAGAAAATTAATTTTGATCAAGTAAAATTAAATTAATCAAGTTAATTAAAAT
13006111 AAATTATCAGACTGATCCTTCTGGACATAATTGCAATTACTCGAGCCTAATTCTATATATTTGAT
1 AAATTATCAGACTGATCCTTCTGGACATAATTGCAATTACTCGAGCCTAATTCTATATATTTGAT
*
13006176 TGGTCTCTCCGCTAGCTCAACAAAAACTCAATCGGATTACATTTGGATTAGAAGAAAATTCTATA
66 TGGTCCCTCCGCTAGCTCAACAAAAACTCAATCGGATTACATTTGGATTAGAAGAAAATTCTATA
*
13006241 ACTTTGTAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATTAGGCAGTCGTGAGAA
131 ACTTTGTAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATTAGGCAGCCGTGAGAA
*
13006306 TTGTTCAACTAGAGAATTTGATTCAAGAATTTTCTTGAAAAATTCATTTGGAAAATCTAAGTGAT
196 TTGTTCAACTAGAGAATTTGATTCAAGAATTTTCTTGAAAAACTCATTTGGAAAATCTAAGTGAT
13006371 TTTTGAGAAAATTAATTTTGATCAAGTAAAATTAAATTAATCAAGTTAATTAAAAT
261 TTTTGAGAAAATTAATTTTGATCAAGTAAAATTAAATTAATCAAGTTAATTAAAAT
13006427 AAAT
1 AAAT
13006431 ATGATGTTTT
Statistics
Matches: 312, Mismatches: 8, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
316 312 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (316 bp):
AAATTATCAGACTGATCCTTCTGGACATAATTGCAATTACTCGAGCCTAATTCTATATATTTGAT
TGGTCCCTCCGCTAGCTCAACAAAAACTCAATCGGATTACATTTGGATTAGAAGAAAATTCTATA
ACTTTGTAAATAATTTAATTGAGTCGATTTATTCGATGTGGAATTAAATTAGGCAGCCGTGAGAA
TTGTTCAACTAGAGAATTTGATTCAAGAATTTTCTTGAAAAACTCATTTGGAAAATCTAAGTGAT
TTTTGAGAAAATTAATTTTGATCAAGTAAAATTAAATTAATCAAGTTAATTAAAAT
Found at i:13009214 original size:17 final size:19
Alignment explanation
Indices: 13009192--13009226 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13009182 AGATAAGGAA
13009192 AGAAAG-AAT-AGAAAAAG
1 AGAAAGAAATGAGAAAAAG
13009209 AGAAAGAAATGAGAAAAA
1 AGAAAGAAATGAGAAAAA
13009227 ACTAGGGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (19 bp):
AGAAAGAAATGAGAAAAAG
Found at i:13022505 original size:6 final size:6
Alignment explanation
Indices: 13022494--13022531 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
13022484 TACACAGAAC
*
13022494 TAAACA TAAACA TAAACA TAAACA AAAACA TGAAACA T
1 TAAACA TAAACA TAAACA TAAACA TAAACA T-AAACA T
13022532 TTGGGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.66, C:0.16, G:0.03, T:0.16
Consensus pattern (6 bp):
TAAACA
Found at i:13025088 original size:31 final size:31
Alignment explanation
Indices: 13025015--13025077 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
13025005 TTTTAAATGC
* *
13025015 TAAGT-AATTATATAAATTGTTTCTAGAATT
1 TAAGTAAAATATATAAATTATTTCTAGAATT
13025045 TAAGTAAAATATATAAATTATATT-TAGAATT
1 TAAGTAAAATATATAAATTAT-TTCTAGAATT
13025076 TA
1 TA
13025078 GAATTAATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 5 0.17
31 22 0.76
32 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (31 bp):
TAAGTAAAATATATAAATTATTTCTAGAATT
Found at i:13026922 original size:31 final size:32
Alignment explanation
Indices: 13026871--13026936 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 32
13026861 TTTACATTTG
*
13026871 ATAATTGAAATTTATTATTAAAAT-A-AAATT
1 ATAATTGAAATTAATTATTAAAATAATAAATT
*
13026901 ATAATATGAAA-TAATTAATTAATATAATAAATT
1 ATAAT-TGAAATTAATT-ATTAAAATAATAAATT
13026934 ATA
1 ATA
13026937 TTTATTGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
30 9 0.30
31 12 0.40
32 1 0.03
33 8 0.27
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (32 bp):
ATAATTGAAATTAATTATTAAAATAATAAATT
Found at i:13035329 original size:2 final size:2
Alignment explanation
Indices: 13035322--13035374 Score: 52
Period size: 2 Copynumber: 25.5 Consensus size: 2
13035312 GTTTGCGTAT
* * * *
13035322 AG AG AG AG AG AG AG AG AG AG AG AG CAC CG AG AG AG AG AG CAC CG
1 AG AG AG AG AG AG AG AG AG AG AG AG -AG AG AG AG AG AG AG -AG AG
13035366 AG AG AG AG A
1 AG AG AG AG A
13035375 CCTTTTATTC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.45, C:0.11, G:0.43, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13035355 original size:15 final size:15
Alignment explanation
Indices: 13035323--13035374 Score: 83
Period size: 15 Copynumber: 3.7 Consensus size: 15
13035313 TTTGCGTATA
13035323 GAGAGAGAGAG-A--
1 GAGAGAGAGAGCACC
13035335 GAGAGAGAGAGCACC
1 GAGAGAGAGAGCACC
13035350 GAGAGAGAGAGCACC
1 GAGAGAGAGAGCACC
13035365 GAGAGAGAGA
1 GAGAGAGAGA
13035375 CCTTTTATTC
Statistics
Matches: 37, Mismatches: 0, Indels: 3
0.93 0.00 0.08
Matches are distributed among these distances:
12 11 0.30
13 1 0.03
15 25 0.68
ACGTcount: A:0.44, C:0.12, G:0.44, T:0.00
Consensus pattern (15 bp):
GAGAGAGAGAGCACC
Found at i:13038882 original size:26 final size:25
Alignment explanation
Indices: 13038864--13038912 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
13038854 AATAAAATTT
*
13038864 TAATATCTATAAATATAATTAAGACA
1 TAATATCTATAAATATAA-TAAAACA
*
13038890 TAATGTCTATAAATATAATAAAA
1 TAATATCTATAAATATAATAAAA
13038913 AGAGTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (25 bp):
TAATATCTATAAATATAATAAAACA
Found at i:13039230 original size:17 final size:18
Alignment explanation
Indices: 13039203--13039236 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13039193 AAGCAAATAC
*
13039203 AAAGCAAAGAAGAAAAAT
1 AAAGCAAAGAACAAAAAT
13039221 AAAG-AAAGAACAAAAA
1 AAAGCAAAGAACAAAAA
13039237 AAAAAGAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (18 bp):
AAAGCAAAGAACAAAAAT
Found at i:13044768 original size:24 final size:28
Alignment explanation
Indices: 13044721--13044774 Score: 80
Period size: 24 Copynumber: 2.1 Consensus size: 28
13044711 TTATTAGCAT
13044721 TATTAGTATTACTATTGTTATTATTATG
1 TATTAGTATTACTATTGTTATTATTATG
13044749 TATTAGTA-TA-TATT-TT-TTATTATG
1 TATTAGTATTACTATTGTTATTATTATG
13044773 TA
1 TA
13044775 CGTGTATACC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
24 10 0.38
25 2 0.08
26 4 0.15
27 2 0.08
28 8 0.31
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (28 bp):
TATTAGTATTACTATTGTTATTATTATG
Found at i:13045263 original size:16 final size:17
Alignment explanation
Indices: 13045232--13045272 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
13045222 ATATTTCTAA
*
13045232 TATTGTGTTGTATATAC
1 TATTGTGTTATATATAC
13045249 TATTGT-TTATATATA-
1 TATTGTGTTATATATAC
13045264 TATATGTGT
1 TAT-TGTGT
13045273 ATGTATTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 11 0.52
17 7 0.33
ACGTcount: A:0.27, C:0.02, G:0.15, T:0.56
Consensus pattern (17 bp):
TATTGTGTTATATATAC
Found at i:13045675 original size:38 final size:37
Alignment explanation
Indices: 13045591--13045685 Score: 97
Period size: 38 Copynumber: 2.5 Consensus size: 37
13045581 TATACGTACT
*
13045591 TATACATACTTAAATATATTTTTCATATTTCATAATTC
1 TATACATACTTAAATATATTTTGCATATTT-ATAATTC
* *
13045629 T-TATATACTTACATATATTTATGCATATTT-TACA-TC
1 TATACATACTTAAATATATTT-TGCATATTTATA-ATTC
*
13045665 ATATACATACTTATATATATT
1 -TATACATACTTAAATATATT
13045686 CTTTATATTC
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
36 4 0.08
37 19 0.40
38 25 0.52
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.49
Consensus pattern (37 bp):
TATACATACTTAAATATATTTTGCATATTTATAATTC
Found at i:13048714 original size:30 final size:31
Alignment explanation
Indices: 13048663--13048730 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
13048653 GGTTTCTTTT
* *
13048663 CAGTCACTCAACTTTAGAAAAA-TAACAAAA
1 CAGTCACTCAACATTACAAAAAGTAACAAAA
* *
13048693 CAGTCACT-AACATTATCAAAAAGTGACAAAT
1 CAGTCACTCAACATTA-CAAAAAGTAACAAAA
13048724 CAGTCAC
1 CAGTCAC
