Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 89 of 221
Found at i:27027035 original size:18 final size:18
Alignment explanation
Indices: 27027012--27027049 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
27027002 TATGCTAGCA
27027012 AAACTCTTACAGAAGCTC
1 AAACTCTTACAGAAGCTC
*
27027030 AAACTCTTATAGAAGCTC
1 AAACTCTTACAGAAGCTC
27027048 AA
1 AA
27027050 CTCAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.24
Consensus pattern (18 bp):
AAACTCTTACAGAAGCTC
Found at i:27029568 original size:18 final size:18
Alignment explanation
Indices: 27029545--27029602 Score: 57
Period size: 18 Copynumber: 3.1 Consensus size: 18
27029535 GCTACTATAG
27029545 AAGAGGAAGTTGTTGCAA
1 AAGAGGAAGTTGTTGCAA
27029563 AAGAGGAAG-TGCTTGCTAAA
1 AAGAGGAAGTTG-TTGC--AA
*
27029583 GAAGAAGAAGTTGTTG-AA
1 -AAGAGGAAGTTGTTGCAA
27029601 AA
1 AA
27029603 TGAGAAAGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
17 4 0.12
18 15 0.44
20 2 0.06
21 11 0.32
22 2 0.06
ACGTcount: A:0.43, C:0.05, G:0.31, T:0.21
Consensus pattern (18 bp):
AAGAGGAAGTTGTTGCAA
Found at i:27029570 original size:39 final size:38
Alignment explanation
Indices: 27029527--27029602 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
27029517 GTTGTTGAGA
* *
27029527 AGGAAGCTGC-TACTATAGAAGAGGAAGTTGTTGCAAAAG
1 AGGAAG-TGCTTACTAAAGAAGAAGAAGTTGTTG-AAAAG
*
27029566 AGGAAGTGCTTGCTAAAGAAGAAGAAGTTGTTGAAAA
1 AGGAAGTGCTTACTAAAGAAGAAGAAGTTGTTGAAAA
27029603 TGAGAAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 7 0.21
39 26 0.79
ACGTcount: A:0.41, C:0.08, G:0.30, T:0.21
Consensus pattern (38 bp):
AGGAAGTGCTTACTAAAGAAGAAGAAGTTGTTGAAAAG
Found at i:27037224 original size:50 final size:50
Alignment explanation
Indices: 27037114--27037392 Score: 355
Period size: 50 Copynumber: 5.5 Consensus size: 50
27037104 ACATTAAGAG
* * *
27037114 GATGAGA--TCCCATGTAACACCATGTCTGGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGA
27037165 GATTATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* *
27037218 GATGAGAGGTCCCGTGTAAGACCATGTCTGGGACATGGCGTTGGCATCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
*
27037268 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* ** * * *
27037318 GATAAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
* **
27037368 TATGAGAACTCCCATGTAAGACCAT
1 GATGAGAGGTCCCATGTAAGACCAT
27037393 ATATGGGGTA
Statistics
Matches: 203, Mismatches: 20, Indels: 11
0.87 0.09 0.05
Matches are distributed among these distances:
50 157 0.77
51 1 0.00
53 3 0.01
54 6 0.03
55 1 0.00
56 35 0.17
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
Found at i:27037406 original size:50 final size:49
Alignment explanation
Indices: 27037333--27037438 Score: 115
Period size: 50 Copynumber: 2.1 Consensus size: 49
27037323 GAGGTCCCCC
* * * *
27037333 GTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAAC-TCCCAT
1 GTAAGACCATATATGGGACATGGCATGGGCA-CTATA-AAAAACATCCCAT
** * *
27037383 GTAAGACCATATATGGGGTATGGCATTGGCAGTATAAAAAACATCCCAT
1 GTAAGACCATATATGGGACATGGCATGGGCACTATAAAAAACATCCCAT
27037432 GTAAGAC
1 GTAAGAC
27037439 TATGTCTAGG
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
48 4 0.09
49 17 0.36
50 26 0.55
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.23
Consensus pattern (49 bp):
GTAAGACCATATATGGGACATGGCATGGGCACTATAAAAAACATCCCAT
Found at i:27037714 original size:20 final size:20
Alignment explanation
Indices: 27037676--27037714 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27037666 TAAGCAAGCA
*
27037676 AGTAAGTAAACAAGTAAGTG
1 AGTAAGTAAACAAGAAAGTG
*
27037696 AGTAAGTAAAGAAGAAAGT
1 AGTAAGTAAACAAGAAAGT
27037715 AAAGATCCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.54, C:0.03, G:0.26, T:0.18
Consensus pattern (20 bp):
AGTAAGTAAACAAGAAAGTG
Found at i:27041368 original size:28 final size:27
Alignment explanation
Indices: 27041305--27041456 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
27041295 ATATTAAGTC
* * *
27041305 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
27041332 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
27041360 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
27041387 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
27041415 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
*
27041442 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
27041457 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 65 0.55
28 53 0.45
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:27041389 original size:55 final size:55
Alignment explanation
Indices: 27041305--27041456 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
27041295 ATATTAAGTC
* * *
27041305 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
27041360 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
27041415 CGCACACTTAGTGCTACATAGTCAATTCACACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
27041457 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 91 1.00
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:27049417 original size:28 final size:27
Alignment explanation
Indices: 27049354--27049505 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
27049344 ATATTAAGTC
* * *
27049354 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
27049381 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
27049409 CGCACACTTACTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
27049436 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
27049464 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
27049491 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
27049506 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
27 65 0.56
28 52 0.44
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:27049438 original size:55 final size:55
Alignment explanation
Indices: 27049354--27049505 Score: 250
Period size: 55 Copynumber: 2.8 Consensus size: 55
27049344 ATATTAAGTC
* * *
27049354 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
27049409 CGCACACTTACTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
27049464 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
27049506 GCACAATTTA
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:27050644 original size:19 final size:19
Alignment explanation
Indices: 27050617--27050653 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
27050607 TAGTTCATAC
*
27050617 TTTCTATTCACATTTTCAT
1 TTTCAATTCACATTTTCAT
27050636 TTTCAATTCACATTTTCA
1 TTTCAATTCACATTTTCA
27050654 AATTATATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTCAATTCACATTTTCAT
Found at i:27050663 original size:19 final size:20
Alignment explanation
Indices: 27050621--27050663 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
27050611 TCATACTTTC
**
27050621 TATTCACATTTTCATTTTCA
1 TATTCACATTTTCAAATTCA
27050641 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
27050659 TATTC
1 TATTC
27050664 CACTTAGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:27050888 original size:51 final size:51
Alignment explanation
Indices: 27050792--27050966 Score: 160
Period size: 51 Copynumber: 3.5 Consensus size: 51
27050782 GTATTCGGTT
* ** * *
27050792 CACATAGTACTACACATGTGA-CCATTTCCA-TCCGATACACGTAGTAGCCTG
1 CACATAGTACTACACACGTGATCCA--AGCATTCCGATACGCATAGTAGCCTG
* * *
27050843 CACATAGTACTACACACGTGATCGAAGCTATT-CGGTACGCATAGTAGCCTA
1 CACATAGTACTACACACGTGATCCAAGC-ATTCCGATACGCATAGTAGCCTG
* * * * * * *
27050894 CACATAGTACTACACATGCGA-CCCATCATTCCGATACTCGTAGTAGCTTG
1 CACATAGTACTACACACGTGATCCAAGCATTCCGATACGCATAGTAGCCTG
27050944 CACATAGTACTACACACGTGATC
1 CACATAGTACTACACACGTGATC
27050967 ATCACTTTCA
Statistics
Matches: 99, Mismatches: 20, Indels: 10
0.77 0.16 0.08
Matches are distributed among these distances:
49 3 0.03
50 37 0.37
51 56 0.57
52 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (51 bp):
CACATAGTACTACACACGTGATCCAAGCATTCCGATACGCATAGTAGCCTG
Found at i:27055012 original size:24 final size:25
Alignment explanation
Indices: 27054984--27055043 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
27054974 TTTCTCAAAA
*
27054984 AATTTAATTAATAT-AAATATTA-AT
1 AATTTAATTAAT-TGAAAAATTAGAT
*
27055008 AATTTAATAAATTGAAAAATTAGAT
1 AATTTAATTAATTGAAAAATTAGAT
*
27055033 AATTAAATTAA
1 AATTTAATTAA
27055044 AATTTAGGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 1 0.03
24 18 0.60
25 11 0.37
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (25 bp):
AATTTAATTAATTGAAAAATTAGAT
Found at i:27055621 original size:16 final size:15
Alignment explanation
Indices: 27055600--27055641 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
27055590 AAAGCTGATA
27055600 ATAATTAATATATATT
1 ATAATTAATATA-ATT
*
27055616 ATAATTGATATAATT
1 ATAATTAATATAATT
27055631 ATATATTAATA
1 ATA-ATTAATA
27055642 ATTATCATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (15 bp):
ATAATTAATATAATT
Found at i:27055765 original size:30 final size:30
Alignment explanation
Indices: 27055708--27055767 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27055698 GCTTTTTGAA
* *
27055708 AATATTGACAAAAAGAGGCATCTAATTTTT
1 AATATTGACAAAAAGAGGCACCAAATTTTT
*
27055738 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTGACAAAAAGAGGC-ACCAAATTTTT
27055768 TAAAATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.32
Consensus pattern (30 bp):
AATATTGACAAAAAGAGGCACCAAATTTTT
Found at i:27063842 original size:17 final size:17
