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 31 of 153
Found at i:10945711 original size:14 final size:14
Alignment explanation
Indices: 10945667--10945703 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
10945657 TTAAAATACT
*
10945667 TAATAATCATAAAA
1 TAATAATAATAAAA
*
10945681 AAATAATAATAAAA
1 TAATAATAATAAAA
10945695 TAATAATAA
1 TAATAATAA
10945704 AATAATAAGA
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:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (14 bp):
TAATAATAATAAAA
Found at i:10947920 original size:17 final size:16
Alignment explanation
Indices: 10947898--10947958 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
10947888 ATAATGATTC
*
10947898 TTTAATTTTATATATTT
1 TTTAATTTT-TATAATT
10947915 TTTAATTTTTATAATT
1 TTTAATTTTTATAATT
* * *
10947931 TATAATTTATACTTATT
1 TTTAATTTTTA-TAATT
*
10947948 TTTATTTTTTA
1 TTTAATTTTTA
10947959 ATGATTATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
16 15 0.42
17 21 0.58
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTAATTTTTATAATT
Found at i:10947936 original size:16 final size:17
Alignment explanation
Indices: 10947900--10947938 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
10947890 AATGATTCTT
* *
10947900 TAATTTTATATATTTTT
1 TAATTTTATATAATTTA
10947917 TAATTTT-TATAATTTA
1 TAATTTTATATAATTTA
10947933 TAATTT
1 TAATTT
10947939 ATACTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TAATTTTATATAATTTA
Found at i:10949514 original size:49 final size:49
Alignment explanation
Indices: 10949420--10949512 Score: 152
Period size: 49 Copynumber: 1.9 Consensus size: 49
10949410 TTGATTTTAT
10949420 AAATAAAATATTTATTAATTAAAAATATGAATTAAAAATAAAAAATTGA
1 AAATAAAATATTTATTAATTAAAAATATGAATTAAAAATAAAAAATTGA
* * *
10949469 AAATAATATATTTATTAATTAAAAA-ATTAATTAAGAATAAAAAA
1 AAATAAAATATTTATTAATTAAAAATATGAATTAAAAATAAAAAA
10949513 ATGTTTGAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
48 17 0.41
49 24 0.59
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (49 bp):
AAATAAAATATTTATTAATTAAAAATATGAATTAAAAATAAAAAATTGA
Found at i:10951848 original size:23 final size:23
Alignment explanation
Indices: 10951822--10951903 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 23
10951812 CACAACCTAT
*
10951822 CGGGACGCTCCGAAGAGCTATAA
1 CGGGATGCTCCGAAGAGCTATAA
* *
10951845 CGGGAAGCT-CGCAAGAACCATATAA
1 CGGGATGCTCCG-AAG-AGC-TATAA
*
10951870 CGGGATGCTCATG-AGAGCTAATAA
1 CGGGATGCTC-CGAAGAGCT-ATAA
10951894 CGGGATGCTC
1 CGGGATGCTC
10951904 TTTCAAGCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
22 2 0.04
23 12 0.25
24 18 0.38
25 15 0.31
27 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.29, T:0.16
Consensus pattern (23 bp):
CGGGATGCTCCGAAGAGCTATAA
Found at i:10957952 original size:56 final size:50
Alignment explanation
Indices: 10957884--10958076 Score: 226
Period size: 50 Copynumber: 3.7 Consensus size: 50
10957874 AGGAATGAGA
* *
10957884 TCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCATTAAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C----CGA-TATGAGAGG
* * *
10957940 TCCCATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGG
* **
10957990 TCCTC-TGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGG
* *
10958040 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
10958077 GTACAGAAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 1 0.01
50 82 0.68
51 3 0.02
55 1 0.01
56 34 0.28
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATATGAGAGG
Found at i:10958047 original size:100 final size:103
Alignment explanation
Indices: 10957889--10958076 Score: 265
Period size: 100 Copynumber: 1.8 Consensus size: 103
10957879 TGAGATCCCA
* **
10957889 TGTAAGACCATGTCTAGGACATGGCATTGGCATCATTAAGATTATGAGAGGTCCCATGTAAGACC
1 TGTAAGACCATGTCTAGGACATGGCATGGGCATC---AAGATTATGAGAACTCCCATGTAAGACC
* *
10957954 ATGTCTGGGATATGGCGTTGGCACCGAGATGAGAGGTCCTC
63 ATATCTGGGATATGGCATTGGCACCGAGATGAGAGGTCCTC
* *
10957995 TGTAAGACCATGTCTGGGACATGGCATGGGCA-C-CGA-TATGAGAACTCCCATGTAAGACCATA
1 TGTAAGACCATGTCTAGGACATGGCATGGGCATCAAGATTATGAGAACTCCCATGTAAGACCATA
10958057 TCTGGGATATGGCATTGGCA
66 TCTGGGATATGGCATTGGCA
10958077 GTACAGAAAA
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
100 42 0.56
101 2 0.03
105 1 0.01
106 30 0.40
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (103 bp):
TGTAAGACCATGTCTAGGACATGGCATGGGCATCAAGATTATGAGAACTCCCATGTAAGACCATA
TCTGGGATATGGCATTGGCACCGAGATGAGAGGTCCTC
Found at i:10958342 original size:12 final size:12
Alignment explanation
Indices: 10958325--10958363 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
10958315 ATGAGTTATT
10958325 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
10958337 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
10958349 TAAGTGAGTAAG
1 TAAGTAAGCAAG
10958361 TAA
1 TAA
10958364 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:10959359 original size:20 final size:19
Alignment explanation
Indices: 10959322--10959360 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
10959312 AATTTTAAAA
*
10959322 TATTTTTAAAATACTTTTT
1 TATTTTTAAAATAATTTTT
10959341 TATTTTTAAAATAAATTTTT
1 TATTTTTAAAAT-AATTTTT
10959361 GGTGTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTTTTAAAATAATTTTT
Found at i:10960768 original size:31 final size:31
Alignment explanation
Indices: 10960730--10960792 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