13048731 CCACTAACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 6 0.19
30 13 0.41
31 13 0.41
ACGTcount: A:0.49, C:0.22, G:0.09, T:0.21
Consensus pattern (31 bp):
CAGTCACTCAACATTACAAAAAGTAACAAAA
Found at i:13049645 original size:3 final size:3
Alignment explanation
Indices: 13049637--13049784 Score: 289
Period size: 3 Copynumber: 49.7 Consensus size: 3
13049627 TCCCAAATCC
13049637 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
13049685 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
13049733 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C-T
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
13049780 CTT CT
1 CTT CT
13049785 GATAAACCCT
Statistics
Matches: 144, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
2 2 0.01
3 142 0.99
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:13071728 original size:15 final size:16
Alignment explanation
Indices: 13071710--13071750 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
13071700 AATTTTCAAT
13071710 ACTTAATTTTCT-AGA
1 ACTTAATTTTCTAAGA
* *
13071725 ACTTACTTTT-TAAGC
1 ACTTAATTTTCTAAGA
13071740 ACTTAATTTTC
1 ACTTAATTTTC
13071751 CAGTTTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.29, C:0.17, G:0.05, T:0.49
Consensus pattern (16 bp):
ACTTAATTTTCTAAGA
Found at i:13076975 original size:25 final size:26
Alignment explanation
Indices: 13076943--13076997 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
13076933 TTATTAAATT
*
13076943 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
13076968 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
13076993 A-ATAT
1 ATATAT
13076998 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:13077181 original size:44 final size:45
Alignment explanation
Indices: 13077132--13077229 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
13077122 CTATTACACC
* *
13077132 TCTATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTAT
1 TCTATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTAT
** *
13077176 TCTATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTAT
1 TCTATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTAT
*
13077221 TCCATTACA
1 TCTATTACA
13077230 CCTCTAATCC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 21 0.45
45 26 0.55
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (45 bp):
TCTATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTAT
Found at i:13077229 original size:16 final size:16
Alignment explanation
Indices: 13077210--13077261 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
13077200 GATTTGCTAT
* *
13077210 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
13077226 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13077242 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
13077258 TACA
1 TACA
13077262 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:13082143 original size:27 final size:27
Alignment explanation
Indices: 13082105--13082157 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
13082095 GAGAATGCAA
13082105 GGTTTCTTAAGTTACTGCTATTATGAT
1 GGTTTCTTAAGTTACTGCTATTATGAT
13082132 GGTTTCTTAAGTTACTGCTATTATGA
1 GGTTTCTTAAGTTACTGCTATTATGA
13082158 CCATGATGAA
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:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (27 bp):
GGTTTCTTAAGTTACTGCTATTATGAT
Found at i:13096610 original size:42 final size:42
Alignment explanation
Indices: 13096514--13096667 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 42
13096504 TCTCACGAGC
* * * *
13096514 TTCTGTTTAACTCATATGAGTTTCAGTTCAA-CCTTAATGGGT
1 TTCTGTTTAGCTCTTATGAGCTTCTGTTCAACCCTT-ATGGGT
* * * *
13096556 TTCCGTTCAGCTCTTTTGAGCTTCTGTTTAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGT
* * *
13096598 TTTTTTTTAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGT
1 TTCTGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGT
*
13096640 TTCTGTTTAGCTCTCATGAGCTTCTGTT
1 TTCTGTTTAGCTCTTATGAGCTTCTGTT
13096668 AAGCTTTCGA
Statistics
Matches: 92, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
42 88 0.96
43 4 0.04
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (42 bp):
TTCTGTTTAGCTCTTATGAGCTTCTGTTCAACCCTTATGGGT
Found at i:13096666 original size:21 final size:21
Alignment explanation
Indices: 13096497--13096686 Score: 98
Period size: 21 Copynumber: 9.1 Consensus size: 21
13096487 TTTACTTTCC
* *
13096497 GTTTAGCTCTCACGAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
* * * *
13096518 GTTTAACTCATATGAGTTTCA
1 GTTTAGCTCTTATGAGCTTCT
* * * * *
13096539 GTTCAAC-CTTAATGGGTTTCC
1 GTTTAGCTCTT-ATGAGCTTCT
* *
13096560 GTTCAGCTCTTTTGAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
* * * * *
13096581 GTTTAACCCTTATGGGTTTTT
1 GTTTAGCTCTTATGAGCTTCT
* *
13096602 TTTTAGCTCTTATGAGCTTCC
1 GTTTAGCTCTTATGAGCTTCT
* * * * *
13096623 GTTCAACCCTTATGGGTTTCT
1 GTTTAGCTCTTATGAGCTTCT
*
13096644 GTTTAGCTCTCATGAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
* *
13096665 GTTAAGCT-TT-CGAGCTTCT
1 GTTTAGCTCTTATGAGCTTCT
13096684 GTT
1 GTT
13096687 AACGATATAC
Statistics
Matches: 122, Mismatches: 45, Indels: 6
0.71 0.26 0.03
Matches are distributed among these distances:
19 11 0.09
20 3 0.02
21 105 0.86
22 3 0.02
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (21 bp):
GTTTAGCTCTTATGAGCTTCT
Found at i:13100079 original size:437 final size:437
Alignment explanation
Indices: 13099265--13100132 Score: 1682
Period size: 437 Copynumber: 2.0 Consensus size: 437
13099255 AAATCGAATA
*
13099265 AAAATGATCGACTTTATTCATGAAATGAAAAGTGAATTGAAATTGAGAAATGAGAATGAAAAGAA
1 AAAATGATCGACTTTATTCATGAAATGAAAAGTGAATTGAAATTGAAAAATGAGAATGAAAAGAA
13099330 TGAATCAAAGATTCATGAAGAGATTTATGTTCAAATGAAATGTTATATGATATTAAATTGATGAA
66 TGAATCAAAGATTCATGAAGAGATTTATGTTCAAATGAAATGTTATATGATATTAAATTGATGAA
*
13099395 TAGCCAAATTGAGTTGTTATTGTTGAGAAATGAAAGTTAAGAATAAATTAGTTTATTTATGAATT
131 TAACCAAATTGAGTTGTTATTGTTGAGAAATGAAAGTTAAGAATAAATTAGTTTATTTATGAATT
13099460 AATTGTTATATAATTTGACATGTTTATTTGTTATTTTACTTAAATAATTTAAATTATAGTAATAC
196 AATTGTTATATAATTTGACATGTTTATTTGTTATTTTACTTAAATAATTTAAATTATAGTAATAC
* *
13099525 CATTGAGTATGAAATACTCAGCGTACGGTTGTTTTCGTGTGCAGGTCATTAGGGTTCAAGGTCCA
261 CATTGAGTATGAAATACTCAGCGTACGGTTGTTTCCATGTGCAGGTCATTAGGGTTCAAGGTCCA
13099590 GTTCAGCATCCAGAAAGATCCCGACTCCATCAAGAAAATTTTGGTGATGTATTTCTTCCTTTTGT
326 GTTCAGCATCCAGAAAGATCCCGACTCCATCAAGAAAATTTTGGTGATGTATTTCTTCCTTTTGT
13099655 TTAAGTGGCATGTGCTAGGTGATTGAACACGAGTTGTGTATCAAATG
391 TTAAGTGGCATGTGCTAGGTGATTGAACACGAGTTGTGTATCAAATG
13099702 AAAATGATCGACTTTATTCATGAAATGAAAAGTGAATTGAAATTGAAAAATGAGAATGAAAAGAA
1 AAAATGATCGACTTTATTCATGAAATGAAAAGTGAATTGAAATTGAAAAATGAGAATGAAAAGAA
*
13099767 TGAATTAAAGATTCATGAAGAGATTTATGTTCAAATGAAATGTTATATGATATTAAATTGATGAA
66 TGAATCAAAGATTCATGAAGAGATTTATGTTCAAATGAAATGTTATATGATATTAAATTGATGAA
13099832 TAACCAAATTGAGTTGTTATTGTTGAGAAATGAAAGTTAAGAATAAATTAGTTTATTTATGAATT
131 TAACCAAATTGAGTTGTTATTGTTGAGAAATGAAAGTTAAGAATAAATTAGTTTATTTATGAATT
*
13099897 AATTGTTATATAATTTGGCATGTTTATTTGTTATTTTACTTAAATAATTTAAATTATAGTAATAC
196 AATTGTTATATAATTTGACATGTTTATTTGTTATTTTACTTAAATAATTTAAATTATAGTAATAC
13099962 CATTGAGTATGAAATACTCAGCGTACGGTTGTTTCCATGTGCAGGTCATTAGGGTTCAAGGTCCA
261 CATTGAGTATGAAATACTCAGCGTACGGTTGTTTCCATGTGCAGGTCATTAGGGTTCAAGGTCCA
13100027 GTTCAGCATCCAGAAAGATCCCGACTCCATCAAGAAAATTTTGGTGATGTATTTCTTCCTTTTGT