Alignment explanation
Indices: 27063820--27063853 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27063810 GATAAGTATA
*
27063820 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
27063837 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
27063854 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:27064784 original size:21 final size:22
Alignment explanation
Indices: 27064760--27064800 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
27064750 TATATTTTAG
*
27064760 CATTTT-CAATTTAGTGAATTT
1 CATTTTACAACTTAGTGAATTT
*
27064781 CATTTTATAACTTAGTGAAT
1 CATTTTACAACTTAGTGAAT
27064801 CCTAGCCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (22 bp):
CATTTTACAACTTAGTGAATTT
Found at i:27075668 original size:41 final size:40
Alignment explanation
Indices: 27075609--27075967 Score: 387
Period size: 41 Copynumber: 8.6 Consensus size: 40
27075599 GGATCCTGGT
*
27075609 GGAATCAGCACTTGGCAACCACCTTATAATCAATGATACGG
1 GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * * *
27075650 GGAATCAACACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCC-TT-ATAATCAATGATACGG
27075692 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * *
27075734 GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCC-TT-ATAATCAATGATACGG
* *
27075776 TTGAATCAACACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* *
27075818 GGAATCAGCACATAGCAACCCCTT-TCACCATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCCTTAT-A--ATCAATGATACGG
* *
27075860 TGGAATCAGCACTTAGCAACCATCTTATAATCAATGATACAG
1 -GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * * * * *
27075902 GGAATCAGCACATAGTAACCCCTTTTTGATCAATGATTCGA
1 GGAATCAGCACTTAGCAACCCC-TTATAATCAATGATACGG
*
27075943 GGAATCTGCACTTAGCAACCCCTTA
1 GGAATCAGCACTTAGCAACCCCTTA
27075968 CATTCAAAGA
Statistics
Matches: 266, Mismatches: 37, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.00
40 12 0.05
41 107 0.40
42 79 0.30
43 58 0.22
44 8 0.03
45 1 0.00
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (40 bp):
GGAATCAGCACTTAGCAACCCCTTATAATCAATGATACGG
Found at i:27075711 original size:84 final size:84
Alignment explanation
Indices: 27075597--27075926 Score: 570
Period size: 84 Copynumber: 3.9 Consensus size: 84
27075587 CTCATGTTCA
* * *
27075597 AAGGATCCTGGTGGAATCAGCACTTGGCAACCACCTTATAATCAATGATACGGGGAATCAACACA
1 AAGGATAC-GGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACA
27075662 TAGCAACCCCTTTCACAATC
65 TAGCAACCCCTTTCACAATC
27075682 AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
1 AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
27075747 AGCAACCCCTTTCACAATC
66 AGCAACCCCTTTCACAATC
* *
27075766 AAGGATACGGTTGAATCAACACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
1 AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
*
27075831 AGCAACCCCTTTCACCATC
66 AGCAACCCCTTTCACAATC
* *
27075850 AAGGATACGGTGGAATCAGCACTTAGCAACCATCTTATAATCAATGATACAGGGAATCAGCACAT
1 AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
*
27075915 AGTAACCCCTTT
66 AGCAACCCCTTT
27075927 TTGATCAATG
Statistics
Matches: 234, Mismatches: 11, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
84 227 0.97
85 7 0.03
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (84 bp):
AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
AGCAACCCCTTTCACAATC
Found at i:27079311 original size:14 final size:14
Alignment explanation
Indices: 27079292--27079319 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27079282 CCAATTTATT
27079292 AATGAAATATTAAA
1 AATGAAATATTAAA
27079306 AATGAAATATTAAA
1 AATGAAATATTAAA
27079320 TTCAACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (14 bp):
AATGAAATATTAAA
Found at i:27087432 original size:21 final size:21
Alignment explanation
Indices: 27087390--27087453 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
27087380 TCCCTTTATC
* *
27087390 TTATTTTATTATACT-TTGTTG
1 TTATTTTATT-TATTATTCTTG
27087411 TT-TTATTATTTATTATTCTTG
1 TTATT-TTATTTATTATTCTTG
*
27087432 TTATTTTATTTTTTATTCTTG
1 TTATTTTATTTATTATTCTTG
27087453 T
1 T
27087454 GCTTAGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 5 0.14
21 30 0.81
22 2 0.05
ACGTcount: A:0.17, C:0.05, G:0.06, T:0.72
Consensus pattern (21 bp):
TTATTTTATTTATTATTCTTG
Found at i:27087438 original size:24 final size:25
Alignment explanation
Indices: 27087394--27087448 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
27087384 TTTATCTTAT
*
27087394 TTTATTATACTTTGTTGTTTTATTA
1 TTTATTATACTTTGTTATTTTATTA
* *
27087419 TTTATTATTC-TTGTTATTTTATTT
1 TTTATTATACTTTGTTATTTTATTA
27087443 TTTATT
1 TTTATT
27087449 CTTGTGCTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.18, C:0.04, G:0.05, T:0.73
Consensus pattern (25 bp):
TTTATTATACTTTGTTATTTTATTA
Found at i:27087445 original size:7 final size:8
Alignment explanation
Indices: 27087390--27087448 Score: 50
Period size: 7 Copynumber: 7.2 Consensus size: 8
27087380 TCCCTTTATC
27087390 TTATTTTA
1 TTATTTTA
*
27087398 TTATACTTTG
1 TTAT--TTTA
*
27087408 TTGTTTTA
1 TTATTTTA
27087416 TTA-TTTA
1 TTATTTTA
*
27087423 TTATTCTTG
1 TTATT-TTA
27087432 TTATTTTA
1 TTATTTTA
27087440 TT-TTTTA
1 TTATTTTA
27087447 TT
1 TT
27087449 CTTGTGCTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
7 14 0.34
8 14 0.34
9 7 0.17
10 6 0.15
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (8 bp):
TTATTTTA
Found at i:27088913 original size:14 final size:14
Alignment explanation
Indices: 27088896--27088930 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
27088886 ATAAAATATA
*
27088896 AATTTATATTTAAT
1 AATTCATATTTAAT
*
27088910 AATTCATTTTTAAT
1 AATTCATATTTAAT
27088924 AATTCAT
1 AATTCAT
27088931 TAATAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (14 bp):
AATTCATATTTAAT
Found at i:27088931 original size:14 final size:14
Alignment explanation
Indices: 27088904--27088931 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
27088894 TAAATTTATA
27088904 TTTAATAATTCATT
1 TTTAATAATTCATT
27088918 TTTAATAATTCATT
1 TTTAATAATTCATT
27088932 AATAAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTAATAATTCATT
Found at i:27089384 original size:19 final size:19
Alignment explanation
Indices: 27089362--27089399 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
27089352 TCAATCATCC
27089362 CTCATATCACCA-TCTCTCA
1 CTCAT-TCACCATTCTCTCA
*
27089381 CTCATTCATCATTCTCTCA
1 CTCATTCACCATTCTCTCA
27089400 ACTTTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATTCACCATTCTCTCA
Found at i:27095159 original size:66 final size:66
Alignment explanation
Indices: 27095053--27095183 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
27095043 CAAAAGGTTT
* *
27095053 TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
27095118 G
66 G
* *
27095119 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATCTAATTTGAACTCAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
27095184 CACATTTGCG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.33, C:0.11, G:0.21, T:0.36
Consensus pattern (66 bp):
TGGTAGTGTTGGCATTGGCATTAATAAAAATTTGAGCTTACTATGAATATAATTTGAACCCAAAT
G
Found at i:27095451 original size:16 final size:16
Alignment explanation
Indices: 27095424--27095457 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
27095414 ATTTTAGTAA
27095424 ATTATATAAGAATATTT
1 ATTATATAAGAAT-TTT
27095441 ATTAT-TAAGAATTTT
1 ATTATATAAGAATTTT
27095456 AT
1 AT
27095458 GAAATTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTATATAAGAATTTT
Found at i:27095486 original size:47 final size:47
Alignment explanation
Indices: 27095435--27095579 Score: 158
Period size: 47 Copynumber: 3.1 Consensus size: 47
27095425 TTATATAAGA
*
27095435 ATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
* **
27095482 ATATTTAATATTAATTA-TTT-T-AAATTATATA-AATTCATATAAGA--
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATT-AT-TAA-ATT
* * *
27095526 AAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATT
1 ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
27095573 ATATTTA
1 ATATTTA
27095580 ATTAAAATAT
Statistics
Matches: 78, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
43 3 0.04
44 24 0.31
45 8 0.10
46 8 0.10
47 32 0.41
48 3 0.04
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (47 bp):
ATATTTATTATTAAGAATTTTATGAAATTATATATAATTATTAAATT
Found at i:27095546 original size:44 final size:43
Alignment explanation
Indices: 27095421--27095547 Score: 123
Period size: 44 Copynumber: 2.8 Consensus size: 43
27095411 ATGATTTTAG
27095421 TAAATTATATAAGAATATTTATTATTAAGAATTTTATGAAATTATA
1 TAAATTATATAAGAATATTTATTATTAAGAA-TTT-T-AAATTATA
* * **
27095467 TATCATTAT-TAA-ATTATATTTAATATTAATTATTTTAAATTATA
1 TA-AATTATATAAGA--ATATTTATTATTAAGAATTTTAAATTATA
* *
27095511 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTA
1 TAAATT-ATATAAGAATATTTATTATTAAGAATTTTA
27095548 TGAAATTATA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
43 3 0.05
44 29 0.45
45 5 0.08
46 9 0.14
47 19 0.29
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.47
Consensus pattern (43 bp):
TAAATTATATAAGAATATTTATTATTAAGAATTTTAAATTATA
Found at i:27095571 original size:18 final size:18
Alignment explanation
Indices: 27095545--27095607 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
27095535 ATCAAGAATT
*
27095545 TTATGAAATTATATATTA
1 TTATTAAATTATATATTA
27095563 TTATTAAATTATAT-TTA
1 TTATTAAATTATATATTA