10960720 TTATTCGGGA
**
10960730 TACGCAATGTCACTGTTAAGGAAGAAGTTAT
1 TACGCAATGTCACCATTAAGGAAGAAGTTAT
10960761 TACGCAATGTCACCATTAAGGAAGAAGTTAT
1 TACGCAATGTCACCATTAAGGAAGAAGTTAT
10960792 T
1 T
10960793 CACGAGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (31 bp):
TACGCAATGTCACCATTAAGGAAGAAGTTAT
Found at i:10963364 original size:22 final size:18
Alignment explanation
Indices: 10963341--10963379 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
10963331 AGAAATAGAG
10963341 AAAGAAACAGAGAAGCAA
1 AAAGAAACAGAGAAGCAA
10963359 AAAGAAACAGAGAAGCAA
1 AAAGAAACAGAGAAGCAA
10963377 AAA
1 AAA
10963380 CAAAGCAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.69, C:0.10, G:0.21, T:0.00
Consensus pattern (18 bp):
AAAGAAACAGAGAAGCAA
Found at i:10964325 original size:41 final size:39
Alignment explanation
Indices: 10964268--10964403 Score: 125
Period size: 40 Copynumber: 3.5 Consensus size: 39
10964258 TGACTTCGAG
10964268 TCGATGAGACACTGGGTGTCAATTTATTACTTCGGATATAT
1 TCGATGAGACACTGGGTGTCAA-TTATTACTTCGGAT-TAT
* * * *
10964309 TCGATGAGGCACTGGGTGCCAA-T-TCACTTCGGTTTA-
1 TCGATGAGACACTGGGTGTCAATTATTACTTCGGATTAT
* * *
10964345 GCTGATGAGACACTAGGTGTCAAATTATTACTTCGAATTAT
1 TC-GATGAGACACTGGGTGTC-AATTATTACTTCGGATTAT
* * *
10964386 CCGATGGGGCACTGGGTG
1 TCGATGAGACACTGGGTG
10964404 CCAAACTGGT
Statistics
Matches: 75, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
36 1 0.01
37 17 0.23
38 11 0.15
39 2 0.03
40 23 0.31
41 21 0.28
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAATTATTACTTCGGATTAT
Found at i:10971398 original size:13 final size:13
Alignment explanation
Indices: 10971380--10971428 Score: 53
Period size: 13 Copynumber: 3.4 Consensus size: 13
10971370 CATTCTCATT
10971380 CCCTTTCCCCTAC
1 CCCTTTCCCCTAC
10971393 CCCTTTCCCCTTATCC
1 CCCTTTCCCC-TA--C
10971409 TTCCCTTTCCCCTAC
1 --CCCTTTCCCCTAC
10971424 CCCTT
1 CCCTT
10971429 CCCTTTCCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 15 0.48
14 2 0.06
15 1 0.03
16 1 0.03
17 2 0.06
18 10 0.32
ACGTcount: A:0.06, C:0.57, G:0.00, T:0.37
Consensus pattern (13 bp):
CCCTTTCCCCTAC
Found at i:10971416 original size:18 final size:18
Alignment explanation
Indices: 10971393--10971436 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
10971383 TTTCCCCTAC
*
10971393 CCCTTTCCCCTTA-TCCTT
1 CCCTTTCCCC-TACCCCTT
10971411 CCCTTTCCCCTACCCCTT
1 CCCTTTCCCCTACCCCTT
10971429 CCCTTTCC
1 CCCTTTCC
10971437 TGTTTCGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 2 0.08
18 22 0.92
ACGTcount: A:0.05, C:0.57, G:0.00, T:0.39
Consensus pattern (18 bp):
CCCTTTCCCCTACCCCTT
Found at i:10971419 original size:37 final size:36
Alignment explanation
Indices: 10971353--10971436 Score: 87
Period size: 37 Copynumber: 2.3 Consensus size: 36
10971343 ACCCATTCTT
* * * * *
10971353 CTCCCCTTTCTCCTTCTCATTCTCATTCCCTTTCCC
1 CTCCCCTTTCCCCTTATCATTCCCATTCCCCTACCC
* *
10971389 CTACCCCTTTCCCCTTATCCTTCCCTTTCCCCTACCC
1 CT-CCCCTTTCCCCTTATCATTCCCATTCCCCTACCC
*
10971426 CTTCCCTTTCC
1 CTCCCCTTTCC
10971437 TGTTTCGAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
36 10 0.26
37 29 0.74
ACGTcount: A:0.06, C:0.54, G:0.00, T:0.40
Consensus pattern (36 bp):
CTCCCCTTTCCCCTTATCATTCCCATTCCCCTACCC
Found at i:10972771 original size:30 final size:30
Alignment explanation
Indices: 10972735--10972792 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10972725 GCATTTGTAC
* *
10972735 AAGACCATAAGTTCCAATTTACTATGACAT
1 AAGACCATAAGTACCAACTTACTATGACAT
*
10972765 AAGACCATAAGTACCAACTTGCTATGAC
1 AAGACCATAAGTACCAACTTACTATGAC
10972793 TGGAATGGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (30 bp):
AAGACCATAAGTACCAACTTACTATGACAT
Found at i:10973565 original size:31 final size:31
Alignment explanation
Indices: 10973523--10973585 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
10973513 ACACAAAAAG
*
10973523 TTCAGCGGGCAGATCCTGACAGTTCCATAGA
1 TTCAGCAGGCAGATCCTGACAGTTCCATAGA
10973554 TTCAGCAGGCAGATCCTGACAGTTCCATAGA
1 TTCAGCAGGCAGATCCTGACAGTTCCATAGA
10973585 T
1 T
10973586 GTTCAAATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (31 bp):
TTCAGCAGGCAGATCCTGACAGTTCCATAGA
Found at i:10973994 original size:34 final size:35
Alignment explanation
Indices: 10973939--10974005 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
10973929 CAAACACCAG
*
10973939 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
10973974 AAAACATTTTCCTG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
10974006 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:10974347 original size:29 final size:30
Alignment explanation
Indices: 10974301--10974359 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
10974291 GAATTAGATC
10974301 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
*
10974331 AAATCAAAATTT-ATGTATACAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
10974360 TTAAACCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:10976581 original size:21 final size:19
Alignment explanation
Indices: 10976516--10976582 Score: 55
Period size: 21 Copynumber: 3.3 Consensus size: 19
10976506 ATAATTAAAA
*
10976516 TAATAATTTTGTACAATTTT
1 TAATAATTTT-TATAATTTT
* *
10976536 T-ATAATTCTTAATCATTTT
1 TAATAATT-TTTATAATTTT
10976555 TAAATAATTTTCTATAATTATT
1 T-AATAATTTT-TATAATT-TT
10976577 TAATAA
1 TAATAA
10976583 GCTAATCAAG
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
19 13 0.35