326 GTTCAGCATCCAGAAAGATCCCGACTCCATCAAGAAAATTTTGGTGATGTATTTCTTCCTTTTGT
13100092 TTAAGTGGCATGTGCTAGGTGATTGAACACGAGTTGTGTAT
391 TTAAGTGGCATGTGCTAGGTGATTGAACACGAGTTGTGTAT
13100133 ATATAAATAT
Statistics
Matches: 425, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
437 425 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (437 bp):
AAAATGATCGACTTTATTCATGAAATGAAAAGTGAATTGAAATTGAAAAATGAGAATGAAAAGAA
TGAATCAAAGATTCATGAAGAGATTTATGTTCAAATGAAATGTTATATGATATTAAATTGATGAA
TAACCAAATTGAGTTGTTATTGTTGAGAAATGAAAGTTAAGAATAAATTAGTTTATTTATGAATT
AATTGTTATATAATTTGACATGTTTATTTGTTATTTTACTTAAATAATTTAAATTATAGTAATAC
CATTGAGTATGAAATACTCAGCGTACGGTTGTTTCCATGTGCAGGTCATTAGGGTTCAAGGTCCA
GTTCAGCATCCAGAAAGATCCCGACTCCATCAAGAAAATTTTGGTGATGTATTTCTTCCTTTTGT
TTAAGTGGCATGTGCTAGGTGATTGAACACGAGTTGTGTATCAAATG
Found at i:13102350 original size:12 final size:13
Alignment explanation
Indices: 13102333--13102361 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
13102323 ATAAAGTTAT
13102333 TAAAAATT-AATA
1 TAAAAATTAAATA
13102345 TAAAAATTAAATA
1 TAAAAATTAAATA
13102358 TAAA
1 TAAA
13102362 TTTTGATTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAAAATTAAATA
Found at i:13106626 original size:31 final size:31
Alignment explanation
Indices: 13106566--13106626 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
13106556 GCTAGGATAA
* **
13106566 TTTAGATAACAGAATATAATTTAGGTATCAT
1 TTTAGATAACAGAAAATAATTTAAATATCAT
13106597 TTTAGATAACA-ATAAATAATTTAAATATCA
1 TTTAGATAACAGA-AAATAATTTAAATATCA
13106627 CTTGTGATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.38
Consensus pattern (31 bp):
TTTAGATAACAGAAAATAATTTAAATATCAT
Found at i:13108828 original size:16 final size:16
Alignment explanation
Indices: 13108807--13108840 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
13108797 TAGGTTTAGC
*
13108807 TCTAAGACTGATTTGA
1 TCTAAGACTAATTTGA
13108823 TCTAAGACTAATTTGA
1 TCTAAGACTAATTTGA
13108839 TC
1 TC
13108841 ATAATCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (16 bp):
TCTAAGACTAATTTGA
Found at i:13116637 original size:22 final size:23
Alignment explanation
Indices: 13116612--13116669 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 23
13116602 TGCACTAATG
13116612 AACAGAGAGCACTA-AAGTGCTA
1 AACAGAGAGCACTAGAAGTGCTA
*
13116634 AACAGAGAGCAC-AGATGTGCTA
1 AACAGAGAGCACTAGAAGTGCTA
* *
13116656 AACGGAAAGCACTA
1 AACAGAGAGCACTA
13116670 TCGTACAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.45, C:0.19, G:0.24, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACTAGAAGTGCTA
Found at i:13116842 original size:16 final size:17
Alignment explanation
Indices: 13116815--13116849 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
13116805 AAAAATAATT
*
13116815 CAATTATCACATTTGCA
1 CAATTATCACATTTACA
13116832 CAATT-TCACATTTACA
1 CAATTATCACATTTACA
13116848 CA
1 CA
13116850 TATATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (17 bp):
CAATTATCACATTTACA
Found at i:13117672 original size:5 final size:5
Alignment explanation
Indices: 13117662--13117688 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
13117652 TTATTTGTTT
13117662 ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA AT
13117689 TACTTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:13118231 original size:22 final size:22
Alignment explanation
Indices: 13118187--13118233 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
13118177 TATGCACTAT
*
13118187 TAAACAGAGAGTACAAATATGC
1 TAAACAGAGAGCACAAATATGC
* * *
13118209 TAAACAGATAGCACTAATGTGC
1 TAAACAGAGAGCACAAATATGC
13118231 TAA
1 TAA
13118234 TAATCAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (22 bp):
TAAACAGAGAGCACAAATATGC
Found at i:13119663 original size:5 final size:5
Alignment explanation
Indices: 13119653--13119694 Score: 59
Period size: 5 Copynumber: 8.6 Consensus size: 5
13119643 TGTTTATATA
* *
13119653 ATAAT ATAAT ATAAT A-ATT ATAAT ATATT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
13119695 CATTTTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 3 0.09
5 29 0.91
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATAAT
Found at i:13119684 original size:24 final size:22
Alignment explanation
Indices: 13119649--13119692 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
13119639 TATTTGTTTA
13119649 TATAATAATATAATATAATAAT
1 TATAATAATATAATATAATAAT
13119671 TATAATATATTATAATATAATA
1 TATAATA-A-TATAATATAATA
13119693 TACATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 1 0.05
24 12 0.60
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TATAATAATATAATATAATAAT
Found at i:13123038 original size:18 final size:18
Alignment explanation
Indices: 13123003--13123041 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13122993 TTTTAATAAA
*
13123003 TTATTTAATAATTCAATT
1 TTATTTAATAATTAAATT
13123021 TTATTTCAATAA-TAAATT
1 TTATTT-AATAATTAAATT
13123039 TTA
1 TTA
13123042 AAATTAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTTAATAATTAAATT
Found at i:13123885 original size:3 final size:3
Alignment explanation
Indices: 13123877--13123907 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13123867 TAGTTAAGCA
13123877 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
13123908 CAAGTAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13133526 original size:29 final size:32
Alignment explanation
Indices: 13133484--13133545 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 32
13133474 TAATTAAAGT
13133484 AAAATTACACTTTACCCCTCT-AAAATTATAA
1 AAAATTACACTTTACCCCTCTAAAAATTATAA
** *
13133515 AAAATTA-A-TTTATTCCTTTAAAAATTATAA
1 AAAATTACACTTTACCCCTCTAAAAATTATAA
13133545 A
1 A
13133546 TATATAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 8 0.30
30 12 0.44
31 7 0.26
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (32 bp):
AAAATTACACTTTACCCCTCTAAAAATTATAA
Found at i:13139244 original size:3 final size:3
Alignment explanation
Indices: 13139236--13139261 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
13139226 CATCAAACCA
13139236 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
13139262 CATTGTTGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:13140510 original size:26 final size:26
Alignment explanation
Indices: 13140445--13140547 Score: 84
Period size: 26 Copynumber: 3.8 Consensus size: 26
13140435 AAACTATAAA
* *
13140445 AAATATTTTAAAAATTA-AAAATTATT
1 AAATATTTAAAAAATTATAAAAAT-TT
*
13140471 AAATA-TTACTAAAATTATAAAAATTT
1 AAATATTTA-AAAAATTATAAAAATTT
* * *
13140497 AAATATGTAAAAAAATATTAATAATTCAT
1 AAATATTTAAAAAATTA-TAAAAATT--T
13140526 AAATATTTCAAAAAATTATAAA
1 AAATATTT-AAAAAATTATAAA
13140548 CGCTAAAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
25 2 0.03
26 25 0.42
27 14 0.23
29 11 0.18
30 8 0.13
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (26 bp):
AAATATTTAAAAAATTATAAAAATTT
Found at i:13140770 original size:10 final size:9
Alignment explanation
Indices: 13140690--13140786 Score: 56
Period size: 9 Copynumber: 10.4 Consensus size: 9
13140680 ATTTGGAAAC
13140690 TTTTTATAA
1 TTTTTATAA
*
13140699 TTTTTTTGAAA
1 TTTTTAT--AA
*
13140710 TATTTATAAA
1 TTTTTAT-AA
* *
13140720 TTATTAATAT
1 TT-TTTATAA
*
13140730 TTTTTTTAA
1 TTTTTATAA
*
13140739 TTTTTA-CA
1 TTTTTATAA
*
13140747 -TATTA-AA
1 TTTTTATAA
13140754 TTTTTATAA
1 TTTTTATAA
13140763 TATTTTATTAA
1 T-TTTTA-TAA
13140774 TTTTTATAA
1 TTTTTATAA