27095580 --ATTAAA--ATATATT-
1 TTATTAAATTATATATTA
*
27095593 TTAATTAAAATATAT
1 TT-ATTAAATTATAT
27095608 TTAATAATAA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 4 0.11
14 2 0.05
15 6 0.16
16 6 0.16
17 3 0.08
18 17 0.45
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
TTATTAAATTATATATTA
Found at i:27095585 original size:15 final size:15
Alignment explanation
Indices: 27095555--27095612 Score: 80
Period size: 16 Copynumber: 3.7 Consensus size: 15
27095545 TTATGAAATT
*
27095555 ATATATTATTATTAAA
1 ATATATT-TAATTAAA
*
27095571 TTATATTTAATTAAA
1 ATATATTTAATTAAA
27095586 ATATATTTTAATTAAA
1 ATATA-TTTAATTAAA
27095602 ATATATTTAAT
1 ATATATTTAAT
27095613 AATAATTATG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 17 0.45
16 21 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATATATTTAATTAAA
Found at i:27095599 original size:91 final size:90
Alignment explanation
Indices: 27095421--27095596 Score: 282
Period size: 91 Copynumber: 1.9 Consensus size: 90
27095411 ATGATTTTAG
* *
27095421 TAAATTATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 TAAATTATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
*
27095486 TTAATATTAATTATTTTAAATTATA
66 TTAATATAAATTATTTTAAATTATA
*
27095511 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATT-ATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
27095576 TTTAAT-TAAAATATATTTTAA
65 TTTAATAT-AAAT-TATTTTAA
27095597 TTAAAATATA
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
90 7 0.09
91 64 0.81
92 8 0.10
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (90 bp):
TAAATTATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
TTAATATAAATTATTTTAAATTATA
Found at i:27095799 original size:18 final size:17
Alignment explanation
Indices: 27095771--27095805 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27095761 ATTATTAAGA
*
27095771 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27095788 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27095806 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:27095803 original size:14 final size:15
Alignment explanation
Indices: 27095786--27095826 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
27095776 ATTAAATTAT
27095786 ATATTTTAATTAA-A
1 ATATTTTAATTAATA
27095800 ATATATTTAA-TAATA
1 ATAT-TTTAATTAATA
27095815 ATTATTTTAATT
1 A-TATTTTAATT
27095827 TATATTTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 7 0.30
15 12 0.52
16 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTTAATTAATA
Found at i:27095868 original size:120 final size:120
Alignment explanation
Indices: 27095733--27096782 Score: 2010
Period size: 120 Copynumber: 8.8 Consensus size: 120
27095723 TATTCTTGTC
*
27095733 ATTTTAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
1 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
*
27095798 AAATATATTTAATAATAATTATTTTAATTTATATTTTACAGTATCATATATTATG
66 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
*
27095853 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTA
1 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
27095918 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
66 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
* *
27095973 ATTTGAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTA
1 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
*
27096038 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTTTG
66 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
*
27096093 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTA
1 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
27096158 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
66 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
*
27096213 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTA
1 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
27096278 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
66 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
*
27096333 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTA
1 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
27096398 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
66 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
*
27096453 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTA
1 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
27096518 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
66 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
27096573 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
1 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
27096638 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
66 AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
27096693 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
1 ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
27096758 AAATATATTTAATAATAATTATGTT
66 AAATATATTTAATAATAATTATGTT
27096783 TAAATATGAT
Statistics
Matches: 914, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 914 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.48
Consensus pattern (120 bp):
ATTTCAGTAAATTAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTA
AAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATG
Found at i:27096639 original size:18 final size:17
Alignment explanation
Indices: 27096611--27096645 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27096601 ATTATTAAGA
*
27096611 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27096628 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27096646 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:27096759 original size:18 final size:17
Alignment explanation
Indices: 27096731--27096765 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27096721 ATTATTAAGA
*
27096731 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
27096748 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
27096766 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:27096995 original size:44 final size:45
Alignment explanation
Indices: 27096930--27097020 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
27096920 ACCTCTATTC
* * *
27096930 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
27096974 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
27097019 CA
1 CA
27097021 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:27097022 original size:16 final size:16
Alignment explanation
Indices: 27097001--27097069 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
27096991 GATTAGCTAT
27097001 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
27097017 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
27097034 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
27097050 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
27097066 TACA
1 TACA
27097070 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:27097043 original size:33 final size:32
Alignment explanation
Indices: 27097001--27097069 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
27096991 GATTAGCTAT
27097001 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
27097034 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
27097066 TACA
1 TACA
27097070 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:27101703 original size:12 final size:13
Alignment explanation
Indices: 27101686--27101714 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
27101676 CTCATACATG
27101686 AATAAATAAA-GC
1 AATAAATAAATGC
27101698 AATAAATAAATGC
1 AATAAATAAATGC
27101711 AATA
1 AATA
27101715 GTTATAACCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:27104359 original size:21 final size:23
Alignment explanation
Indices: 27104314--27104360 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
27104304 TCACCTGCAA
* *
27104314 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
27104337 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
27104358 TAA
1 TAA
27104361 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:27114525 original size:19 final size:19
Alignment explanation
Indices: 27114503--27114540 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
27114493 TCAATCATCC
27114503 CTCATCTCATCA-TCTCTCA
1 CTCAT-TCATCATTCTCTCA
27114522 CTCATTCATCATTCTCTCA
1 CTCATTCATCATTCTCTCA
27114541 AATTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.21, C:0.39, G:0.00, T:0.39
Consensus pattern (19 bp):
CTCATTCATCATTCTCTCA
Found at i:27117531 original size:40 final size:40
Alignment explanation
Indices: 27117436--27117639 Score: 248
Period size: 40 Copynumber: 5.1 Consensus size: 40
27117426 ATACTATTTG
* * * *
27117436 ATTCAGGGTTACCAAAGTACAAACA-GGGCATGTATGAGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
27117475 GTTCAGGTGTACCGAAGTACAAACAGGGGCATGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* *
27117515 ATTTAGGGGTATCGAAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
** *
27117555 ATTCAGGGGTATAGAAGTACAAAAAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * * * *
27117595 ATTCAAGGATACCGAATTACAAACAAGGGCACATATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
27117635 ATTCA
1 ATTCA
27117640 TACAAAAGTT
Statistics
Matches: 143, Mismatches: 21, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
39 21 0.15
40 122 0.85
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.22
Consensus pattern (40 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