20 5 0.14
21 16 0.43
22 3 0.08
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (19 bp):
TAATAATTTTTATAATTTT
Found at i:10976695 original size:21 final size:20
Alignment explanation
Indices: 10976670--10976715 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
10976660 TAGATGTTGA
*
10976670 TTTTAATAATTTAAAAATATT
1 TTTTAACAATTTAAAAAT-TT
* *
10976691 TTTTAACATTTTAAATATTT
1 TTTTAACAATTTAAAAATTT
10976711 TTTTA
1 TTTTA
10976716 TAAATTTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTAACAATTTAAAAATTT
Found at i:10985975 original size:46 final size:46
Alignment explanation
Indices: 10985905--10985993 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 46
10985895 ACAATGTTAT
10985905 AACTCAATATGGATTTCTTCACTGAAATACCATACCTACGTTCCAC
1 AACTCAATATGGATTTCTTCACTGAAATACCATACCTACGTTCCAC
* * *
10985951 AACTCAGTAT-GATTTTCTTTACTGAATTACCATACCTACGTTC
1 AACTCAATATGGA-TTTCTTCACTGAAATACCATACCTACGTTC
10985994 AACACTTTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 2 0.05
46 37 0.95
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (46 bp):
AACTCAATATGGATTTCTTCACTGAAATACCATACCTACGTTCCAC
Found at i:10995628 original size:16 final size:16
Alignment explanation
Indices: 10995609--10995647 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10995599 TTTTAATAAA
10995609 ATTAAAACTAATTGTT
1 ATTAAAACTAATTGTT
**
10995625 ATTAAATTTAATTGTT
1 ATTAAAACTAATTGTT
*
10995641 AGTAAAA
1 ATTAAAA
10995648 TTATCAAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (16 bp):
ATTAAAACTAATTGTT
Found at i:10995630 original size:22 final size:22
Alignment explanation
Indices: 10995581--10995635 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
10995571 CCCGTTTTTA
* * *
10995581 ATTAAAATTAAAATTATTTTTT
1 ATTAAAATTAAAACTAATTGTT
*
10995603 AATAAAATTAAAACTAATTGTT
1 ATTAAAATTAAAACTAATTGTT
*
10995625 ATTAAATTTAA
1 ATTAAAATTAA
10995636 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTAAAATTAAAACTAATTGTT
Found at i:10995730 original size:59 final size:59
Alignment explanation
Indices: 10995661--10996015 Score: 701
Period size: 59 Copynumber: 6.0 Consensus size: 59
10995651 TCAAATTATT
*
10995661 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
10995720 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
10995779 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
10995838 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
10995897 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
10995956 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
10996015 A
1 A
10996016 TTTTTCGGGC
Statistics
Matches: 295, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 295 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.46
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:10997050 original size:21 final size:22
Alignment explanation
Indices: 10997012--10997081 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 22
10997002 AACAAACAAT
*
10997012 AAATAACCATATATATAAATATA
1 AAATAATCATA-ATATAAATATA
10997035 AAATAATCA-AATATAAATAT-
1 AAATAATCATAATATAAATATA
* * *
10997055 TAATAATTATATTATAAATA-A
1 AAATAATCATAATATAAATATA
10997076 AAATAA
1 AAATAA
10997082 ACATCCAAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 7 0.17
21 24 0.60
22 1 0.03
23 8 0.20
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATAATCATAATATAAATATA
Found at i:10997948 original size:20 final size:21
Alignment explanation
Indices: 10997904--10997956 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 21
10997894 AAAGACATGG
10997904 ATTATGTTTTACTTGAGATTT
1 ATTATGTTTTACTTGAGATTT
*
10997925 -TTATTTTTTACCTT-AG-TTT
1 ATTATGTTTTA-CTTGAGATTT
*
10997944 ATTAT-ATTTACTT
1 ATTATGTTTTACTT
10997957 TAAAGAATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 3 0.11
19 7 0.25
20 15 0.54
21 3 0.11
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (21 bp):
ATTATGTTTTACTTGAGATTT
Found at i:11000498 original size:30 final size:30
Alignment explanation
Indices: 11000464--11000525 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
11000454 CTTAACTAAA
*
11000464 TTACAAAATGGTCATTAAATTATTCAAAAG
1 TTACAAAATAGTCATTAAATTATTCAAAAG
* *
11000494 TTACAAAATAGTTATTAAATTATTCTAAAG
1 TTACAAAATAGTCATTAAATTATTCAAAAG
11000524 TT
1 TT
11000526 TTTATTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (30 bp):
TTACAAAATAGTCATTAAATTATTCAAAAG
Found at i:11004691 original size:19 final size:20
Alignment explanation
Indices: 11004657--11004694 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11004647 AAGCAGTCTG
*
11004657 TAAAAAATGTAGTATATAAA
1 TAAAAAATATAGTATATAAA
11004677 TAAAAAATATA-TATATAA
1 TAAAAAATATAGTATATAA
11004695 TATGATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
TAAAAAATATAGTATATAAA
Found at i:11005844 original size:20 final size:21
Alignment explanation
Indices: 11005806--11005845 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11005796 AAATCAAATG
*
11005806 AAAATAAAAATCTTGAAATTC
1 AAAATAAAAATATTGAAATTC
*
11005827 AAAATAAAATTATT-AAATT
1 AAAATAAAAATATTGAAATT
11005846 ATTAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.33
Consensus pattern (21 bp):
AAAATAAAAATATTGAAATTC
Found at i:11009704 original size:30 final size:31
Alignment explanation
Indices: 11009652--11009752 Score: 109
Period size: 30 Copynumber: 3.3 Consensus size: 31
11009642 ATATTTTATG
* *
11009652 TATCATTATATTAAATTATTTAAATATGATT