13140783 TTTT
1 TTTT
13140787 AAAAATATTT
Statistics
Matches: 67, Mismatches: 14, Indels: 14
0.71 0.15 0.15
Matches are distributed among these distances:
7 5 0.07
8 5 0.07
9 25 0.37
10 17 0.25
11 15 0.22
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:13143222 original size:16 final size:18
Alignment explanation
Indices: 13143197--13143243 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
13143187 CATATATATG
*
13143197 AATAAT-ATATTATAAAT
1 AATAATAATATTAAAAAT
*
13143214 AA-AA-AATATAAAAAAT
1 AATAATAATATTAAAAAT
13143230 AATAATAATATTAA
1 AATAATAATATTAA
13143244 TTATATATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 13 0.54
17 4 0.17
18 7 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAATAATATTAAAAAT
Found at i:13143296 original size:23 final size:24
Alignment explanation
Indices: 13143262--13143307 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
13143252 AATTAAACAA
13143262 TAAACGAATTTTAAAT-AATTTAT
1 TAAACGAATTTTAAATGAATTTAT
13143285 TAAAC-AAGTTTTAAATGAATTTA
1 TAAACGAA-TTTTAAATGAATTTA
13143308 AAAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.10
23 13 0.62
24 6 0.29
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
TAAACGAATTTTAAATGAATTTAT
Found at i:13145543 original size:18 final size:18
Alignment explanation
Indices: 13145520--13145566 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
13145510 CAGGCCCCGC
*
13145520 CAAAGCAAGCCCTGGGGG
1 CAAAGCAAGCCCTGGCGG
13145538 CAAAGCAAGCCCTGGCGG
1 CAAAGCAAGCCCTGGCGG
*
13145556 CAAAGCCAGCC
1 CAAAGCAAGCC
13145567 TCGGTGCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.30, C:0.34, G:0.32, T:0.04
Consensus pattern (18 bp):
CAAAGCAAGCCCTGGCGG
Found at i:13146287 original size:21 final size:22
Alignment explanation
Indices: 13146261--13146302 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
13146251 AAATATAAGT
*
13146261 ATAAATAATATAATT-AAGAAC
1 ATAAATAACATAATTCAAGAAC
*
13146282 ATAAATAGCATAATTCAAGAA
1 ATAAATAACATAATTCAAGAA
13146303 GAGAACTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (22 bp):
ATAAATAACATAATTCAAGAAC
Found at i:13148316 original size:3 final size:3
Alignment explanation
Indices: 13148308--13148366 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
13148298 TTATAACATA
13148308 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
13148356 AAT AAT AAT AA
1 AAT AAT AAT AA
13148367 GGGCACAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13149932 original size:21 final size:23
Alignment explanation
Indices: 13149884--13149934 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
13149874 AAAAAAAGTC
13149884 TAGGTTA-TGGGCTTATTAGGCT
1 TAGGTTATTGGGCTTATTAGGCT
* *
13149906 TGGGTTATTGGG-TT-TTAGGGT
1 TAGGTTATTGGGCTTATTAGGCT
13149927 TAGGTTAT
1 TAGGTTAT
13149935 ATATTTGGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 13 0.52
22 8 0.32
23 4 0.16
ACGTcount: A:0.16, C:0.04, G:0.35, T:0.45
Consensus pattern (23 bp):
TAGGTTATTGGGCTTATTAGGCT
Found at i:13151757 original size:12 final size:12
Alignment explanation
Indices: 13151740--13151765 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13151730 AGGATATGCA
13151740 ATCTTAGATATG
1 ATCTTAGATATG
13151752 ATCTTAGATATG
1 ATCTTAGATATG
13151764 AT
1 AT
13151766 ATATGCAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATCTTAGATATG
Found at i:13151806 original size:17 final size:19
Alignment explanation
Indices: 13151752--13151799 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
13151742 CTTAGATATG
13151752 ATCTTAGATATGATATATGCA
1 ATCTTAGATATG--ATATGCA
*
13151773 ATCTTATATATGATATGCA
1 ATCTTAGATATGATATGCA
13151792 ATCTTAGA
1 ATCTTAGA
13151800 AGATATGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 14 0.56
21 11 0.44
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (19 bp):
ATCTTAGATATGATATGCA
Found at i:13151808 original size:22 final size:23
Alignment explanation
Indices: 13151757--13151822 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
13151747 ATATGATCTT
13151757 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGCAATCTTAGA
*
13151778 ATATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
13151800 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
13151823 GATTTAATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
19 11 0.30
21 7 0.19
22 7 0.19
23 12 0.32
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:13152323 original size:17 final size:17
Alignment explanation
Indices: 13152292--13152335 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
13152282 CATAACTTTT
*
13152292 ATATACA-TATATATAC
1 ATATACATTTTATATAC
*
13152308 ATTTACATTTTATATAC
1 ATATACATTTTATATAC
13152325 ATATACATTTT
1 ATATACATTTT
13152336 TTATTTCCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (17 bp):
ATATACATTTTATATAC
Found at i:13152446 original size:24 final size:25
Alignment explanation
Indices: 13152414--13152461 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
13152404 TATGCGTATG
13152414 TTTTCTTATAT-TATTCTTCATAAAA
1 TTTTCTTATATATATTCTTC-TAAAA
*
13152439 TTTT-TTATATATATTTTTCTAAA
1 TTTTCTTATATATATTCTTCTAAA
13152462 TTAATTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTCTTATATATATTCTTCTAAAA
Found at i:13152536 original size:30 final size:30
Alignment explanation
Indices: 13152500--13152556 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13152490 ATTATTTGTT
*
13152500 TATATATATGTA-ATTATCTTTTTTATAATC
1 TATATATATGTATA-TATATTTTTTATAATC
13152530 TATATATATGTATATATATTTTTTATA
1 TATATATATGTATATATATTTTTTATA
13152557 TATGTACATG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATATATGTATATATATTTTTTATAATC
Found at i:13154895 original size:113 final size:111
Alignment explanation
Indices: 13154605--13154925 Score: 364
Period size: 112 Copynumber: 2.8 Consensus size: 111
13154595 TATTTAAAAG
* *
13154605 AAAGAT-TTTTGTTGTTGTTGTGTTTTATTAGATTTAAGTTTGTATTAAATGTATGATTAGTTTG
1 AAAGATATTTT-TTGTTGTTGTGTTTTATTAG-TTTAAGTTTGTATTAAAGGTATGATTAATTTG
* * * * *
13154669 TTTTATTACTGTTATTGTTGTATCTTATATCATTTTTTTTGTGTGTATT
64 TTTTATTAATGTT-TTGTGGTATCTTATATCATGTTCTTTGTATGTATT
* * * * *
13154718 AAAGATATTTGTT-TTGTTTTGTTTTTTTAGTTTTAGATTCGTATTAAAGGTATGATTAATTTGT
1 AAAGATATTTTTTGTTGTTGTGTTTTATTAGTTTAAG-TTTGTATTAAAGGTATGATTAATTTGT
* *
13154782 TTTATTAATGTTTTGTGGTATCTTATATTA-GTTCTTTGTATTTACTT
65 TTTATTAATGTTTTGTGGTATCTTATATCATGTTCTTTGTATGTA-TT
* *
13154829 GAAATGTTATTTTTTGTTGTTGTGTTTTATTAGCTTTAAGTTTGTATT-AAGGTTTGATTAATTT
1 -AAA-GATATTTTTTGTTGTTGTGTTTTATTAG-TTTAAGTTTGTATTAAAGGTATGATTAATTT
*
13154893 GTTTTATTAATGTTTT-TGAAGAATCTTATATCA
63 GTTTTATTAATGTTTTGTG--GTATCTTATATCA
13154926 GGCTTTCGTC
Statistics
Matches: 176, Mismatches: 23, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
110 10 0.06
111 23 0.13
112 55 0.31
113 47 0.27
114 36 0.20
115 5 0.03
ACGTcount: A:0.23, C:0.03, G:0.16, T:0.58
Consensus pattern (111 bp):
AAAGATATTTTTTGTTGTTGTGTTTTATTAGTTTAAGTTTGTATTAAAGGTATGATTAATTTGTT
TTATTAATGTTTTGTGGTATCTTATATCATGTTCTTTGTATGTATT
Found at i:13157965 original size:32 final size:32
Alignment explanation
Indices: 13157929--13157990 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
13157919 TTTGTATGTG
*
13157929 TATTTAAAATATTTCGCATATAAACATAATGA
1 TATTTAAAATATTTCACATATAAACATAATGA
* * *
13157961 TATTTGAAATATTTTACATATAAAGATAAT
1 TATTTAAAATATTTCACATATAAACATAAT