Found at i:27117542 original size:20 final size:20
Alignment explanation
Indices: 27117519--27117583 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
27117509 ATGTGCATTT
27117519 AGGGGTATCGAAGTACAAAC
1 AGGGGTATCGAAGTACAAAC
* * * **
27117539 AGGGGCA-CGTATGTGCATTC
1 AGGGGTATCG-AAGTACAAAC
* *
27117559 AGGGGTATAGAAGTACAAAA
1 AGGGGTATCGAAGTACAAAC
27117579 AGGGG
1 AGGGG
27117584 CACGTATGTG
Statistics
Matches: 31, Mismatches: 12, Indels: 4
0.66 0.26 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.90
21 1 0.03
ACGTcount: A:0.35, C:0.12, G:0.35, T:0.17
Consensus pattern (20 bp):
AGGGGTATCGAAGTACAAAC
Found at i:27122187 original size:24 final size:25
Alignment explanation
Indices: 27122155--27122210 Score: 96
Period size: 24 Copynumber: 2.3 Consensus size: 25
27122145 TCATTAGGGT
*
27122155 TACCGATTTATAGCTCG-GAGAGCA
1 TACCGATTTATAACTCGTGAGAGCA
27122179 TACCGATTTATAACTCGTGAGAGCA
1 TACCGATTTATAACTCGTGAGAGCA
27122204 TACCGAT
1 TACCGAT
27122211 CTTCAGATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
TACCGATTTATAACTCGTGAGAGCA
Found at i:27127732 original size:29 final size:29
Alignment explanation
Indices: 27127690--27127810 Score: 116
Period size: 29 Copynumber: 4.1 Consensus size: 29
27127680 GTGTGCTAAC
*
27127690 CGATGGTTGTAACCATCCCTTTTAATATT
1 CGATGGTTGTAACCATCCCTTTTAATAAT
* * *
27127719 CGATGGTTGAAACCATCCATTTTCATTAAT
1 CGATGGTTGTAACCATCCCTTTT-AATAAT
* * * * *
27127749 CGATGGTCGTCACCATCTCTTTTTATAGT
1 CGATGGTTGTAACCATCCCTTTTAATAAT
* * * *
27127778 TGATGGTTGTCACCATCTCTTTTCATAAT
1 CGATGGTTGTAACCATCCCTTTTAATAAT
27127807 CGAT
1 CGAT
27127811 AGCCAAAGCT
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
29 52 0.70
30 22 0.30
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (29 bp):
CGATGGTTGTAACCATCCCTTTTAATAAT
Found at i:27127783 original size:59 final size:58
Alignment explanation
Indices: 27127690--27127810 Score: 147
Period size: 59 Copynumber: 2.1 Consensus size: 58
27127680 GTGTGCTAAC
*
27127690 CGATGGTTGTAACCATCCCTTTTAATATTCGATGGTTGAAACCATC-CATTTTCATTAAT
1 CGATGGTCGTAACCATCCCTTTTAATATTCGATGGTTGAAACCATCTC-TTTTCA-TAAT
* * * **
27127749 CGATGGTCGTCACCATCTCTTTTTATAGTT-GATGGTTGTCACCATCTCTTTTCATAAT
1 CGATGGTCGTAACCATCCCTTTTAATA-TTCGATGGTTGAAACCATCTCTTTTCATAAT
27127807 CGAT
1 CGAT
27127811 AGCCAAAGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
58 8 0.15
59 43 0.80
60 3 0.06
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.40
Consensus pattern (58 bp):
CGATGGTCGTAACCATCCCTTTTAATATTCGATGGTTGAAACCATCTCTTTTCATAAT
Found at i:27127824 original size:29 final size:29
Alignment explanation
Indices: 27127796--27127919 Score: 158
Period size: 29 Copynumber: 4.3 Consensus size: 29
27127786 GTCACCATCT
* * *
27127796 CTTTTCATAATCGATAGCCAAAGCTATCT
1 CTTTTCATATTCGATAGCCGAAGCTATCC
* *
27127825 CTTTTCACATTCGAAAGCCGAAGCTATCC
1 CTTTTCATATTCGATAGCCGAAGCTATCC
* * * *
27127854 TTTTTTATATTCAATAGCCGAAGTTATCC
1 CTTTTCATATTCGATAGCCGAAGCTATCC
*
27127883 CTTTTCATATTCGGTAGCCGAAGCTATCC
1 CTTTTCATATTCGATAGCCGAAGCTATCC
27127912 CTTTTCAT
1 CTTTTCAT
27127920 TATATGAGGT
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 79 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (29 bp):
CTTTTCATATTCGATAGCCGAAGCTATCC
Found at i:27138348 original size:22 final size:23
Alignment explanation
Indices: 27138304--27138348 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
27138294 TTCTAGTATG
27138304 TTTTAGGGTTGAAATAAGGGTTA
1 TTTTAGGGTTGAAATAAGGGTTA
*
27138327 TTTTAGTGTT-AAA-AATGGGTTA
1 TTTTAGGGTTGAAATAA-GGGTTA
27138349 AAATAAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 2 0.10
22 9 0.45
23 9 0.45
ACGTcount: A:0.31, C:0.00, G:0.27, T:0.42
Consensus pattern (23 bp):
TTTTAGGGTTGAAATAAGGGTTA
Found at i:27156622 original size:26 final size:27
Alignment explanation
Indices: 27156586--27156652 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
27156576 ACATATATTT
* *
27156586 TCACATGAGCTGTGAAAA-GAGTATGC
1 TCACACGAGCTGTGAAAATGAGCATGC
* * *
27156612 TCACACGAGCTATGAAAATGGGCCTGC
1 TCACACGAGCTGTGAAAATGAGCATGC
27156639 TCACACGAGCTGTG
1 TCACACGAGCTGTG
27156653 GGTCAAATTG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 16 0.47
27 18 0.53
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (27 bp):
TCACACGAGCTGTGAAAATGAGCATGC
Found at i:27163352 original size:26 final size:26
Alignment explanation
Indices: 27163323--27163415 Score: 107
Period size: 26 Copynumber: 3.6 Consensus size: 26
27163313 GTTGCCAAGA
* *
27163323 TGCCAGTAATAGTATAACAACAAAGC
1 TGCCAGTAACAGTATAACAGCAAAGC
**
27163349 TGCCAGTAACAGTATCGCAGCAAAGC
1 TGCCAGTAACAGTATAACAGCAAAGC
* * * *
27163375 TGCTAGTAACAATATCAGAGCAAAGC
1 TGCCAGTAACAGTATAACAGCAAAGC
27163401 -GCCAGTAACAGTATA
1 TGCCAGTAACAGTATA
27163416 CTTCCTCCAT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
25 12 0.21
26 44 0.79
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.18
Consensus pattern (26 bp):
TGCCAGTAACAGTATAACAGCAAAGC
Found at i:27171242 original size:26 final size:26
Alignment explanation
Indices: 27171207--27171284 Score: 120
Period size: 26 Copynumber: 3.0 Consensus size: 26
27171197 AACACACCAA
* *
27171207 TATCGCAGCAAAGCTGCCAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAACAG
* *
27171233 TATCATAGCAAAGCTACCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
27171259 TATCACAGCAAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAACAG
27171285 AATACTTCCT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.18
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAACAG
Found at i:27177931 original size:51 final size:50
Alignment explanation
Indices: 27177859--27178051 Score: 208
Period size: 51 Copynumber: 3.8 Consensus size: 50
27177849 TATCGATGAA
* ** * * *
27177859 CACGTGTGTAGTGCTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGA-AAATGTTGGT
* * * * *
27177910 CACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGTTTTGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGA-AAATGTTGGT
*
27177961 CACGTGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAA-GCTTTGGT
1 CACGTGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGAAAATG--TTGGT
* * *
27178012 CATGTGCGTAGTACTATGTGAAGGCTACTATGTGAACCGA
1 CACGTGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGA
27178052 CGTGTGTAGT
Statistics
Matches: 120, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
50 2 0.02
51 118 0.98
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGAAGGCTACTATGTGAACCGAAAATGTTGGT
Found at i:27178399 original size:37 final size:38
Alignment explanation
Indices: 27178330--27178402 Score: 96
Period size: 37 Copynumber: 1.9 Consensus size: 38
27178320 ATGTCTGCAA
**
27178330 TTGAATTGAATATCGACTTGAAAATGGCAAAGTGAATT
1 TTGAATTGAATATCGACTTGAAAATGAAAAAGTGAATT
*
27178368 TTGAATTGAATAGT-GA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATA-TCGACTTGAAAATGAAAAAGTGAA
27178403 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 16 0.52
38 14 0.45
39 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.23, T:0.30
Consensus pattern (38 bp):
TTGAATTGAATATCGACTTGAAAATGAAAAAGTGAATT
Found at i:27190363 original size:12 final size:12
Alignment explanation
Indices: 27190348--27190393 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
27190338 ATTTTATCCA
*
27190348 TCATCCCTCATC
1 TCATCTCTCATC
27190360 TCATCATCTC-TC
1 TCATC-TCTCATC
27190372 TCATCTCTCATCC
1 TCATCTCTCAT-C
27190385 TC-TCTCTCA
1 TCATCTCTCA
27190394 ACTCTCTTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
11 4 0.13
12 20 0.67
13 6 0.20
ACGTcount: A:0.15, C:0.46, G:0.00, T:0.39
Consensus pattern (12 bp):
TCATCTCTCATC
Found at i:27190376 original size:17 final size:16
Alignment explanation
Indices: 27190346--27190393 Score: 66
Period size: 15 Copynumber: 3.1 Consensus size: 16
27190336 TCATTTTATC
27190346 CATCATCC-CTCATCT
1 CATCATCCTCTCATCT
27190361 CATCATCTCTCTCATCT
1 CATCATC-CTCTCATCT
27190378 C-TCATCCTCTC-TCT
1 CATCATCCTCTCATCT
27190392 CA
1 CA
27190394 ACTCTCTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.13
15 12 0.40
16 6 0.20
17 8 0.27
ACGTcount: A:0.17, C:0.46, G:0.00, T:0.38
Consensus pattern (16 bp):
CATCATCCTCTCATCT
Found at i:27190382 original size:19 final size:19
Alignment explanation
Indices: 27190358--27190399 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
27190348 TCATCCCTCA
*
27190358 TCTCATCATCTCTCTCATC
1 TCTCATCATCTCTCTCAAC
*
27190377 TCTCATCCTCTCTCTCAAC
1 TCTCATCATCTCTCTCAAC
27190396 TCTC
1 TCTC
27190400 TTAGCTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.45, G:0.00, T:0.40
Consensus pattern (19 bp):
TCTCATCATCTCTCTCAAC
Found at i:27199191 original size:22 final size:23
Alignment explanation
Indices: 27199144--27199191 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
27199134 ATTTATTTAA
*
27199144 TTATTTTTTAGGTATTTAGGGAT
1 TTATTTTTTAGGTAATTAGGGAT
27199167 TTATTTCTTTA-GTAATTA-GGAT
1 TTATTT-TTTAGGTAATTAGGGAT
27199189 TTA
1 TTA
27199192 ATCTTTGCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 12 0.52
24 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.17, T:0.56
Consensus pattern (23 bp):
TTATTTTTTAGGTAATTAGGGAT
Found at i:27201373 original size:19 final size:19
Alignment explanation
Indices: 27201351--27201389 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