1 TATCATTATATTAAAATATTTAAATATAATT
11009683 TATCATTATA-TAAAATATTTAAATATAATT
1 TATCATTATATTAAAATATTTAAATATAATT
* * * *
11009713 TCTTATTGTATTTAAAAT-TTTAAA-ATATTT
1 TATCATTATA-TTAAAATATTTAAATATAATT
11009743 TATCTATTAT
1 TATC-ATTAT
11009753 TAAATTTACA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
30 32 0.55
31 20 0.34
32 6 0.10
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (31 bp):
TATCATTATATTAAAATATTTAAATATAATT
Found at i:11015834 original size:21 final size:21
Alignment explanation
Indices: 11015810--11015874 Score: 112
Period size: 21 Copynumber: 3.1 Consensus size: 21
11015800 TATTGGTTTA
*
11015810 TTGCGGATCAAGTCAAGTTAC
1 TTGCGGAACAAGTCAAGTTAC
11015831 TTGCGGAACAAGTCAAGTTAC
1 TTGCGGAACAAGTCAAGTTAC
*
11015852 TTGCGGAACAAGTCAAGTCAC
1 TTGCGGAACAAGTCAAGTTAC
11015873 TT
1 TT
11015875 TCTATAGTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (21 bp):
TTGCGGAACAAGTCAAGTTAC
Found at i:11023185 original size:24 final size:24
Alignment explanation
Indices: 11023153--11023201 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
11023143 GTCTTTTACC
*
11023153 ACCCTTAAAGGGCTTTCATATACT
1 ACCCGTAAAGGGCTTTCATATACT
*
11023177 ACCCGTAAAGGTCTTTCATATACT
1 ACCCGTAAAGGGCTTTCATATACT
11023201 A
1 A
11023202 GTGTGCAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (24 bp):
ACCCGTAAAGGGCTTTCATATACT
Found at i:11025006 original size:17 final size:17
Alignment explanation
Indices: 11024984--11025017 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11024974 CCTGATCTCA
11024984 CCATCAAGGTAAATACC
1 CCATCAAGGTAAATACC
11025001 CCATCAAGGTAAATACC
1 CCATCAAGGTAAATACC
11025018 GTCTTCTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (17 bp):
CCATCAAGGTAAATACC
Found at i:11039523 original size:22 final size:22
Alignment explanation
Indices: 11039498--11039565 Score: 59
Period size: 26 Copynumber: 3.0 Consensus size: 22
11039488 CATACTTTTG
11039498 TTGTTATGTATATATTTTAATA
1 TTGTTATGTATATATTTTAATA
*
11039520 TTGTTAGTTATATATATTTTGTAATA
1 TTGTTA--TGTATATA-TTT-TAATA
* *
11039546 TTG-TATGCATAT-TTCTAATA
1 TTGTTATGTATATATTTTAATA
11039566 CCATCATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
20 5 0.13
21 2 0.05
22 6 0.16
23 5 0.13
24 7 0.18
25 5 0.13
26 8 0.21
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (22 bp):
TTGTTATGTATATATTTTAATA
Found at i:11039535 original size:26 final size:25
Alignment explanation
Indices: 11039495--11039549 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
11039485 TATCATACTT
*
11039495 TTGTTGTTATGTATATATTT-TAATA
1 TTGTTGTTATATATAT-TTTGTAATA
11039520 TTGTTAGTTATATATATTTTGTAATA
1 TTGTT-GTTATATATATTTTGTAATA
11039546 TTGT
1 TTGT
11039550 ATGCATATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 8 0.30
26 19 0.70
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (25 bp):
TTGTTGTTATATATATTTTGTAATA
Found at i:11039920 original size:27 final size:25
Alignment explanation
Indices: 11039863--11039932 Score: 70
Period size: 27 Copynumber: 2.7 Consensus size: 25
11039853 ACTCTATTAT
* *
11039863 ATTTTTCATATTATATCATGTATATAC
1 ATTTTTCATA-TAT-TCATGTACACAC
*
11039890 ATTTTTCATATATGTCATGTACACGC
1 ATTTTTCATATAT-TCATGTACACAC
11039916 AATTTTTCA-ATATTCAT
1 -ATTTTTCATATATTCAT
11039933 TTTATACATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
25 4 0.11
26 16 0.42
27 18 0.47
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (25 bp):
ATTTTTCATATATTCATGTACACAC
Found at i:11039921 original size:26 final size:27
Alignment explanation
Indices: 11039865--11039921 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 27
11039855 TCTATTATAT
* * *
11039865 TTTTCATATTATATCATGTATATACAT
1 TTTTCATATTATATCATGTACACACAA
* *
11039892 TTTTCATA-TATGTCATGTACACGCAA
1 TTTTCATATTATATCATGTACACACAA
11039918 TTTT
1 TTTT
11039922 TCAATATTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 17 0.68
27 8 0.32
ACGTcount: A:0.30, C:0.14, G:0.07, T:0.49
Consensus pattern (27 bp):
TTTTCATATTATATCATGTACACACAA
Found at i:11047699 original size:12 final size:12
Alignment explanation
Indices: 11047682--11047729 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
11047672 TGGGAGTAAA
11047682 GTTTTATATTTG
1 GTTTTATATTTG
*
11047694 GTTTTATATGTTAAA
1 GTTTTATAT-TT--G
11047709 GTTTTATATTTG
1 GTTTTATATTTG
*
11047721 GTTTCATAT
1 GTTTTATAT
11047730 GTTAATGACA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 17 0.57
13 2 0.07
14 2 0.07
15 9 0.30
ACGTcount: A:0.23, C:0.02, G:0.15, T:0.60
Consensus pattern (12 bp):
GTTTTATATTTG
Found at i:11047712 original size:27 final size:27
Alignment explanation
Indices: 11047678--11047734 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
11047668 TTAGTGGGAG
*
11047678 TAAAGTTTTATATTTGGTTTTATATGT
1 TAAAGTTTTATATTTGGTTTCATATGT
11047705 TAAAGTTTTATATTTGGTTTCATATGT
1 TAAAGTTTTATATTTGGTTTCATATGT
11047732 TAA
1 TAA
11047735 TGACATACTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.02, G:0.14, T:0.56
Consensus pattern (27 bp):
TAAAGTTTTATATTTGGTTTCATATGT
Found at i:11047714 original size:15 final size:14
Alignment explanation
Indices: 11047678--11047719 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 14
11047668 TTAGTGGGAG
11047678 TAAAGTTTTATATT
1 TAAAGTTTTATATT
*
11047692 T--GGTTTTATATGT
1 TAAAGTTTTATAT-T
11047705 TAAAGTTTTATATT
1 TAAAGTTTTATATT
11047719 T
1 T
11047720 GGTTTCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 6