13157991 AATTATATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (32 bp):
TATTTAAAATATTTCACATATAAACATAATGA
Found at i:13161180 original size:14 final size:14
Alignment explanation
Indices: 13161161--13161194 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
13161151 TTAAATAGGT
*
13161161 TAATATTAAAATCC
1 TAATATTAAAATAC
13161175 TAATATTAAAATAC
1 TAATATTAAAATAC
13161189 TAATAT
1 TAATAT
13161195 GATTAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATATTAAAATAC
Found at i:13182249 original size:3 final size:3
Alignment explanation
Indices: 13182241--13182267 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
13182231 CATTCAAAAA
13182241 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
13182268 ATCATCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:13185115 original size:44 final size:45
Alignment explanation
Indices: 13185026--13185118 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 45
13185016 ATAATTGTAA
*
13185026 ATTAAATTATAATATTTTGTAATGTATAATAATTATCATAGCTTCT
1 ATTAAATTATAATATTTTGTAATGTAT-ATAATTATCACAGCTTCT
*
13185072 ATTAAATTATAATTATTTT-TAAATG-AT-TAATTATCACATCTTCT
1 ATTAAATTATAA-TATTTTGT-AATGTATATAATTATCACAGCTTCT
13185116 ATT
1 ATT
13185119 TTGTTTCAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
44 18 0.42
46 15 0.35
47 10 0.23
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (45 bp):
ATTAAATTATAATATTTTGTAATGTATATAATTATCACAGCTTCT
Found at i:13192064 original size:30 final size:29
Alignment explanation
Indices: 13192015--13192090 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 29
13192005 GTTAGGGAAC
13192015 AAATATAAATAAAAAATATTTATATATAA
1 AAATATAAATAAAAAATATTTATATATAA
*
13192044 AAATA-AAATAAAATAAATATTTATAT-TTA
1 AAATATAAAT-AAA-AAATATTTATATATAA
*
13192073 AAATATTAGATAAAAAAT
1 AAATA-TAAATAAAAAAT
13192091 CAATTAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
28 4 0.10
29 19 0.46
30 15 0.37
31 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (29 bp):
AAATATAAATAAAAAATATTTATATATAA
Found at i:13205331 original size:23 final size:22
Alignment explanation
Indices: 13205305--13205350 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
13205295 TTGGATTATA
*
13205305 TGTTT-TGATATAACAAATTAAAG
1 TGTTTCTGA-ATAA-AAAGTAAAG
13205328 TGTTTCTGAATAAAAAGTAAAG
1 TGTTTCTGAATAAAAAGTAAAG
13205350 T
1 T
13205351 TTAGAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 9 0.43
23 9 0.43
24 3 0.14
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (22 bp):
TGTTTCTGAATAAAAAGTAAAG
Found at i:13206578 original size:20 final size:21
Alignment explanation
Indices: 13206534--13206579 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
13206524 CTCTTTATTT
13206534 AACCCAATTTTTAACACTATAA
1 AACCCAATTTTTAACAC-ATAA
13206556 AACCCAATTTTATAAC-C-TAA
1 AACCCAATTTT-TAACACATAA
13206576 AACC
1 AACC
13206580 ATATCTACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.30
22 12 0.52
23 4 0.17
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (21 bp):
AACCCAATTTTTAACACATAA
Found at i:13216615 original size:13 final size:13
Alignment explanation
Indices: 13216599--13216629 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
13216589 ATGACAATAG
13216599 CACACGGTCTGGC
1 CACACGGTCTGGC
13216612 CACACGGTCTGGC
1 CACACGGTCTGGC
13216625 CACAC
1 CACAC
13216630 AGCTGTGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.19, C:0.42, G:0.26, T:0.13
Consensus pattern (13 bp):
CACACGGTCTGGC
Found at i:13217506 original size:13 final size:13
Alignment explanation
Indices: 13217488--13217514 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13217478 AACGTTCTCT
13217488 AGTATACTATTTC
1 AGTATACTATTTC
13217501 AGTATACTATTTC
1 AGTATACTATTTC
13217514 A
1 A
13217515 TGTAATTTAA
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:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (13 bp):
AGTATACTATTTC
Found at i:13218218 original size:306 final size:300
Alignment explanation
Indices: 13217641--13218218 Score: 653
Period size: 306 Copynumber: 1.9 Consensus size: 300
13217631 TTTTATTTAA
* * * ** ** *
13217641 TATATACTATTAATAAAATTCTTGATTGAGTTGGTGTCATAGATTAATTGAGTATTAACACGGTT
1 TATATACTATTAATAAAATTCTTAACTGAGTTGGTGTCAGAGATTAACCGAGTACCAACACGATT
* * * * *
13217706 AGAAAATGACTAATATATTTTTTTATTAAATGATTACCATTATTATTTTGATGGCTTTTTGTCTT
66 AGAAAATGACTAATATACTCTTTTATTAAATGACTACCACTATTATTTTGATGCCTTTTTGTCTT
* * *
13217771 TTCATATTTGATATGATTTTTAAATAAAAGACCTAAAATTGAGATGCCTATGGATGGAACTCATA
131 TTCATATTTGATATGATTTTTAAATAAAAGAACTAAAATTAACATGCCTATGGATGGAACTCATA
* * *****
13217836 TTTAATGTGCATATAAACAAATTCTTTACCTCTACACTAATAATAAATCTTGAATTTTTTTTAAA
196 TTTAATGT-CATATAAACAAATTCTTTACCACTACACCAATAATAAATCTTGAATTTAAAAAAAA
13217901 TTAACTTTTAACATAAAATATTTTCTCTTACCAAATTTGGG
260 TTAACTTTTAACATAAAATATTTTCTCTTACCAAATTTGGG
* *
13217942 TATATACTATTAATAACACTTC-TAACTGAGTTGGTGTCACGAG-TTAACCGAGTACCAACTCGA
1 TATATACTATTAATAA-AATTCTTAACTGAGTTGGTGTCA-GAGATTAACCGAGTACCAACACGA
* **
13218005 TTAGGAAATGACTAATATACTCTTTTATTAAATGACTATTACTATTATTTTGATGACCTTTTTTT
64 TTAGAAAATGACTAATATACTCTTTTATTAAATGACTACCACTATTATTTTGATG-CC--TTTTT
* * * * ** * *
13218070 GTCTTTTCATTATTTTATATAGTTTTTTAATTAAAAGAATTAAAATTAACATGTTTA-GAGTTTG
126 GTCTTTTCA-TATTTGATAT-GATTTTTAAATAAAAGAACTAAAATTAACATGCCTATG-GATGG
* * * *
13218134 AACTCATGTTTAATAGAT-TTATAAACAAATTCTTTATCACTACACCAATAATAATTCTT-AACT
188 AACTCATATTTAAT-G-TCATATAAACAAATTCTTTACCACTACACCAATAATAAATCTTGAA-T
13218197 TTAAAAAAAATTAACTTTTAAC
250 TTAAAAAAAATTAACTTTTAAC
13218219 TTTTATTTAT
Statistics
Matches: 226, Mismatches: 40, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
301 93 0.41
302 7 0.03
304 14 0.06
305 12 0.05
306 98 0.43
307 1 0.00
308 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (300 bp):
TATATACTATTAATAAAATTCTTAACTGAGTTGGTGTCAGAGATTAACCGAGTACCAACACGATT
AGAAAATGACTAATATACTCTTTTATTAAATGACTACCACTATTATTTTGATGCCTTTTTGTCTT
TTCATATTTGATATGATTTTTAAATAAAAGAACTAAAATTAACATGCCTATGGATGGAACTCATA
TTTAATGTCATATAAACAAATTCTTTACCACTACACCAATAATAAATCTTGAATTTAAAAAAAAT
TAACTTTTAACATAAAATATTTTCTCTTACCAAATTTGGG
Found at i:13221236 original size:31 final size:31
Alignment explanation
Indices: 13221198--13221266 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
13221188 GAGCAACAGC
*
13221198 ATGTTTCACTTGTAGAGATGAAAACTATCCA
1 ATGTTTCACTTGTAGAGATGAAAACGATCCA
* *
13221229 ATGTTTCACTTGTAGAGCTGTAAACGATCCA
1 ATGTTTCACTTGTAGAGATGAAAACGATCCA
13221260 ATGTTTC
1 ATGTTTC
13221267 GTTTTTATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (31 bp):
ATGTTTCACTTGTAGAGATGAAAACGATCCA
Found at i:13222462 original size:20 final size:20
Alignment explanation
Indices: 13222420--13222486 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
13222410 TTGTATGAGA
* * * *
13222420 TTGCACATTGGTGCCACTAT
1 TTGCACTTTGATGCCATTGT
13222440 TTGCA-TTTCGATGCCATTGT
1 TTGCACTTT-GATGCCATTGT
*
13222460 TTGCACTTTGGTGCCATTGT
1 TTGCACTTTGATGCCATTGT
*
13222480 TAGCACT
1 TTGCACT
13222487 AGGTGTCTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.05
20 34 0.87
21 3 0.08
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCACTTTGATGCCATTGT
Found at i:13225494 original size:41 final size:41
Alignment explanation
Indices: 13225436--13225609 Score: 269
Period size: 41 Copynumber: 4.2 Consensus size: 41
13225426 ACTGGCACTT
* * *