27201341 ATCCATCATC
*
27201351 CATCATCCCTCTCATCTCT
1 CATCATCCCTCTCAACTCT
* *
27201370 CATCCTCTCTCTCAACTCT
1 CATCATCCCTCTCAACTCT
27201389 C
1 C
27201390 TTAGCTCTCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.49, G:0.00, T:0.36
Consensus pattern (19 bp):
CATCATCCCTCTCAACTCT
Found at i:27204800 original size:23 final size:23
Alignment explanation
Indices: 27204774--27204819 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
27204764 TTAAAAAATT
27204774 TTAAGT-AAATAAAATATAATTAA
1 TTAAGTAAAATAAAA-ATAATTAA
*
27204797 TTAATTAAAATAAAAATAATTAA
1 TTAAGTAAAATAAAAATAATTAA
27204820 GAATTATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
TTAAGTAAAATAAAAATAATTAA
Found at i:27204816 original size:19 final size:19
Alignment explanation
Indices: 27204783--27204819 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27204773 TTTAAGTAAA
* *
27204783 TAAAATATAATTAATTAAT
1 TAAAATAAAAATAATTAAT
27204802 TAAAATAAAAATAATTAA
1 TAAAATAAAAATAATTAA
27204820 GAATTATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAATAAAAATAATTAAT
Found at i:27231733 original size:22 final size:21
Alignment explanation
Indices: 27231708--27231751 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
27231698 TGATAAACTT
27231708 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
27231730 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
27231751 T
1 T
27231752 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:27236731 original size:29 final size:29
Alignment explanation
Indices: 27236685--27236892 Score: 170
Period size: 29 Copynumber: 7.1 Consensus size: 29
27236675 TGTGCTAAAA
* *
27236685 GATGGTCGTAACTGTCCCTTTTCATATTC
1 GATGGTCGAAACTATCCCTTTTCATATTC
* * *
27236714 AATGGTCGAAACCATCCCTTTTCATTAATC
1 GATGGTCGAAACTATCCCTTTTCA-TATTC
** *
27236744 GATGGTCGTCACTATCCCTTTTCATAATC
1 GATGGTCGAAACTATCCCTTTTCATATTC
* *
27236773 GATAG-CCAAAGCTATCCCTTTTCATATTC
1 GATGGTCGAAA-CTATCCCTTTTCATATTC
**
27236802 GATGGTCGTCA-TCATCCCTTTTCATAGTT-
1 GATGGTCGAAACT-ATCCCTTTTCATA-TTC
* ** * *
27236831 GATGGTTGTCACAATCCCTTTTCATAATC
1 GATGGTCGAAACTATCCCTTTTCATATTC
* * * *
27236860 AATAGCCGAAGCTATCCCTTTTCATATTC
1 GATGGTCGAAACTATCCCTTTTCATATTC
27236889 GATG
1 GATG
27236893 ACCGCCGATA
Statistics
Matches: 140, Mismatches: 32, Indels: 14
0.75 0.17 0.08
Matches are distributed among these distances:
28 4 0.03
29 108 0.77
30 28 0.20
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (29 bp):
GATGGTCGAAACTATCCCTTTTCATATTC
Found at i:27236790 original size:59 final size:58
Alignment explanation
Indices: 27236685--27236827 Score: 173
Period size: 59 Copynumber: 2.4 Consensus size: 58
27236675 TGTGCTAAAA
* * * * *
27236685 GATGGTCGTAACTGTCCCTTTTCATATTCAATGGTCGAAACCATCCCTTTTCATTAATC
1 GATGGTCGTCACTATCCCTTTTCATAATCAATAGTCCAAACCATCCCTTTTCA-TAATC
* * *
27236744 GATGGTCGTCACTATCCCTTTTCATAATCGATAG-CCAAAGCTATCCCTTTTCATATTC
1 GATGGTCGTCACTATCCCTTTTCATAATCAATAGTCCAAA-CCATCCCTTTTCATAATC
27236802 GATGGTCGTCA-TCATCCCTTTTCATA
1 GATGGTCGTCACT-ATCCCTTTTCATA
27236828 GTTGATGGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
57 1 0.01
58 32 0.43
59 41 0.55
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (58 bp):
GATGGTCGTCACTATCCCTTTTCATAATCAATAGTCCAAACCATCCCTTTTCATAATC
Found at i:27236872 original size:87 final size:88
Alignment explanation
Indices: 27236699--27236892 Score: 291
Period size: 87 Copynumber: 2.2 Consensus size: 88
27236689 GTCGTAACTG
* *
27236699 TCCCTTTTCATATTCAATGGTCGAAACCATCCCTTTTCATTAATCGATGGTCGTCACTATCCCTT
1 TCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCGATGGTCGTCACAATCCCTT
*
27236764 TTCATAATCGATAGCCAAAGCTA
66 TTCATAATCAATAGCCAAAGCTA
** * * * *
27236787 TCCCTTTTCATATTCGATGGTCGTCATCATCCCTTTTCA-TAGTTGATGGTTGTCACAATCCCTT
1 TCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCGATGGTCGTCACAATCCCTT
*
27236851 TTCATAATCAATAGCCGAAGCTA
66 TTCATAATCAATAGCCAAAGCTA
27236874 TCCCTTTTCATATTCGATG
1 TCCCTTTTCATATTCGATG
27236893 ACCGCCGATA
Statistics
Matches: 96, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
87 61 0.64
88 35 0.36
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (88 bp):
TCCCTTTTCATATTCGATGGTCGAAACCATCCCTTTTCATTAATCGATGGTCGTCACAATCCCTT
TTCATAATCAATAGCCAAAGCTA
Found at i:27237677 original size:20 final size:20
Alignment explanation
Indices: 27237649--27237686 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
27237639 AACTATCATG
*
27237649 TTTTCTTTATTTTATTAACC
1 TTTTATTTATTTTATTAACC
27237669 TTTTATTTATTTTATTAA
1 TTTTATTTATTTTATTAA
27237687 TTAAATAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTATTTATTTTATTAACC
Found at i:27240365 original size:12 final size:12
Alignment explanation
Indices: 27240348--27240375 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
27240338 ACACACACCT
27240348 GTGTGCTAGGCC
1 GTGTGCTAGGCC
27240360 GTGTGCTAGGCC
1 GTGTGCTAGGCC
27240372 GTGT
1 GTGT
27240376 AACAGCCTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.43, T:0.29
Consensus pattern (12 bp):
GTGTGCTAGGCC
Found at i:27244986 original size:39 final size:41
Alignment explanation
Indices: 27244915--27245135 Score: 136
Period size: 40 Copynumber: 5.5 Consensus size: 41
27244905 CTCGTTCAAG
* * * *
27244915 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* *
27244954 TGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * * * *
27244994 TGCCTTCGGTACTTAACCCGGAAT-TAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * * *
27245034 GGCCTTCGGGACTTAACCCGAAATTA-A-TAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCG-GATTATAGAAACTCACACGAA
** ** *
27245074 TGCCTTC-GGATCTTAGTCCGGA-TATAGTCACTTAGCAC-AA
1 TGCCTTCGGGA-CTTAACCCGGATTATAGAAACTCA-CACGAA
* *
27245114 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
27245136 CAGCATTCAA
Statistics
Matches: 147, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
38 2 0.01
39 33 0.22
40 103 0.70
41 9 0.06
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
Found at i:27245008 original size:40 final size:39
Alignment explanation
Indices: 27244952--27245082 Score: 172
Period size: 40 Copynumber: 3.3 Consensus size: 39
27244942 TAACTCATAC
* *
27244952 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* * *
27244992 AATGCCTTCGGTACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
27245032 AAGGCCTTCGGGACTTAACCCGAAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
27245072 AATGCCTTCGG
1 AATGCCTTCGG
27245083 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:27245066 original size:80 final size:79
Alignment explanation
Indices: 27244950--27245133 Score: 214
Period size: 80 Copynumber: 2.3 Consensus size: 79
27244940 AGTAACTCAT
* ** *
27244950 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGG-TACTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCC-GAAATTAAAACTCGCACAAATGCCTTCGGAT-CTTAACCCG
*
27245014 GA-ATTAGT-A-TCTCGC
64 GATA-TAGTCACT-TAGC
**
27245029 ACAAAGGCCTTCGGGACTTAACCCGAAATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCCG
1 ACAAA-GCCTTCGGGACTTAACCCGAAATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCCG
27245094 GATATAGTCACTTAGC
64 GATATAGTCACTTAGC
*
27245110 ACAAAGCCTTCGGGACTTAGCCCG
1 ACAAAGCCTTCGGGACTTAACCCG
27245134 GACAGCATTC
Statistics
Matches: 91, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 10 0.11
80 69 0.76
81 11 0.12
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (79 bp):
ACAAAGCCTTCGGGACTTAACCCGAAATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTCACTTAGC
Found at i:27253908 original size:19 final size:19
Alignment explanation
Indices: 27253881--27253919 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
27253871 TTCTCACAAT
* *
27253881 TAACCAAATTACCCTTTTA
1 TAACAAAATTACCATTTTA
27253900 TAACAAAATTACCATTTTA
1 TAACAAAATTACCATTTTA
27253919 T
1 T
27253920 CCTATTTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (19 bp):
TAACAAAATTACCATTTTA
Found at i:27257988 original size:29 final size:30
Alignment explanation
Indices: 27257924--27257987 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
27257914 CCAAAAATTC
*
27257924 ATTTTAAAAATAAAAAAATACATAAATAAT
1 ATTTTAAAAATAAAAAAATACAAAAATAAT
*
27257954 ATTTTAAAATTAAAAAAATA-AAAAATAAAT
1 ATTTTAAAAATAAAAAAATACAAAAAT-AAT
27257984 ATTT
1 ATTT
27257988 ATTATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (30 bp):
ATTTTAAAAATAAAAAAATACAAAAATAAT
Found at i:27262990 original size:26 final size:26
Alignment explanation
Indices: 27262961--27263022 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
27262951 TACCTACAGT
*
27262961 AGTTTAATAATATCATAACATATATC
1 AGTTTAAGAATATCATAACATATATC
* * *
27262987 AGTTTCAGAATATCATAGCATGTATC
1 AGTTTAAGAATATCATAACATATATC
*
27263013 AGTTTCAGAA
1 AGTTTAAGAA
27263023 CACTTACAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.35
Consensus pattern (26 bp):
AGTTTAAGAATATCATAACATATATC
Found at i:27267784 original size:22 final size:21
Alignment explanation
Indices: 27267758--27267841 Score: 56
Period size: 22 Copynumber: 4.0 Consensus size: 21
27267748 AACATATGTC
27267758 ACATTACACATATAATCACATA
1 ACATTACACATAT-ATCACATA
27267780 ACATTTGA-ACATATATCAC---
1 ACA-TT-ACACATATATCACATA
*
27267799 A-A-TACTCATATAATCACATA
1 ACATTACACATAT-ATCACATA
27267819 ACATT-CAAGCATATATCACATA
1 ACATTAC-A-CATATATCACATA
27267841 A
1 A
27267842 TAATTGACAC
Statistics
Matches: 49, Mismatches: 2, Indels: 22