0.74 0.06 0.19
Matches are distributed among these distances:
12 9 0.39
13 2 0.09
14 3 0.13
15 9 0.39
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.60
Consensus pattern (14 bp):
TAAAGTTTTATATT
Found at i:11057220 original size:21 final size:22
Alignment explanation
Indices: 11057194--11057239 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
11057184 AATTTTACTG
* *
11057194 TTTAAAAATAATTTTATA-AAT
1 TTTAAAAATAAATTTAAATAAT
*
11057215 TTTAAAATTAAATTTAAATAAT
1 TTTAAAAATAAATTTAAATAAT
11057237 TTT
1 TTT
11057240 TTAGTTCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTAAAAATAAATTTAAATAAT
Found at i:11058270 original size:17 final size:17
Alignment explanation
Indices: 11058248--11058280 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11058238 ATATTTAATA
11058248 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
11058265 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
11058281 TAAAAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:11059145 original size:22 final size:22
Alignment explanation
Indices: 11059103--11059145 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
11059093 TGATGCTGTT
*
11059103 TTGCTATCATTTTGTTATTATA
1 TTGCTATCATTTTATTATTATA
*
11059125 TTGCTA-CTATTTTATTGTTAT
1 TTGCTATC-ATTTTATTATTAT
11059146 TGTTTGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.60
Consensus pattern (22 bp):
TTGCTATCATTTTATTATTATA
Found at i:11066611 original size:23 final size:24
Alignment explanation
Indices: 11066584--11066631 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
11066574 TATCCATTTC
11066584 ATTATTTAAAACATAATTA-AAAA
1 ATTATTTAAAACATAATTATAAAA
**
11066607 ATTATTTAAAATTTAATTATAAAA
1 ATTATTTAAAACATAATTATAAAA
11066631 A
1 A
11066632 ATAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTATTTAAAACATAATTATAAAA
Found at i:11067758 original size:29 final size:28
Alignment explanation
Indices: 11067704--11067762 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
11067694 TTGATACATG
*
11067704 AATTTTGATTTGGTATAATTATATATAT
1 AATTTTGATTTGGTATAAATATATATAT
*
11067732 AATTTTGATTGTGGT-TCAAATGTATATAT
1 AATTTTGATT-TGGTAT-AAATATATATAT
11067761 AA
1 AA
11067763 AATTTAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 11 0.41
29 16 0.59
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.49
Consensus pattern (28 bp):
AATTTTGATTTGGTATAAATATATATAT
Found at i:11070860 original size:33 final size:32
Alignment explanation
Indices: 11070817--11070882 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 32
11070807 CAGTTGATCT
*
11070817 TGCAGGTTGTGTAGTTGACATACCAGCAGGAA
1 TGCAGGTTGTGTAGTTGACATACCAGCACGAA
11070849 TNGCAGGTTGTGTAGTTGACATACCAGCACGAA
1 T-GCAGGTTGTGTAGTTGACATACCAGCACGAA
11070882 T
1 T
11070883 ATCTAGCGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (32 bp):
TGCAGGTTGTGTAGTTGACATACCAGCACGAA
Found at i:11071746 original size:23 final size:23
Alignment explanation
Indices: 11071702--11071747 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11071692 ACAATTCCTT
* *
11071702 AAAATTTTGGCCTCCTCTTGTGG
1 AAAAATTTGGCCTCCTCATGTGG
11071725 AAAAATTTGGCCT-CTGCATGTGG
1 AAAAATTTGGCCTCCT-CATGTGG
11071748 CTTTGATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.35
Consensus pattern (23 bp):
AAAAATTTGGCCTCCTCATGTGG
Found at i:11077901 original size:17 final size:17
Alignment explanation
Indices: 11077864--11077902 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
11077854 CCATATTATT
* *
11077864 TCTTTTGTTTCTTTTCC
1 TCTTTTGTTTCTTCTCA
*
11077881 TCTTTTGTTTCTTCTGA
1 TCTTTTGTTTCTTCTCA
11077898 TCTTT
1 TCTTT
11077903 GGTTCCCCTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.08, T:0.69
Consensus pattern (17 bp):
TCTTTTGTTTCTTCTCA
Found at i:11077922 original size:11 final size:12
Alignment explanation
Indices: 11077905--11077954 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
11077895 TGATCTTTGG
*
11077905 TTCCCCTTCTTC
1 TTCCCCTTCTCC
11077917 -TCCCCTTTCTCC
1 TTCCCC-TTCTCC
11077929 TTCCCCTTC-CC
1 TTCCCCTTCTCC
*
11077940 TTTCCCCTTCCCC
1 -TTCCCCTTCTCC
11077953 TT
1 TT
11077955 GGTTTGCTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
11 7 0.21
12 19 0.58
13 7 0.21
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (12 bp):
TTCCCCTTCTCC
Found at i:11077940 original size:18 final size:18
Alignment explanation
Indices: 11077905--11077954 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
11077895 TGATCTTTGG
** *
11077905 TTCCCCTTCTTCTCCCCT
1 TTCCCCTTCCCCTTCCCT
*
11077923 TTCTCCTTCCCCTTCCCT
1 TTCCCCTTCCCCTTCCCT
11077941 TTCCCCTTCCCCTT
1 TTCCCCTTCCCCTT
11077955 GGTTTGCTCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (18 bp):
TTCCCCTTCCCCTTCCCT
Found at i:11081036 original size:20 final size:20
Alignment explanation
Indices: 11081007--11081045 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11080997 ATATTTTCTG
*
11081007 GTAAATCATTTTACAGAAAA
1 GTAAAACATTTTACAGAAAA
*
11081027 GTAAAACATTTTCCAGAAA
1 GTAAAACATTTTACAGAAA
11081046 TCATTTTACA
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:0.49, C:0.13, G:0.10, T:0.28
Consensus pattern (20 bp):
GTAAAACATTTTACAGAAAA
Found at i:11081310 original size:19 final size:16
Alignment explanation
Indices: 11081288--11081341 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 16
11081278 CTGTGATTGA
11081288 ATTTTTGTAAATTCAATAT