13225436 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCATCA
13225477 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCATCA
*
13225518 AGCCTGCTAAACTTAAAGTCTGAAATGTTTCACTGGCGA-CA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGC-ATCA
** *
13225559 AGCCTGCTAGACTTAAAGTCTGAAACATATCACTGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCATCA
13225600 AGCCTGCTAG
1 AGCCTGCTAG
13225610 GCACCGAGCC
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 121 0.98
42 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACTGGCATCA
Found at i:13227267 original size:2 final size:2
Alignment explanation
Indices: 13227260--13227289 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
13227250 AATACAATAG
*
13227260 AT AT AT AT AT AT AT AT GT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13227290 TAATTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13227524 original size:740 final size:739
Alignment explanation
Indices: 13226009--13227444 Score: 2701
Period size: 740 Copynumber: 1.9 Consensus size: 739
13225999 TTCGAGTCTC
* *
13226009 ATACATACTTTATATAATAGTCATACCTAAATTTAACACAAAAACATATTCAATTATATTTGTAT
1 ATACATACTTCACATAATAGTCATACCTAAATTTAACACAAAAACATATTCAATTATATTTGTAT
13226074 TTCCGAACTTCATATAAACTTATATAAAAATTATACCCAAACTCAATACAAAAACATATACATGT
66 TTCCGAACTTCATATAAACTTATATAAAAATTATACCCAAACTCAATACAAAAACATATACATGT
13226139 AAATATATATTTATGTGCTCATTCAATTCTATCATATACATATAAATTTCAACTCACATGTACAT
131 AAATATATATTTATGTGCTCATTCAATTCTATCATATACATATAAATTTCAACTCACATGTACAT
13226204 ACCATTTCAAAACTACTTATGCAAATATAACATATATATTTTTAATCAATCCAATAGTTTGTACA
196 ACCATTTCAAAACTACTTATGCAAATATAACATATATATTTTTAATCAATCCAATAGTTTGTACA
13226269 TATATGTACTTACATATATATATACATTCGAACCTTATATATATATACACTATACATACCTTTCG
261 TATATGTACTTACATATATATATACATTCGAACCTTATATATATATACACTATACATACCTTTCG
13226334 ATTAATAACCAAGAATTTATACATAAGCCATATTCATTCTTCAACTAAATTCAAGAGCTTACATA
326 ATTAATAACCAAGAATTTATACATAAGCCATATTCATTCTTCAACTAAATTCAAGAGCTTACATA
*
13226399 TATGTGTATACATATATGTATATTCGAGCATTAATCATATATTTATATATATACATATCATTTTT
391 TATGTGTATACATATATGTATATTCGAACATTAATCATATATTTATATATATACATATCATTTTT
13226464 ACTTTGATTAAATTCAAGCTATATACTTTCAATTTGAGCTCATCCAAATACAATAGATATATATA
456 ACTTTGATTAAATTCAAGCTATATACTTTCAATTTGAGCTCATCCAAATACAATAGATATATATA
* *
13226529 TATGTATATATATATATATTAATTAATAACATTAAATTGCTAGTTGACTTCCCTCGGACGGTGAA
521 TATATATATATATATATATTAATTAATAACATTAAATTGCTAGTTGACTTACCTCGGACGGTGAA
13226594 AAATCGAAACCGGACGATTATTCGACGATTTTAGCTTTCCCCCGATCTAACTCCGATTTTTTTGG
586 AAATCGAAACCGGACGATTATTCGACGATTTTAGCTTTCCCCCGATCTAACTCCGATTTTTTTGG
*
13226659 TTCTTGATCTAAATATATCCAGAATGAGATAATTTAAATATTAATATACATAAACATGTACATAT
651 TTCTTGATCTAAATATATCCAGAATGAGATAATTTAAATATTAATATACATAAACATGTACATAC
***** * * **
13226724 ATAAGTTTGTATATATTCGAATCT
716 ATAAGAACACATAAATACGAAAAT
*
13226748 CATACATACTTCATATAATAGTCATACCTAAATTTAACACAAAAACATATTCAATTATATTTGTA
1 -ATACATACTTCACATAATAGTCATACCTAAATTTAACACAAAAACATATTCAATTATATTTGTA
13226813 TTTCCGAACTTCATATAAACTTATATAAAAATTATACCCAAACTCAATACAAAAACATATACATG
65 TTTCCGAACTTCATATAAACTTATATAAAAATTATACCCAAACTCAATACAAAAACATATACATG
13226878 TAAATATATATTTATGTGCTCATTCAATTCTATCATATACATATAAATTTCAACTCACATGTACA
130 TAAATATATATTTATGTGCTCATTCAATTCTATCATATACATATAAATTTCAACTCACATGTACA
13226943 TACCATTTCAAAACTACTTATGCAAATATAACATATATATTTTTAATCAATCCAATAGTTTGTAC
195 TACCATTTCAAAACTACTTATGCAAATATAACATATATATTTTTAATCAATCCAATAGTTTGTAC
13227008 ATATATGTACTTACATATATATATACATTCGAACCTTATATATATATACACTATACATACCTTTC
260 ATATATGTACTTACATATATATATACATTCGAACCTTATATATATATACACTATACATACCTTTC
13227073 GATTAATAACCAAGAATTTATACATAAGCCATATTCATTCTTCAACTAAATTCAAGAGCTTACAT
325 GATTAATAACCAAGAATTTATACATAAGCCATATTCATTCTTCAACTAAATTCAAGAGCTTACAT
13227138 ATATGTGTATACATATATGTATATTCGAACATTAATCATATATTTATATATATACATATCATTTT
390 ATATGTGTATACATATATGTATATTCGAACATTAATCATATATTTATATATATACATATCATTTT
13227203 TACTTTGATTAAATTCAAGCTATATACTTTCAATTTGAGCTCATCCAAATACAATAGATATATAT
455 TACTTTGATTAAATTCAAGCTATATACTTTCAATTTGAGCTCATCCAAATACAATAGATATATAT
13227268 ATATATATGTATATATATATATTAATTAATAACATTAAATTGCTAGTTGACTTACCTCGGACGGT
520 ATATATA--TATATATATATATTAATTAATAACATTAAATTGCTAGTTGACTTACCTCGGACGGT
13227333 GAAAAATCGAAACCGGACGATTATTCGACGATTTTAGCTTTCCCCCGATCTAACTCCGATTTTTT
583 GAAAAATCGAAACCGGACGATTATTCGACGATTTTAGCTTTCCCCCGATCTAACTCCGATTTTTT
13227398 TGGTTCTTGATCTAAATATATCCAGAATGAGATAATTTAAATATTAA
648 TGGTTCTTGATCTAAATATATCCAGAATGAGATAATTTAAATATTAA
13227445 AACATTCAAT
Statistics
Matches: 690, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
740 523 0.76
742 167 0.24
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.37
Consensus pattern (739 bp):
ATACATACTTCACATAATAGTCATACCTAAATTTAACACAAAAACATATTCAATTATATTTGTAT
TTCCGAACTTCATATAAACTTATATAAAAATTATACCCAAACTCAATACAAAAACATATACATGT
AAATATATATTTATGTGCTCATTCAATTCTATCATATACATATAAATTTCAACTCACATGTACAT
ACCATTTCAAAACTACTTATGCAAATATAACATATATATTTTTAATCAATCCAATAGTTTGTACA
TATATGTACTTACATATATATATACATTCGAACCTTATATATATATACACTATACATACCTTTCG
ATTAATAACCAAGAATTTATACATAAGCCATATTCATTCTTCAACTAAATTCAAGAGCTTACATA
TATGTGTATACATATATGTATATTCGAACATTAATCATATATTTATATATATACATATCATTTTT
ACTTTGATTAAATTCAAGCTATATACTTTCAATTTGAGCTCATCCAAATACAATAGATATATATA
TATATATATATATATATATTAATTAATAACATTAAATTGCTAGTTGACTTACCTCGGACGGTGAA
AAATCGAAACCGGACGATTATTCGACGATTTTAGCTTTCCCCCGATCTAACTCCGATTTTTTTGG
TTCTTGATCTAAATATATCCAGAATGAGATAATTTAAATATTAATATACATAAACATGTACATAC
ATAAGAACACATAAATACGAAAAT
Found at i:13228025 original size:28 final size:26
Alignment explanation
Indices: 13227993--13228044 Score: 86
Period size: 28 Copynumber: 1.9 Consensus size: 26
13227983 TTTTTAATGT
13227993 TTATTATAACATAATAATATATTATACC
1 TTATTATAACAT-AT-ATATATTATACC
13228021 TTATTATAACATATATATATTATA
1 TTATTATAACATATATATATTATA
13228045 TTAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 10 0.42
27 2 0.08
28 12 0.50
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (26 bp):
TTATTATAACATATATATATTATACC
Found at i:13245503 original size:25 final size:25
Alignment explanation
Indices: 13245469--13245518 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
13245459 TTGTTGAGTC
13245469 TATTTTCTGTAAAAACAAGTAAGAA
1 TATTTTCTGTAAAAACAAGTAAGAA
13245494 TATTTTCTGTAAAAACAAGTAAGAA
1 TATTTTCTGTAAAAACAAGTAAGAA
13245519 CTTCATATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (25 bp):
TATTTTCTGTAAAAACAAGTAAGAA
Found at i:13250621 original size:32 final size:32
Alignment explanation
Indices: 13250585--13250656 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
13250575 ATAGCAATGG
* * *
13250585 TCAAATTGAATGTAATTGAAATTAAATCGA-GA
1 TCAAATTGAAT-TAATTAAAACTAAATCAAGGA
* *
13250617 TCAAATTAAATTAATTAAAACTAAATTAAGGA
1 TCAAATTGAATTAATTAAAACTAAATCAAGGA
13250649 TCAAATTG
1 TCAAATTG
13250657 CATAAGAGAC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
31 14 0.42
32 19 0.58
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.32
Consensus pattern (32 bp):
TCAAATTGAATTAATTAAAACTAAATCAAGGA
Found at i:13261533 original size:25 final size:25
Alignment explanation
Indices: 13261505--13261563 Score: 109
Period size: 25 Copynumber: 2.4 Consensus size: 25
13261495 AGTTTTTAGA
13261505 GGTCATATTGGTCCTTTATAATGTT
1 GGTCATATTGGTCCTTTATAATGTT
*
13261530 GGTCATATTGGTCTTTTATAATGTT
1 GGTCATATTGGTCCTTTATAATGTT
13261555 GGTCATATT
1 GGTCATATT
13261564 TGTACTATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.20, C:0.10, G:0.20, T:0.49