0.67 0.03 0.30
Matches are distributed among these distances:
15 1 0.02
16 6 0.12
17 5 0.10
18 1 0.02
19 1 0.02
20 1 0.02
21 2 0.04
22 18 0.37
23 13 0.27
24 1 0.02
ACGTcount: A:0.48, C:0.21, G:0.02, T:0.29
Consensus pattern (21 bp):
ACATTACACATATATCACATA
Found at i:27267791 original size:39 final size:39
Alignment explanation
Indices: 27267748--27267838 Score: 130
Period size: 39 Copynumber: 2.3 Consensus size: 39
27267738 TTCACTTATA
* *
27267748 AACATATGTCACATTACACATATAATCACATAACATTTG
1 AACATATATCACAATACACATATAATCACATAACATTTG
* *
27267787 AACATATATCACAATACTCATATAATCACATAACA-TTC
1 AACATATATCACAATACACATATAATCACATAACATTTG
27267825 AAGCATATATCACA
1 AA-CATATATCACA
27267839 TAATAATTGA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
38 4 0.09
39 43 0.91
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.29
Consensus pattern (39 bp):
AACATATATCACAATACACATATAATCACATAACATTTG
Found at i:27269864 original size:20 final size:18
Alignment explanation
Indices: 27269829--27269868 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
27269819 ACGTCGACTT
*
27269829 AATAAAATACTTTATATA
1 AATAAAATAATTTATATA
27269847 AATATAAATAATTATATATA
1 AATA-AAATAATT-TATATA
27269867 AA
1 AA
27269869 ACTTCCTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
AATAAAATAATTTATATA
Found at i:27270057 original size:16 final size:16
Alignment explanation
Indices: 27270040--27270104 Score: 103
Period size: 16 Copynumber: 4.1 Consensus size: 16
27270030 CATATGGTAT
* *
27270040 TGGATTAGAGGTGTAT
1 TGGAATAGAGGTGTAA
*
27270056 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
27270072 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
27270088 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
27270104 T
1 T
27270105 AGCAAATCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.37, T:0.31
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:27270188 original size:39 final size:43
Alignment explanation
Indices: 27270083--27270192 Score: 129
Period size: 45 Copynumber: 2.6 Consensus size: 43
27270073 GGAATAGAGG
27270083 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
27270128 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
27270168 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
27270193 TAATGGAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 1 0.02
44 11 0.19
45 23 0.40
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:27270359 original size:18 final size:17
Alignment explanation
Indices: 27270338--27270372 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27270328 TTATTATTAA
*
27270338 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
27270356 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
27270373 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:27273420 original size:15 final size:14
Alignment explanation
Indices: 27273378--27273425 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
27273368 TAATATTATA
*
27273378 AAAATATAAAAATC
1 AAAATATAAAAATT
27273392 AAATTATATTAAAAATT
1 AAA--ATA-TAAAAATT
27273409 AAAATATAAAAAATT
1 AAAATAT-AAAAATT
27273424 AA
1 AA
27273426 TTTTTAAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 4 0.14
15 12 0.41
16 3 0.10
17 10 0.34
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATATAAAAATT
Found at i:27276294 original size:17 final size:18
Alignment explanation
Indices: 27276272--27276305 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27276262 AGATTTAATC
27276272 TTATTA-TTAGAACAAAA
1 TTATTAGTTAGAACAAAA
*
27276289 TTATTAGTTAGTACAAA
1 TTATTAGTTAGAACAAA
27276306 TAGTTAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (18 bp):
TTATTAGTTAGAACAAAA
Found at i:27296338 original size:26 final size:26
Alignment explanation
Indices: 27296307--27296372 Score: 105
Period size: 26 Copynumber: 2.5 Consensus size: 26
27296297 ATTCCTACCT
*
27296307 ACAGCTCGTGTGAGCAGCCCCATTTC
1 ACAGCTCGTGTGAGCAGACCCATTTC
*
27296333 ACAGCTCGTGTGAGCAGACTCATTTC
1 ACAGCTCGTGTGAGCAGACCCATTTC
*
27296359 ACAGCTCGTCTGAG
1 ACAGCTCGTGTGAG
27296373 AAACAATGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.24
Consensus pattern (26 bp):
ACAGCTCGTGTGAGCAGACCCATTTC
Found at i:27298258 original size:20 final size:21
Alignment explanation
Indices: 27298208--27298249 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
27298198 CCTTTCAGAT
27298208 TTTC-TTA-TTTTCATTTGCA
1 TTTCATTACTTTTCATTTGCA
27298227 TTTCATTACTTTTCA-TTGCA
1 TTTCATTACTTTTCATTTGCA
27298247 TTT
1 TTT
27298250 ACTTTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 11 0.52
21 6 0.29
ACGTcount: A:0.17, C:0.17, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTCATTACTTTTCATTTGCA
Found at i:27321190 original size:13 final size:12
Alignment explanation
Indices: 27321167--27321202 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
27321157 GAGAAGCAAA
*
27321167 AAAAATTAAAAT
1 AAAAATGAAAAT
27321179 AAAAATAGAAAAT
1 AAAAAT-GAAAAT
27321192 AAAAATGAAAA
1 AAAAATGAAAA
27321203 AGCATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (12 bp):
AAAAATGAAAAT
Found at i:27321203 original size:13 final size:13
Alignment explanation
Indices: 27321174--27321202 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27321164 AAAAAAAATT
27321174 AAAATAAAAATAG
1 AAAATAAAAATAG
27321187 AAAATAAAAAT-G
1 AAAATAAAAATAG
27321199 AAAA
1 AAAA
27321203 AGCATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (13 bp):
AAAATAAAAATAG
Found at i:27323905 original size:28 final size:28
Alignment explanation
Indices: 27323872--27324017 Score: 123
Period size: 29 Copynumber: 5.1 Consensus size: 28
27323862 CAAAGTCTTG
*
27323872 CCACAAGGCATCCTTTTAACAGAGTTTA
1 CCACAAGGCATCCTTTTAACAGAGATTA
* * *
27323900 CCACAAGGCATTCATTTAACTGAGA-TA
1 CCACAAGGCATCCTTTTAACAGAGATTA
* * *
27323927 GCCACAAAGACATTCTTTTAACAGAGATGA
1 -CCAC-AAGGCATCCTTTTAACAGAGATTA
* * *
27323957 CCATAAAGGCTTCCTTTTAACAGAGATCA
1 CCA-CAAGGCATCCTTTTAACAGAGATTA
* * * *
27323986 CCATAAAGACTTCCTTTTAACAGAGATGA
1 CCA-CAAGGCATCCTTTTAACAGAGATTA
27324015 CCA
1 CCA
27324018 TAAAGACTTC
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.02
28 25 0.25
29 71 0.72
30 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (28 bp):
CCACAAGGCATCCTTTTAACAGAGATTA
Found at i:27323947 original size:29 final size:29
Alignment explanation
Indices: 27323914--27324080 Score: 137
Period size: 29 Copynumber: 5.8 Consensus size: 29
27323904 AAGGCATTCA
*
27323914 TTTAACTGAGATAGCCACAAAGACATT-CT
1 TTTAACAGAGATAGCCACAAAGAC-TTCCT
* *
27323943 TTTAACAGAGAT-GACCATAAAGGCTTCCT
1 TTTAACAGAGATAG-CCACAAAGACTTCCT
*
27323972 TTTAACAGAGATCA-CCATAAAGACTTCCT
1 TTTAACAGAGAT-AGCCACAAAGACTTCCT
*
27324001 TTTAACAGAGAT-GACCATAAAGACTTCCT
1 TTTAACAGAGATAG-CCACAAAGACTTCCT
* * * ** *
27324030 CTCAACAGAGCTCA-CCACAAAGGGTTTCT
1 TTTAACAGAGAT-AGCCACAAAGACTTCCT
* *
27324059 TTTCACACAGATAGCCACAAAG
1 TTTAACAGAGATAGCCACAAAG
27324081 GCTCACTTAT
Statistics
Matches: 113, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
28 4 0.04
29 109 0.96
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (29 bp):
TTTAACAGAGATAGCCACAAAGACTTCCT
Found at i:27323983 original size:58 final size:59
Alignment explanation
Indices: 27323871--27324051 Score: 187
Period size: 58 Copynumber: 3.2 Consensus size: 59
27323861 TCAAAGTCTT
* * * * * * *
27323871 GCCAC-AAGGCATCCTTTTAACAGAGTTTACCA-CAAGGCATT-CATTTAACTGAGAT-A
1 GCCACAAAGACATTCTTTTAACAGAGATGACCATAAAGGC-TTCCTTTTAACAGAGATCA
27323927 GCCACAAAGACATTCTTTTAACAGAGATGACCATAAAGGCTTCCTTTTAACAGAGATCA
1 GCCACAAAGACATTCTTTTAACAGAGATGACCATAAAGGCTTCCTTTTAACAGAGATCA
* * * * *
27323986 -CCATAAAGAC-TTCCTTTTAACAGAGATGACCATAAAGACTTCCTCTCAACAGAGCTCA
1 GCCACAAAGACATT-CTTTTAACAGAGATGACCATAAAGGCTTCCTTTTAACAGAGATCA
27324044 -CCACAAAG
1 GCCACAAAG
27324052 GGTTTCTTTT
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
56 5 0.05
57 27 0.25
58 74 0.69
59 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.24
Consensus pattern (59 bp):
GCCACAAAGACATTCTTTTAACAGAGATGACCATAAAGGCTTCCTTTTAACAGAGATCA
Found at i:27324061 original size:58 final size:58
Alignment explanation
Indices: 27323928--27324070 Score: 187
Period size: 58 Copynumber: 2.5 Consensus size: 58
27323918 ACTGAGATAG
* * * *
27323928 CCACAAAGACATTCTTTTAACAGAGATGACCATAAAGGCTTCCTTTTAACAGAGATCA
1 CCACAAAGACTTTCTTTTAACAGAGATGACCATAAAGACTTCCTCTCAACAGAGATCA
* * *
27323986 CCATAAAGACTTCCTTTTAACAGAGATGACCATAAAGACTTCCTCTCAACAGAGCTCA
1 CCACAAAGACTTTCTTTTAACAGAGATGACCATAAAGACTTCCTCTCAACAGAGATCA
** * *
27324044 CCACAAAGGGTTTCTTTTCACACAGAT
1 CCACAAAGACTTTCTTTTAACAGAGAT
27324071 AGCCACAAAG
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 72 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (58 bp):
CCACAAAGACTTTCTTTTAACAGAGATGACCATAAAGACTTCCTCTCAACAGAGATCA
Found at i:27327596 original size:50 final size:50
Alignment explanation
Indices: 27327489--27327604 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 50
27327479 ACGGACACAC
* * * *
27327489 CATAGCTCGTATGAGCTTACCGATTTGCAGCTCGTGAGAGCTTATCGATT
1 CATAGCTCGTATGAGCTTACCGATTTACAGCTCGAGAGAGCATACCGATT
* * * *
27327539 C-TCAGCTCATATGAGCTTACCGATTTATAGCTCGAGAGGGCATACCGGTT
1 CAT-AGCTCGTATGAGCTTACCGATTTACAGCTCGAGAGAGCATACCGATT
27327589 CATAGCTCGTATGAGC
1 CATAGCTCGTATGAGC
27327605 ATACATGTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 1 0.02
50 53 0.96