1 ATTTTT-TAAATT--ATAT
11081307 ATTTTATTAAATTATAT
1 ATTTT-TTAAATTATAT
11081324 ATTTTTATTAAATTATAT
1 A-TTTT-TTAAATTATAT
11081342 TTAATAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.15
18 16 0.48
19 11 0.33
20 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (16 bp):
ATTTTTTAAATTATAT
Found at i:11081329 original size:18 final size:17
Alignment explanation
Indices: 11081303--11081341 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
11081293 TGTAAATTCA
11081303 ATATATTTTATTAAATT
1 ATATATTTTATTAAATT
11081320 ATATATTTTTATTAAATT
1 ATATA-TTTTATTAAATT
11081338 ATAT
1 ATAT
11081342 TTAATAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATATATTTTATTAAATT
Found at i:11081382 original size:7 final size:8
Alignment explanation
Indices: 11081349--11081380 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
11081339 TATTTAATAA
11081349 TAATTTTT
1 TAATTTTT
11081357 TAATTTTT
1 TAATTTTT
11081365 TAATTTTT
1 TAATTTTT
11081373 TAATTTTT
1 TAATTTTT
11081381 AAATAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TAATTTTT
Found at i:11081531 original size:21 final size:21
Alignment explanation
Indices: 11081503--11081557 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
11081493 ACTGCTATTT
* *
11081503 CTAATCTCACTGCTACATTATC
1 CTAATCTCACCGCTACAGTA-C
11081525 C-AATCTCACCGCTACAGTAC
1 CTAATCTCACCGCTACAGTAC
11081545 CTAATCTCACCGC
1 CTAATCTCACCGC
11081558 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.38, G:0.07, T:0.27
Consensus pattern (21 bp):
CTAATCTCACCGCTACAGTAC
Found at i:11086862 original size:25 final size:25
Alignment explanation
Indices: 11086833--11086881 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
11086823 TTAGACCGAA
11086833 AAGAAACATGCCAAAGCGGCAGACG
1 AAGAAACATGCCAAAGCGGCAGACG
*
11086858 AAGAAACGTGCCAAAGCGGCAGAC
1 AAGAAACATGCCAAAGCGGCAGAC
11086882 TATTGGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.43, C:0.24, G:0.29, T:0.04
Consensus pattern (25 bp):
AAGAAACATGCCAAAGCGGCAGACG
Found at i:11087885 original size:16 final size:16
Alignment explanation
Indices: 11087864--11087896 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11087854 AAATAAAGTA
*
11087864 AAAGAATAAAAGAAAC
1 AAAGAAGAAAAGAAAC
11087880 AAAGAAGAAAAGAAAC
1 AAAGAAGAAAAGAAAC
11087896 A
1 A
11087897 GAGACCATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.76, C:0.06, G:0.15, T:0.03
Consensus pattern (16 bp):
AAAGAAGAAAAGAAAC
Found at i:11090629 original size:32 final size:33
Alignment explanation
Indices: 11090567--11090634 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 33
11090557 TGTCTCTTTC
* *
11090567 TTTTTTTGATTGAATTTTGTCACCAGATTTTGA
1 TTTTTTTGATTGAATTTTCTCACCAGATTTTAA
**
11090600 TTTTTTT-ATTGAATTTTACTCTTCA-ATTTTAA
1 TTTTTTTGATTGAATTTT-CTCACCAGATTTTAA
11090632 TTT
1 TTT
11090635 AAAATAAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.60
Consensus pattern (33 bp):
TTTTTTTGATTGAATTTTCTCACCAGATTTTAA
Found at i:11090936 original size:30 final size:31
Alignment explanation
Indices: 11090879--11090938 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11090869 TCAAATCATC
* *
11090879 AAAATCAATATTAAGTGATAAACTTTAATTA
1 AAAATAAATATTAAGTGACAAACTTTAATTA
*
11090910 AAAATAAATATT-AGTGACAAATTTTAATT
1 AAAATAAATATTAAGTGACAAACTTTAATT
11090939 TGAAAAATCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.37
Consensus pattern (31 bp):
AAAATAAATATTAAGTGACAAACTTTAATTA
Found at i:11093608 original size:30 final size:29
Alignment explanation
Indices: 11093574--11093638 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
11093564 TAATCCACCA
11093574 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
11093604 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
11093634 CCCAA
1 CCCAA
11093639 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:11093612 original size:31 final size:30
Alignment explanation
Indices: 11093581--11093638 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11093571 CCACCCAACT
11093581 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
11093611 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
11093639 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:11097518 original size:61 final size:61
Alignment explanation
Indices: 11097423--11097545 Score: 210
Period size: 61 Copynumber: 2.0 Consensus size: 61
11097413 ACTGTAATTG
* * *
11097423 TGTTGATAGATCCAGGATCGACTCATTCTTATGTATGTGAAACTTTTGTATCTAGTGAGAC
1 TGTTGATAGATCCAGGATCGACACATTCTTATGTATGTGAAACTTTAGTATCTAGTAAGAC
*
11097484 TGTTGATAGATCCAGTATCGACACATTCTTATGTATGTGAAACTTTAGTATCTAGTAAGAC
1 TGTTGATAGATCCAGGATCGACACATTCTTATGTATGTGAAACTTTAGTATCTAGTAAGAC
11097545 T
1 T
11097546 TTGCCTGTAG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 58 1.00
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (61 bp):
TGTTGATAGATCCAGGATCGACACATTCTTATGTATGTGAAACTTTAGTATCTAGTAAGAC
Found at i:11097724 original size:21 final size:21
Alignment explanation
Indices: 11097700--11097744 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
11097690 GAATTTGATA
*
11097700 TAATTCTGGGTACGGATTGGT
1 TAATTCTGGGTACAGATTGGT
11097721 TAATTCTGGGTACAGATTGGT
1 TAATTCTGGGTACAGATTGGT
11097742 TAA
1 TAA
11097745 CACTGCATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (21 bp):
TAATTCTGGGTACAGATTGGT
Found at i:11107964 original size:20 final size:21
Alignment explanation