Consensus pattern (25 bp):
GGTCATATTGGTCCTTTATAATGTT
Found at i:13263855 original size:23 final size:23
Alignment explanation
Indices: 13263810--13263855 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
13263800 AATTTAAACA
* ** *
13263810 TTTTTATTTTATTTTTTTCTATT
1 TTTTTATTTAATTTTGATATATT
13263833 TTTTTATTTAATTTTGATATATT
1 TTTTTATTTAATTTTGATATATT
13263856 GGCTCATTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (23 bp):
TTTTTATTTAATTTTGATATATT
Found at i:13266312 original size:3 final size:3
Alignment explanation
Indices: 13266304--13266349 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
13266294 GCTGGTACAT
13266304 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
13266350 ACATGGGGCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:13275746 original size:31 final size:33
Alignment explanation
Indices: 13275711--13275777 Score: 93
Period size: 31 Copynumber: 2.1 Consensus size: 33
13275701 TTTTTTAGTT
*
13275711 AAATTTCACCCTCAACC-TTTT-AAAAAGAGTC
1 AAATTTCACCATCAACCTTTTTGAAAAAGAGTC
* *
13275742 AAATTTTACTATCAACCTTTTTGAAAAAGAGTC
1 AAATTTCACCATCAACCTTTTTGAAAAAGAGTC
13275775 AAA
1 AAA
13275778 ATAATATTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 14 0.45
32 4 0.13
33 13 0.42
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.31
Consensus pattern (33 bp):
AAATTTCACCATCAACCTTTTTGAAAAAGAGTC
Found at i:13277269 original size:22 final size:22
Alignment explanation
Indices: 13277244--13277288 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
13277234 AATATATACT
13277244 TCATTAAAAATGTAAGGGTAAA
1 TCATTAAAAATGTAAGGGTAAA
13277266 TCATTAAAAATGTAAGGGTAAA
1 TCATTAAAAATGTAAGGGTAAA
13277288 T
1 T
13277289 TATGCTAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.49, C:0.04, G:0.18, T:0.29
Consensus pattern (22 bp):
TCATTAAAAATGTAAGGGTAAA
Found at i:13280137 original size:14 final size:14
Alignment explanation
Indices: 13280118--13280147 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13280108 GTTTCTTCCT
13280118 TCTCGATGATTCAA
1 TCTCGATGATTCAA
13280132 TCTCGATGATTCAA
1 TCTCGATGATTCAA
13280146 TC
1 TC
13280148 GTCGCCGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (14 bp):
TCTCGATGATTCAA
Found at i:13280452 original size:23 final size:23
Alignment explanation
Indices: 13280426--13280470 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
13280416 AGAAGAAAGT
*
13280426 TTCTATCTTCGCAAAAGTTAGAA
1 TTCTATCTTCACAAAAGTTAGAA
13280449 TTCTATCTTCACAAAAGTTAGA
1 TTCTATCTTCACAAAAGTTAGA
13280471 GCTTGTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (23 bp):
TTCTATCTTCACAAAAGTTAGAA
Found at i:13284317 original size:120 final size:119
Alignment explanation
Indices: 13284215--13284501 Score: 450
Period size: 120 Copynumber: 2.4 Consensus size: 119
13284205 TAAGTAATTG
* * *
13284215 AAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATTA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
*
13284280 TATATTATGATTTTAGAAAATTCATACAAGAATATTTAATATTAAGAATTTTATT
66 TATATTATGATTTGAGAAAATTCATACAAGAATATTT-ATATTAAGAATTTTATT
* *
13284335 AAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTATC
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATC
* * * *
13284399 ATATATTATGATTTGAGTAAATTGATATAAGAATATTGATTATTAAGAATTTTATT
65 ATATATTATGATTTGAGAAAATTCATACAAGAATATTTA-TATTAAGAATTTTATT
13284455 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
13284502 ATATGATTAA
Statistics
Matches: 152, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
119 3 0.02
120 147 0.97
121 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (119 bp):
AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
TATATTATGATTTGAGAAAATTCATACAAGAATATTTATATTAAGAATTTTATT
Found at i:13284464 original size:61 final size:58
Alignment explanation
Indices: 13284279--13284466 Score: 136
Period size: 61 Copynumber: 3.1 Consensus size: 58
13284269 TTATAGTATT
*
13284279 ATATATTATGATTTTAGAAAATTCATACAAGAATATTTAA-TATTAAGAATTTTATTAAATC
1 ATATATTATGA-TTTAG-AAATT-ATATAAGAATA-TTAATTATTAAGAATTTTATTAAATC
* * ** * *
13284340 ATATATT-TTAATTA-AAA-TATAT-TTAATATTAATTATTTCAAATTATATTTTA-TAGTATC
1 ATATATTATGATTTAGAAATTATATAAGAATATTAATTA-TT--AA-GA-ATTTTATTA-AATC
* *
13284399 ATATATTATGATTTGAGTAAATTGATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTT-AG-AAATT-ATATAAGAATATTAATTATTAAGAATTTTATTAAATC
13284460 ATATATT
1 ATATATT
13284467 TTAATTAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 30
0.68 0.11 0.21
Matches are distributed among these distances:
53 4 0.04
54 6 0.06
55 5 0.05
56 1 0.01
57 5 0.05
58 3 0.03
59 19 0.20
60 6 0.06
61 23 0.24
62 3 0.03
63 5 0.05
64 1 0.01
65 6 0.06
66 10 0.10
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (58 bp):
ATATATTATGATTTAGAAATTATATAAGAATATTAATTATTAAGAATTTTATTAAATC
Found at i:13284475 original size:18 final size:17
Alignment explanation
Indices: 13284447--13284481 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
13284437 ATTATTAAGA
*
13284447 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
13284464 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
13284482 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:13284735 original size:16 final size:16
Alignment explanation
Indices: 13284714--13284757 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
13284704 TTGATTTGCT
* *
13284714 ATTACATCTCTATTTC
1 ATTACACCTCTATTCC
13284730 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
13284746 ATTACGCCTCTA
1 ATTACACCTCTA
13284758 ATACAATACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.25, C:0.32, G:0.02, T:0.41
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:13288607 original size:29 final size:29
Alignment explanation
Indices: 13288549--13288610 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
13288539 AAGGGTATCC
13288549 TTATATATATAAATTTTTATTTTGCATAATT
1 TTATATATATAAATTTTTATTTT--ATAATT
13288580 TTATATATATTAAATGTTTT-TTTT-TAATT
1 TTATATATA-TAAAT-TTTTATTTTATAATT
13288609 TT
1 TT
13288611 GACAAATTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 7 0.24
31 9 0.31
32 9 0.31
33 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.63
Consensus pattern (29 bp):
TTATATATATAAATTTTTATTTTATAATT
Found at i:13291465 original size:25 final size:25
Alignment explanation
Indices: 13291428--13291475 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
13291418 TTTAAAATGT
* *
13291428 AAAAATTATAAAAAAAATTTAAATA
1 AAAAAGTACAAAAAAAATTTAAATA
* *
13291453 AAAAAGTACAAAATAACTTTAAA
1 AAAAAGTACAAAAAAAATTTAAA
13291476 ATGAAAAGAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (25 bp):
AAAAAGTACAAAAAAAATTTAAATA
Found at i:13294036 original size:17 final size:18
Alignment explanation
Indices: 13293997--13294037 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
13293987 TTTTATAAAT
13293997 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGATA
13294015 TGTGAATTA-ATATTGA-A
1 TGTGAATTATAT-TTGATA
13294032 TGTGAA
1 TGTGAA
13294038 AGGAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.44
Consensus pattern (18 bp):
TGTGAATTATATTTGATA
Found at i:13294288 original size:23 final size:23
Alignment explanation
Indices: 13294261--13294313 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
13294251 AGTGTTATTG
13294261 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