51 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (50 bp):
CATAGCTCGTATGAGCTTACCGATTTACAGCTCGAGAGAGCATACCGATT
Found at i:27327608 original size:25 final size:25
Alignment explanation
Indices: 27327489--27327604 Score: 96
Period size: 25 Copynumber: 4.6 Consensus size: 25
27327479 ACGGACACAC
27327489 CATAGCTCGTATGAGCTTACCGATT
1 CATAGCTCGTATGAGCTTACCGATT
*** *
27327514 TGCAGCTCGTGA-GAGCTTATCGATT
1 CATAGCTCGT-ATGAGCTTACCGATT
*
27327539 C-TCAGCTCATATGAGCTTACCGATT
1 CAT-AGCTCGTATGAGCTTACCGATT
* * *
27327564 TATAGCTCG-A-GAGGGCATACCGGTT
1 CATAGCTCGTATGA--GCTTACCGATT
27327589 CATAGCTCGTATGAGC
1 CATAGCTCGTATGAGC
27327605 ATACATGTAT
Statistics
Matches: 70, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
23 2 0.03
24 2 0.03
25 61 0.87
26 3 0.04
27 2 0.03
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (25 bp):
CATAGCTCGTATGAGCTTACCGATT
Found at i:27332737 original size:32 final size:32
Alignment explanation
Indices: 27332696--27332761 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
27332686 TCATTGTGAC
27332696 TATAGGTTCATTCGTATATTATGGGATAGGCA
1 TATAGGTTCATTCGTATATTATGGGATAGGCA
27332728 TATAGGTTCATTCGTATATTATGGGATAGGCA
1 TATAGGTTCATTCGTATATTATGGGATAGGCA
27332760 TA
1 TA
27332762 AATAATAATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (32 bp):
TATAGGTTCATTCGTATATTATGGGATAGGCA
Found at i:27334333 original size:161 final size:161
Alignment explanation
Indices: 27334068--27334357 Score: 562
Period size: 161 Copynumber: 1.8 Consensus size: 161
27334058 TTGATTTATT
*
27334068 AACATTGCTCAAAGAGCCAAAAATAGGTGAACGTGGCGGCACTGTCTAGCATGAAGATTGTCTTT
1 AACATTGCTCAAAGAGCCAAAAATAGGTGAACGTGGCGGCACTCTCTAGCATGAAGATTGTCTTT
27334133 GCTTTAAATTTGAAGCCAAAACAAAAACCATTTATGTCTAAATGAACTATATGTAATTAAGATTG
66 GCTTTAAATTTGAAGCCAAAACAAAAACCATTTATGTCTAAATGAACTATATGTAATTAAGATTG
27334198 TTTTTGTTTAATTGTTGAATACTAAATAAAA
131 TTTTTGTTTAATTGTTGAATACTAAATAAAA
*
27334229 AACATTGCTCAAAGAGCCAAGAATAGGTGAACGTGGCGGCACTCTCTAGCATGAAGATTGTCTTT
1 AACATTGCTCAAAGAGCCAAAAATAGGTGAACGTGGCGGCACTCTCTAGCATGAAGATTGTCTTT
27334294 GCTTTAAATTTGAAGCCAAAACAAAAACCATTTATGTCTAAATGAACTATATGTAATTAAGATT
66 GCTTTAAATTTGAAGCCAAAACAAAAACCATTTATGTCTAAATGAACTATATGTAATTAAGATT
27334358 CAATTCTAAG
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
161 127 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (161 bp):
AACATTGCTCAAAGAGCCAAAAATAGGTGAACGTGGCGGCACTCTCTAGCATGAAGATTGTCTTT
GCTTTAAATTTGAAGCCAAAACAAAAACCATTTATGTCTAAATGAACTATATGTAATTAAGATTG
TTTTTGTTTAATTGTTGAATACTAAATAAAA
Found at i:27340302 original size:16 final size:15
Alignment explanation
Indices: 27340271--27340311 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
27340261 TTGTTTATTA
27340271 AATTAATTTT-AATT
1 AATTAATTTTCAATT
27340285 AATTAATTTTCCAATT
1 AATTAATTTT-CAATT
*
27340301 AAATAATTTTC
1 AATTAATTTTC
27340312 TCAACCCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 10 0.42
15 1 0.04
16 13 0.54
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:27341838 original size:22 final size:23
Alignment explanation
Indices: 27341813--27341868 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
27341803 ACAGTTCCAA
27341813 TAGAGGTTTAGGCTTTAGG-GTT
1 TAGAGGTTTAGGCTTTAGGTGTT
** * *
27341835 TAGATTTTTAGGGTTTAGGTTTT
1 TAGAGGTTTAGGCTTTAGGTGTT
27341858 TA-AGGTTTAGG
1 TAGAGGTTTAGG
27341869 AATAGGTGAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
22 23 0.85
23 4 0.15
ACGTcount: A:0.20, C:0.02, G:0.32, T:0.46
Consensus pattern (23 bp):
TAGAGGTTTAGGCTTTAGGTGTT
Found at i:27341846 original size:15 final size:15
Alignment explanation
Indices: 27341826--27341867 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
27341816 AGGTTTAGGC
27341826 TTTAGGGTTTAGATT
1 TTTAGGGTTTAGATT
*
27341841 TTTAGGGTTTAGGTT
1 TTTAGGGTTTAGATT
*
27341856 TTTAAGGTTTAG
1 TTTAGGGTTTAG
27341868 GAATAGGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (15 bp):
TTTAGGGTTTAGATT
Found at i:27341868 original size:15 final size:15
Alignment explanation
Indices: 27341816--27341868 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
27341806 GTTCCAATAG
*
27341816 AGGTTTAGG-CTTTA
1 AGGTTTAGGTTTTTA
* *
27341830 GGGTTTAGATTTTTA
1 AGGTTTAGGTTTTTA
*
27341845 GGGTTTAGGTTTTTA
1 AGGTTTAGGTTTTTA
27341860 AGGTTTAGG
1 AGGTTTAGG
27341869 AATAGGTGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
14 7 0.21
15 26 0.79
ACGTcount: A:0.19, C:0.02, G:0.32, T:0.47
Consensus pattern (15 bp):
AGGTTTAGGTTTTTA
Found at i:27350335 original size:20 final size:22
Alignment explanation
Indices: 27350294--27350338 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
27350284 TTGGAAAAAT
*
27350294 AAATACAACTAAGATTAATAAA
1 AAATACAACTAAGATGAATAAA
27350316 AAATACAA-TAA-ATGAATAAA
1 AAATACAACTAAGATGAATAAA
27350336 AAA
1 AAA
27350339 ATGAAACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 3 0.14
22 8 0.36
ACGTcount: A:0.69, C:0.07, G:0.04, T:0.20
Consensus pattern (22 bp):
AAATACAACTAAGATGAATAAA
Found at i:27350339 original size:22 final size:21
Alignment explanation
Indices: 27350288--27350339 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 21
27350278 TTGCTATTGG
*
27350288 AAAAATAAATACAACTAAGATT
1 AAAAA-AAATACAACTAAGAAT
27350310 AATAAAAAATACAA-TAAATGAAT
1 AA-AAAAAATACAACT-AA-GAAT
27350333 AAAAAAA
1 AAAAAAA
27350340 TGAAACAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.04
22 17 0.65
23 8 0.31
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAAAAAATACAACTAAGAAT
Found at i:27352745 original size:20 final size:20
Alignment explanation
Indices: 27352720--27352765 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
27352710 ATATACATAA
27352720 ATTTCAACTTTGAACTTATC
1 ATTTCAACTTTGAACTTATC
27352740 ATTTCAACTTTGAACTTATC
1 ATTTCAACTTTGAACTTATC
27352760 ATTTCA
1 ATTTCA
27352766 TTACCTTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.04, T:0.46
Consensus pattern (20 bp):
ATTTCAACTTTGAACTTATC
Found at i:27354190 original size:30 final size:31
Alignment explanation
Indices: 27354121--27354197 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
27354111 GATCATCAGC
* *
27354121 TAATGAAAAGGGATAGCTTCGGCTATCAAAA
1 TAATGAAAAGGGATAGCCTCGACTATCAAAA
*
27354152 TAATGAAAAGGGATAGCCTCGACTATC-ACA
1 TAATGAAAAGGGATAGCCTCGACTATCAAAA
*
27354182 TTATGAAAAGGGATAG
1 TAATGAAAAGGGATAG
27354198 TGACAACCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 17 0.40
31 25 0.60
ACGTcount: A:0.42, C:0.13, G:0.23, T:0.22
Consensus pattern (31 bp):
TAATGAAAAGGGATAGCCTCGACTATCAAAA
Found at i:27354229 original size:29 final size:30
Alignment explanation
Indices: 27354184--27354256 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 30
27354174 CTATCACATT
27354184 ATGAAAAGGGATAGTGACAACCATC-AACA
1 ATGAAAAGGGATAGTGACAACCATCGAACA
* * *
27354213 ATGAAAAAGGATGGTGACGACCATCGAACA
1 ATGAAAAGGGATAGTGACAACCATCGAACA
27354243 ATGAAAAGGGATAG
1 ATGAAAAGGGATAG
27354257 CTTTAGCTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
29 22 0.58
30 16 0.42
ACGTcount: A:0.47, C:0.14, G:0.26, T:0.14
Consensus pattern (30 bp):
ATGAAAAGGGATAGTGACAACCATCGAACA
Found at i:27354329 original size:30 final size:30
Alignment explanation
Indices: 27354121--27354357 Score: 153
Period size: 30 Copynumber: 7.9 Consensus size: 30
27354111 GATCATCAGC
*
27354121 TAATGAAAAGGGATAGCTTCGGCTATCAAAA
1 TAATGAAAAGGGATAGCTTCGACTATC-AAA
* *
27354152 TAATGAAAAGGGATAGCCTCGACTATCACA
1 TAATGAAAAGGGATAGCTTCGACTATCAAA
* * * *
27354182 TTATGAAAAGGGATAG-TGACAACCATC-AA
1 TAATGAAAAGGGATAGCT-TCGACTATCAAA
* * * * * *
27354211 CAATGAAAAAGGAT-GGTGACGACCATCGAA
1 TAATGAAAAGGGATAGCT-TCGACTATCAAA
* * *
27354241 CAATGAAAAGGGATAGCTT-TAGCTACCAAA
1 TAATGAAAAGGGATAGCTTCGA-CTATCAAA
* * * * *
27354271 TTATGAAAAAGGAT-GGTGACGACCATCAAA
1 TAATGAAAAGGGATAGCT-TCGACTATCAAA
* *
27354301 TAATGAAAAGGGATAGCTTCGGCTATCAAGC
1 TAATGAAAAGGGATAGCTTCGACTATCAA-A
* *
27354332 TGA-GAAAAGGGATGGCTTCGACTATC
1 TAATGAAAAGGGATAGCTTCGACTATC
27354358 GAGCTATGAA
Statistics
Matches: 159, Mismatches: 38, Indels: 19
0.74 0.18 0.09
Matches are distributed among these distances:
28 1 0.01
29 25 0.16
30 101 0.64
31 32 0.20
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.20
Consensus pattern (30 bp):
TAATGAAAAGGGATAGCTTCGACTATCAAA
Found at i:27354345 original size:60 final size:60
Alignment explanation
Indices: 27354121--27354346 Score: 199
Period size: 60 Copynumber: 3.8 Consensus size: 60
27354111 GATCATCAGC
* * * *** * *
27354121 TAATGAAAAGGGATAGCTTCGGCTATCAAAATAATGAAAAGGGATAGCCTCGACTATCACA
1 TAATGAAAAGGGATAGCTTCAGCTATC-AAATGATGAAAAGGGATGGTGACGACCATCAAA
* * * * * *
27354182 TTATGAAAAGGGATAG-TGACAACCATCAACA--ATGAAAAAGGATGGTGACGACCATCGAA
1 TAATGAAAAGGGATAGCT-TCAGCTATCAA-ATGATGAAAAGGGATGGTGACGACCATCAAA
* * * * *
27354241 CAATGAAAAGGGATAGCTTTAGCTACCAAATTATGAAAAAGGATGGTGACGACCATCAAA
1 TAATGAAAAGGGATAGCTTCAGCTATCAAATGATGAAAAGGGATGGTGACGACCATCAAA
* *
27354301 TAATGAAAAGGGATAGCTTCGGCTATCAAGCTGA-GAAAAGGGATGG
1 TAATGAAAAGGGATAGCTTCAGCTATCAA-ATGATGAAAAGGGATGG
27354347 CTTCGACTAT
Statistics
Matches: 131, Mismatches: 28, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
58 1 0.01
59 40 0.31
60 67 0.51
61 23 0.18
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (60 bp):
TAATGAAAAGGGATAGCTTCAGCTATCAAATGATGAAAAGGGATGGTGACGACCATCAAA
Found at i:27354366 original size:90 final size:87
Alignment explanation
Indices: 27354121--27354372 Score: 224