Indices: 11107939--11107979 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11107929 CTTTTTTAAA
11107939 TATATAATATA-AATTATTTT
1 TATATAATATATAATTATTTT
* *
11107959 TATATATTATATTATTATTTT
1 TATATAATATATAATTATTTT
11107980 AAACACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATAATATATAATTATTTT
Found at i:11107965 original size:22 final size:21
Alignment explanation
Indices: 11107938--11107979 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
11107928 ACTTTTTTAA
11107938 ATATATAATATAAATTATTTTT
1 ATATATAATAT-AATTATTTTT
* *
11107960 ATATATTATATTATTATTTT
1 ATATATAATATAATTATTTT
11107980 AAACACAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATATAATATAATTATTTTT
Found at i:11111010 original size:42 final size:42
Alignment explanation
Indices: 11110951--11111034 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
11110941 AATCCTAATT
*
11110951 GGGAAAATAATTCCCTTATTCTAATCAACCACTAAAACATAA
1 GGGAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAA
* *
11110993 GGGAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAA
1 GGGAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAA
11111035 AATAAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.27
Consensus pattern (42 bp):
GGGAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAA
Found at i:11111042 original size:42 final size:42
Alignment explanation
Indices: 11110953--11111047 Score: 129
Period size: 42 Copynumber: 2.3 Consensus size: 42
11110943 TCCTAATTGG
* **
11110953 GAAAATAATTCCCTTATTCTAATCAACCACTAAAACATAAGG
1 GAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAAAA
* *
11110995 GAAAATAATTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAAAA
*
11111037 TAAAAT-ATTCC
1 GAAAATAATTCC
11111048 TAGAATATGA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
41 5 0.11
42 42 0.89
ACGTcount: A:0.48, C:0.18, G:0.05, T:0.28
Consensus pattern (42 bp):
GAAAATAATTCCCTTATTCTAATAAACCACTAAAACATAAAA
Found at i:11111079 original size:19 final size:19
Alignment explanation
Indices: 11111055--11111100 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
11111045 TCCTAGAATA
11111055 TGAATAAAACTTATCTACC
1 TGAATAAAACTTATCTACC
* *
11111074 TGAATAAGATTTATCTACC
1 TGAATAAAACTTATCTACC
*
11111093 TAAATAAA
1 TGAATAAA
11111101 TTTAAATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (19 bp):
TGAATAAAACTTATCTACC
Found at i:11127527 original size:17 final size:17
Alignment explanation
Indices: 11127491--11127535 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
11127481 CCGATATAAT
* *
11127491 AAATATATTT-ATTTTT
1 AAATATTTTTAATTTTA
*
11127507 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
11127524 AAATATTTTTAA
1 AAATATTTTTAA
11127536 AATACTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:11127566 original size:38 final size:37
Alignment explanation
Indices: 11127512--11127593 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 37
11127502 TTTTTAAATT
*
11127512 TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTTTA
1 TTTTT-ATTTTAAAATATTTTTAAAATAC-TTTTTTTAA
11127551 TTTTTATTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTTATTTTAAAATATTTTTAAAATACTTTTTTTAA
11127588 TTTTTA
1 TTTTTA
11127594 AAATAAATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
37 14 0.33
38 23 0.55
39 5 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (37 bp):
TTTTTATTTTAAAATATTTTTAAAATACTTTTTTTAA
Found at i:11127604 original size:21 final size:21
Alignment explanation
Indices: 11127566--11127605 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11127556 ATTTTAAAAT
**
11127566 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
11127587 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
11127606 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:11127612 original size:22 final size:21
Alignment explanation
Indices: 11127565--11127623 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
11127555 TATTTTAAAA
* *
11127565 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
11127585 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
11127608 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
11127624 AGGCCGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:11132168 original size:57 final size:61
Alignment explanation
Indices: 11132101--11132252 Score: 161
Period size: 57 Copynumber: 2.6 Consensus size: 61
11132091 TCCTTTTTTA
*
11132101 TTATTTTATTCATTCATTCATTTATTTACTTATTTA-TT-TAT-TTATTCA-TAATTCATT
1 TTATTTTATTCATTTATTCATTTATTTACTTATTTATTTATATATTATTCACTAATTCATT
* * * * * * **
11132158 TTATTTTATTCATTTATTTAATCATATACTTATCTATTTATATATTATTCACTTATTTTTT
1 TTATTTTATTCATTTATTCATTTATTTACTTATTTATTTATATATTATTCACTAATTCATT
* *
11132219 TTATTTTAATCCTTTTATTCATTTATTTA-TTATT
1 TTATTTT-ATTCATTTATTCATTTATTTACTTATT
11132253 CCTTCAATTT
Statistics
Matches: 74, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
57 30 0.41
58 2 0.03
59 3 0.04
60 7 0.09
61 17 0.23
62 15 0.20
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (61 bp):
TTATTTTATTCATTTATTCATTTATTTACTTATTTATTTATATATTATTCACTAATTCATT
Found at i:11132382 original size:23 final size:23
Alignment explanation
Indices: 11132338--11132383 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11132328 ATTATTATTA
*
11132338 CTATGTTATTATTATCTATTTAT
1 CTATGTTATTATTACCTATTTAT
*
11132361 CTAT-TTATTTATTACCTCTTTAT
1 CTATGTTA-TTATTACCTATTTAT