13294284 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
13294307 ATCAGTG
1 ATCAGTG
13294314 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:13296495 original size:50 final size:50
Alignment explanation
Indices: 13296415--13296514 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 50
13296405 TTATCATTGT
* * *
13296415 GCATTTGTTAAATAAGAAAGTTACTGGCCTAATGGTTAAGTGTTAGTGAA
1 GCATTTGTTAAATAAGAAAGTTACTAGCCTAATGGTTAAATGTTACTGAA
13296465 GCATTTGTTAAATAAGAAAGTTACTAGCCTAATGGTTAAATGTTACTGAA
1 GCATTTGTTAAATAAGAAAGTTACTAGCCTAATGGTTAAATGTTACTGAA
13296515 TTTGTCCTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (50 bp):
GCATTTGTTAAATAAGAAAGTTACTAGCCTAATGGTTAAATGTTACTGAA
Found at i:13297904 original size:10 final size:11
Alignment explanation
Indices: 13297889--13297948 Score: 59
Period size: 11 Copynumber: 5.5 Consensus size: 11
13297879 AACTAAATTC
13297889 TTTCTCTC-AA
1 TTTCTCTCAAA
*
13297899 TTTCTCTCTAA
1 TTTCTCTCAAA
13297910 TATTCTCTCAAA
1 T-TTCTCTCAAA
*
13297922 TTCCTCTCAAA
1 TTTCTCTCAAA
* * *
13297933 TTCCTTTGAAA
1 TTTCTCTCAAA
13297944 TTTCT
1 TTTCT
13297949 ATTTAAAAGA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
10 8 0.19
11 25 0.58
12 10 0.23
ACGTcount: A:0.23, C:0.27, G:0.02, T:0.48
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:13297915 original size:12 final size:10
Alignment explanation
Indices: 13297889--13297931 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
13297879 AACTAAATTC
13297889 TTTCTCTCAA
1 TTTCTCTCAA
13297899 TTTCTCTCTAA
1 TTTCTCTC-AA
13297910 TATTCTCTCAAA
1 T-TTCTCTC-AA
*
13297922 TTCCTCTCAA
1 TTTCTCTCAA
13297932 ATTCCTTTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 10 0.34
11 9 0.31
12 10 0.34
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:13297993 original size:29 final size:27
Alignment explanation
Indices: 13297950--13298008 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
13297940 GAAATTTCTA
* *
13297950 TTTAAAAGAGCTTTAATTTTTTAATTATT
1 TTTAAAAAAGCTTTAAATTTTT-ATT-TT
*
13297979 TTTAAAAAAGTTTTAAATTTTTATTTT
1 TTTAAAAAAGCTTTAAATTTTTATTTT
13298006 TTT
1 TTT
13298009 GAATTTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 3 0.11
29 19 0.70
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (27 bp):
TTTAAAAAAGCTTTAAATTTTTATTTT
Found at i:13299395 original size:75 final size:75
Alignment explanation
Indices: 13299300--13299449 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
13299290 GCAATCGATT
*
13299300 AGGTGGAACCATCCGGCAAGTTATGCTCGATTGTCTACCTCTCTTGAAGATATACGGCTTCTATT
1 AGGTGGAACCATCCGGCAAGTTATGCTCGATTATCTACCTCTCTTGAAGATATACGGCTTCTATT
13299365 GGACCAACGG
66 GGACCAACGG
13299375 AGGTGGAACCATCCGGCAAGTTATGCTCGATTATCTACCTCTCTTGAAGATATACGGCTTCTATT
1 AGGTGGAACCATCCGGCAAGTTATGCTCGATTATCTACCTCTCTTGAAGATATACGGCTTCTATT
*
13299440 GTACCAACGG
66 GGACCAACGG
13299450 TCGAAAGCAC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.29
Consensus pattern (75 bp):
AGGTGGAACCATCCGGCAAGTTATGCTCGATTATCTACCTCTCTTGAAGATATACGGCTTCTATT
GGACCAACGG
Found at i:13300206 original size:18 final size:18
Alignment explanation
Indices: 13300170--13300212 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
13300160 TGCTAGGTGC
* * *
13300170 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCATATAT
13300188 GTATCCTAACCCATATAT
1 GTATCCTAACCCATATAT
*
13300206 GTTTCCT
1 GTATCCT
13300213 TTTTTTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCATATAT
Found at i:13305243 original size:126 final size:125
Alignment explanation
Indices: 13304961--13305250 Score: 472
Period size: 125 Copynumber: 2.3 Consensus size: 125
13304951 CCAAACATGC
* * * *
13304961 GCTACTGTAGCAAAAGCGCGTCCATGTGAGAGCTTATTTCAATACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTCTACTGACAAAGCATCCT
*
13305026 GCTTAAAGCGTTTTTGACACTTTTTCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTTTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
* * *
13305086 GCTACTGTAGCAAAAGCGCATCCACGTGGGAGCTTCTTTCAGTACTTCTACTGACAAAGCATCTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTCTACTGACAAAGCATCCT
* *
13305151 GCTTAAAGCGTTTTTGACACTATTTGCTTAGAAACGTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACT-TTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
*
13305212 GCTACTGTAGCAAAAGTGCGTCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
13305251 AATTTAACAA
Statistics
Matches: 152, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
125 79 0.52
126 73 0.48
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (125 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAATACTTCTACTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTTTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
Found at i:13305434 original size:14 final size:14
Alignment explanation
Indices: 13305415--13305451 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
13305405 TTTCCCTTAA
13305415 AAACCCTTAACTCT
1 AAACCCTTAACTCT
**
13305429 AAACCCTTGTCTCT
1 AAACCCTTAACTCT
13305443 AAACCCTTA
1 AAACCCTTA
13305452 TCTGATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.35, G:0.03, T:0.30
Consensus pattern (14 bp):
AAACCCTTAACTCT
Found at i:13307141 original size:25 final size:25
Alignment explanation
Indices: 13307113--13307184 Score: 99
Period size: 27 Copynumber: 2.8 Consensus size: 25
13307103 AGCTAATATT
13307113 GGGAAGCTCCGAAGAGCCATTAATC
1 GGGAAGCTCCGAAGAGCCATTAATC
* * *
13307138 GGGAAGCTCATGAAAGAGCCTTTAATT
1 GGGAAGCTC-CG-AAGAGCCATTAATC
13307165 GGGAAGCTCCGAAGAGCCAT
1 GGGAAGCTCCGAAGAGCCAT
13307185 ATATCGAGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
25 17 0.43
26 2 0.05
27 21 0.52
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.18
Consensus pattern (25 bp):
GGGAAGCTCCGAAGAGCCATTAATC
Found at i:13307310 original size:25 final size:24
Alignment explanation
Indices: 13307267--13307323 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 24
13307257 GAAGAGCTAT
* *
13307267 TAACGGGAAGCTCGCAAGAACCATA
1 TAACGAGAAGCTCACAAGAACCA-A
* * *
13307292 TAACGAGAAGCTCATAAGAGCTAA
1 TAACGAGAAGCTCACAAGAACCAA
13307316 TAACGAGA
1 TAACGAGA
13307324 CACTCTCCGC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (24 bp):
TAACGAGAAGCTCACAAGAACCAA
Found at i:13307323 original size:24 final size:24
Alignment explanation
Indices: 13307252--13307323 Score: 72
Period size: 24 Copynumber: 3.0 Consensus size: 24
13307242 AAAACAGGAT
* * *
13307252 GCTCAGAAGAGCTATTAACGGGAA
1 GCTCACAAGAGCTAATAACGAGAA
* * *
13307276 GCTCGCAAGAACCATATAACGAGAA
1 GCTCACAAGAGCTA-ATAACGAGAA
*
13307301 GCTCATAAGAGCTAATAACGAGA
1 GCTCACAAGAGCTAATAACGAGA
13307324 CACTCTCCGC
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
24 19 0.51
25 18 0.49
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.15
Consensus pattern (24 bp):
GCTCACAAGAGCTAATAACGAGAA
Found at i:13307484 original size:20 final size:20
Alignment explanation
Indices: 13307459--13307499 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
13307449 TGATAATTAC
13307459 TCAATTC-ACATATATAATAT
1 TCAATTCAACATATA-AATAT
13307479 TCAATTCAAACATATAAATAT
1 TCAATTC-AACATATAAATAT
13307500 ACACAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
21 5 0.26
22 7 0.37
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.37
Consensus pattern (20 bp):
TCAATTCAACATATAAATAT
Done.