Period size: 90 Copynumber: 2.8 Consensus size: 87
27354111 GATCATCAGC
* *
27354121 TAATGAAAAGGGATAGCTTCGGCTATCAAAATAATGAAAAGGGATAGCCTCGACTATCACATTAT
1 TAATGAAAAGGGATAGCTTCGGCTATC-AACTAATGAAAAGGGATAGCTTCGACTATCAC--TAT
*
27354186 GAAAAGGGATAGTGACAACCATCAA
63 GAAAAAGGATAGTGACAACCATCAA
* * * * * * * * *
27354211 CAATGAAAAAGGAT-GGTGACGACCATCGAAC-AATGAAAAGGGATAGCTT-TAGCTACCAAATT
1 TAATGAAAAGGGATAGCT-TCGGCTATC-AACTAATGAAAAGGGATAGCTTCGA-CTATC--ACT
* *
27354273 ATGAAAAAGGATGGTGACGACCATCAAA
61 ATGAAAAAGGATAGTGACAACCATC-AA
* *
27354301 TAATGAAAAGGGATAGCTTCGGCTATCAAGCTGA-GAAAAGGGATGGCTTCGACTATCGAGCTAT
1 TAATGAAAAGGGATAGCTTCGGCTATCAA-CTAATGAAAAGGGATAGCTTCGACTATC-A-CTAT
27354365 GAAAAAGG
63 GAAAAAGG
27354373 GTTGGAATAA
Statistics
Matches: 125, Mismatches: 27, Indels: 20
0.73 0.16 0.12
Matches are distributed among these distances:
88 1 0.01
89 49 0.39
90 70 0.56
91 5 0.04
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (87 bp):
TAATGAAAAGGGATAGCTTCGGCTATCAACTAATGAAAAGGGATAGCTTCGACTATCACTATGAA
AAAGGATAGTGACAACCATCAA
Found at i:27354369 original size:30 final size:31
Alignment explanation
Indices: 27354303--27354369 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
27354293 CCATCAAATA
*
27354303 ATGAAAAGGGATAGCTTCGGCTATCAAGCTG
1 ATGAAAAGGGATAGCTTCGACTATCAAGCTG
* *
27354334 A-GAAAAGGGATGGCTTCGACTATCGAGCT-
1 ATGAAAAGGGATAGCTTCGACTATCAAGCTG
27354363 ATGAAAA
1 ATGAAAA
27354370 AGGGTTGGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 1 0.03
30 30 0.94
31 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (31 bp):
ATGAAAAGGGATAGCTTCGACTATCAAGCTG
Found at i:27358147 original size:137 final size:138
Alignment explanation
Indices: 27357949--27358241 Score: 392
Period size: 137 Copynumber: 2.1 Consensus size: 138
27357939 TGAGGAGTAG
* *
27357949 CATCGTGTAGCTTACATTTCGACCGATAGCTTGAGTGAGTAGACCCAGGTTACCATATTTCGGGT
1 CATCGTGTAGCTTACATTTCGACCGATAGCCTGAGTGAGAAGACCCAGGTTACCATATTTCGGGT
* * * * * * *
27358014 G-CTGTTCCTGAATGTCCTACCGATGGCTGAGG-CTGGCATTAGTTGCGGACACTCGATATCTTG
66 GCCAG-TCCTCAATGTCCTACCGATGGCTGAGGTCTGCCATTAGTTACGAACACTCAATAGCTTG
27358077 TGTGAACAA
130 TGTGAACAA
* * ** *
27358086 TATTGTGTAGCTTACATTTCGACCGATAGCCTGTTTGAGAAGACCCAGGTTACCATGTTTCGGGT
1 CATCGTGTAGCTTACATTTCGACCGATAGCCTGAGTGAGAAGACCCAGGTTACCATATTTCGGGT
* * *
27358151 GCCAGTCTTCAATGTCCTACCGATGGCTGAGGTTTGCCATTAGTTACGAATACTCAATAGCTTGT
66 GCCAGTCCTCAATGTCCTACCGATGGCTGAGGTCTGCCATTAGTTACGAACACTCAATAGCTTGT
* *
27358216 GTGAGCAG
131 GTGAACAA
27358224 CATCGTGTAGCTTACATT
1 CATCGTGTAGCTTACATT
27358242 CTAACCGTTA
Statistics
Matches: 133, Mismatches: 21, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
137 84 0.63
138 49 0.37
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.31
Consensus pattern (138 bp):
CATCGTGTAGCTTACATTTCGACCGATAGCCTGAGTGAGAAGACCCAGGTTACCATATTTCGGGT
GCCAGTCCTCAATGTCCTACCGATGGCTGAGGTCTGCCATTAGTTACGAACACTCAATAGCTTGT
GTGAACAA
Found at i:27364720 original size:138 final size:138
Alignment explanation
Indices: 27364467--27364866 Score: 477
Period size: 138 Copynumber: 2.9 Consensus size: 138
27364457 GTCATTAGGT
* * * * *
27364467 TTACCATGTTTCGGGTG-TTGTTCTTGAATGTCCTATTGGTGGCTGAGTTCCGATCATTAGTTG-
1 TTACCATGTTTCGGGTGCTAG-TCTTGAATGTCCTACTGATGGCTGAGGTCTGAT-ATTAGTTGC
* *** * * *
27364530 CATATACTCGACAGCTTGTGTGAGCAACATCGTGTAGCTTACATTCCAACCAATAGCTTGTGTGA
64 CA-ATACTCGATAGCTTGTGTGAGCAACATCGTGTAGCTTACATTTTGACCAACAACTTGTATGA
27364595 GCAAACCCAAGG
128 GCAAA-CCAAGG
* *
27364607 -TACCATGTTTCGGGTGCTAGTCTTGAATGTCCTACTGATGGCTGAGGTCTGGTATTAGTTGCCG
1 TTACCATGTTTCGGGTGCTAGTCTTGAATGTCCTACTGATGGCTGAGGTCTGATATTAGTTGCCA
* *
27364671 ATATTCGATAGCTTGTGTGAGCAACATCGTGTAGCTTATATTTTGACCAACAACTTGTATGAGCA
66 ATACTCGATAGCTTGTGTGAGCAACATCGTGTAGCTTACATTTTGACCAACAACTTGTATGAGCA
* **
27364736 GACTTAGG
131 AACCAAGG
* * * * * *
27364744 TTACCATGTTTTGGGTGCTGGTCTTGAATGTCCTACCGATGGTTGAGGT-TCGACATTATTTG-C
1 TTACCATGTTTCGGGTGCTAGTCTTGAATGTCCTACTGATGGCTGAGGTCT-GATATTAGTTGCC
*
27364807 AACTACTCGATAGCTTGTGTGAGCAACATCGTGTAGCTTACATTTTGACCAACAAATTGT
65 AA-TACTCGATAGCTTGTGTGAGCAACATCGTGTAGCTTACATTTTGACCAACAACTTGT
27364867 GTGAAAAGGC
Statistics
Matches: 225, Mismatches: 30, Indels: 12
0.84 0.11 0.04
Matches are distributed among these distances:
137 7 0.03
138 171 0.76
139 45 0.20
140 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (138 bp):
TTACCATGTTTCGGGTGCTAGTCTTGAATGTCCTACTGATGGCTGAGGTCTGATATTAGTTGCCA
ATACTCGATAGCTTGTGTGAGCAACATCGTGTAGCTTACATTTTGACCAACAACTTGTATGAGCA
AACCAAGG
Found at i:27372911 original size:22 final size:20
Alignment explanation
Indices: 27372886--27372936 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 20
27372876 TTAGAAATTA
27372886 TAAAAAATATTAAAAATATTTT
1 TAAAAAATA-T-AAAATATTTT
*
27372908 TAAAAGACTATAAAATATTTT
1 TAAAA-AATATAAAATATTTT
*
27372929 TAGAAAAT
1 TAAAAAAT
27372937 TATGTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
20 2 0.08
21 14 0.56
22 6 0.24
23 3 0.12
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (20 bp):
TAAAAAATATAAAATATTTT
Found at i:27373486 original size:5 final size:5
Alignment explanation
Indices: 27373476--27373503 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
27373466 TACATACGTA
27373476 CAAAT CAAAT CAAAT CAAAT CAAAT CAA
1 CAAAT CAAAT CAAAT CAAAT CAAAT CAA
27373504 TAAATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.21, G:0.00, T:0.18
Consensus pattern (5 bp):
CAAAT
Found at i:27375791 original size:11 final size:11
Alignment explanation
Indices: 27375771--27375802 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
27375761 ACGATAAATT
27375771 AATAATAAAGTA
1 AATAA-AAAGTA
27375783 AATAAAAAGTA
1 AATAAAAAGTA
27375794 AATAAAAAG
1 AATAAAAAG
27375803 ATTTTCTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.75
12 5 0.25
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (11 bp):
AATAAAAAGTA
Found at i:27385805 original size:12 final size:12
Alignment explanation
Indices: 27385772--27385809 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
27385762 GTGGCTATGC
27385772 AAAGGG-ATAGGA
1 AAAGGGAAT-GGA
27385784 AAAGGAGAATGGA
1 AAAGG-GAATGGA
27385797 AAAGGGAATGGA
1 AAAGGGAATGGA
27385809 A
1 A
27385810 GATGAGAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 13 0.54
13 9 0.38
14 2 0.08
ACGTcount: A:0.53, C:0.00, G:0.39, T:0.08
Consensus pattern (12 bp):
AAAGGGAATGGA
Found at i:27388901 original size:11 final size:11
Alignment explanation
Indices: 27388885--27388909 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
27388875 ACCCTTTAAT
27388885 CTTGTAGGAAA
1 CTTGTAGGAAA
27388896 CTTGTAGGAAA
1 CTTGTAGGAAA
27388907 CTT
1 CTT
27388910 ATGGTGGTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (11 bp):
CTTGTAGGAAA
Found at i:27391668 original size:7 final size:7
Alignment explanation
Indices: 27391656--27391681 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
27391646 AATTGAAGGT
27391656 AATTCTC
1 AATTCTC
27391663 AATTCTC
1 AATTCTC
27391670 AATTCTC
1 AATTCTC
27391677 AATTC
1 AATTC
27391682 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.27, G:0.00, T:0.42
Consensus pattern (7 bp):
AATTCTC
Found at i:27400020 original size:27 final size:27
Alignment explanation
Indices: 27400003--27400209 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
27399993 ATATTAAGTC
27400003 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
27400030 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
27400058 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
27400085 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
27400113 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
27400140 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
27400168 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
27400195 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
27400210 GCACAATTTA
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
27 92 0.54
28 79 0.46
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:27400087 original size:55 final size:55
Alignment explanation
Indices: 27400003--27400209 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
27399993 ATATTAAGTC
* * * *
27400003 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
27400058 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
27400113 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
27400168 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
27400210 GCACAATTTA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:27408100 original size:27 final size:27
Alignment explanation
Indices: 27408083--27408289 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
27408073 ATATTAAGTC
27408083 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
27408110 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
27408138 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
27408165 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
27408193 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
27408220 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
27408248 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
27408275 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
27408290 GCACAATTTA
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
27 92 0.54
28 79 0.46
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Done.