11132384 TTTATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.61
Consensus pattern (23 bp):
CTATGTTATTATTACCTATTTAT
Found at i:11133035 original size:17 final size:18
Alignment explanation
Indices: 11133013--11133046 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11133003 TCATTTATTT
*
11133013 ATTATTACTA-TAATATG
1 ATTATTAATATTAATATG
11133030 ATTATTAATATTAATAT
1 ATTATTAATATTAATAT
11133047 TATCATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATTATTAATATTAATATG
Found at i:11135114 original size:21 final size:20
Alignment explanation
Indices: 11135081--11135136 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
11135071 TTTTTATTTA
11135081 AAATTTAATTATAAAATATAT
1 AAATTTAATTATAAAAT-TAT
11135102 AAATATTAA-TATAAAATTAT
1 AAAT-TTAATTATAAAATTAT
*
11135122 -ACTTTATATTATAAA
1 AAATTTA-ATTATAAA
11135137 CAAAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 3 0.10
19 3 0.10
20 9 0.29
21 12 0.39
22 4 0.13
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (20 bp):
AAATTTAATTATAAAATTAT
Found at i:11136255 original size:24 final size:24
Alignment explanation
Indices: 11136227--11136273 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
11136217 ACCACCTCAT
*
11136227 TCATGTCCATATCCTTGACCATGG
1 TCATGACCATATCCTTGACCATGG
*
11136251 TCATGACCATGTCCTTGACCATG
1 TCATGACCATATCCTTGACCATG
11136274 ACTGCTAGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.32
Consensus pattern (24 bp):
TCATGACCATATCCTTGACCATGG
Found at i:11136621 original size:12 final size:12
Alignment explanation
Indices: 11136603--11136643 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
11136593 AAATAAAATT
11136603 CTAAAACTAAAA
1 CTAAAACTAAAA
*
11136615 ATAAAACTAAAA
1 CTAAAACTAAAA
11136627 CTAAAACTAAAA
1 CTAAAACTAAAA
11136639 CTAAA
1 CTAAA
11136644 GTATAAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.17
Consensus pattern (12 bp):
CTAAAACTAAAA
Found at i:11136624 original size:18 final size:18
Alignment explanation
Indices: 11136590--11136643 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
11136580 ATTTAATAAA
11136590 TAAAAATAAAATTCTAAAAC
1 TAAAAATAAAA--CTAAAAC
11136610 TAAAAATAAAACTAAAAC
1 TAAAAATAAAACTAAAAC
*
11136628 TAAAACTAAAACTAAA
1 TAAAAATAAAACTAAA
11136644 GTATAAAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
18 22 0.67
20 11 0.33
ACGTcount: A:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (18 bp):
TAAAAATAAAACTAAAAC
Found at i:11136697 original size:9 final size:9
Alignment explanation
Indices: 11136683--11136716 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
11136673 GTAGTGATTC
11136683 AATTCGGAT
1 AATTCGGAT
*
11136692 AATTCGGGT
1 AATTCGGAT
*
11136701 AATTCGGTT
1 AATTCGGAT
11136710 AATTCGG
1 AATTCGG
11136717 GTAAATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.35
Consensus pattern (9 bp):
AATTCGGAT
Found at i:11136706 original size:18 final size:18
Alignment explanation
Indices: 11136683--11136720 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
11136673 GTAGTGATTC
11136683 AATTCGGATAATTCGGGT
1 AATTCGGATAATTCGGGT
*
11136701 AATTCGGTTAATTCGGGT
1 AATTCGGATAATTCGGGT
11136719 AA
1 AA
11136721 ATTTTAACCA
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:0.29, C:0.11, G:0.26, T:0.34
Consensus pattern (18 bp):
AATTCGGATAATTCGGGT
Found at i:11137364 original size:28 final size:28
Alignment explanation
Indices: 11137323--11137378 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
11137313 CTTTGGCGTT
11137323 ATCTTGACTAGATGCTTCATTTCCTTCA
1 ATCTTGACTAGATGCTTCATTTCCTTCA
*
11137351 ATCTTGACTTGATGCTTCATTTCCTTCA
1 ATCTTGACTAGATGCTTCATTTCCTTCA
11137379 TTAATAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.45
Consensus pattern (28 bp):
ATCTTGACTAGATGCTTCATTTCCTTCA
Found at i:11142705 original size:31 final size:31
Alignment explanation
Indices: 11142621--11142702 Score: 139
Period size: 31 Copynumber: 2.7 Consensus size: 31
11142611 CTCTTTACTT
*
11142621 TCCCCTAAAACTTTTACTCCCTCACATTTTC
1 TCCCCAAAAACTTTTACTCCCTCACATTTTC
*
11142652 TCCCCAAAAATTTTTACTCCCTCACATTTTC
1 TCCCCAAAAACTTTTACTCCCTCACATTTTC
11142683 TCCCC-AAAACTTTTACTCCC
1 TCCCCAAAAACTTTTACTCCC
11142703 CTCCCATCTC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 14 0.29
31 34 0.71
ACGTcount: A:0.24, C:0.39, G:0.00, T:0.37
Consensus pattern (31 bp):
TCCCCAAAAACTTTTACTCCCTCACATTTTC
Found at i:11142808 original size:27 final size:27
Alignment explanation
Indices: 11142757--11142808 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
11142747 TTTTTGAATA
11142757 TCCCCCCCAAATTTTACTCCATTTATT
1 TCCCCCCCAAATTTTACTCCATTTATT
11142784 TCCCCCCCAAAATTTTACTCC-TTTA
1 TCCCCCCC-AAATTTTACTCCATTTA
11142809 GCCCCCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.23, C:0.38, G:0.00, T:0.38
Consensus pattern (27 bp):
TCCCCCCCAAATTTTACTCCATTTATT
Found at i:11148497 original size:42 final size:40
Alignment explanation
Indices: 11148449--11148737 Score: 242
Period size: 42 Copynumber: 7.5 Consensus size: 40
11148439 GAATATAAAG
*
11148449 GGGGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTGAAA
1 GGGGTTGCTAAGTGCTGATTCCACCGTA-TTTAAATGTG-AA
* *
11148491 GGGGTTGCTAAGTGCTGATTCC-CCG-A-CT-CAT-TG--
1 GGGGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTGAA
* *
11148524 GTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAA
1 GGGGTTGCTAAGTGCTGATTCCACCGTAT-TTAAATGTG-AA
* *
11148566 GGGGTTGCTAAGTGCTGATTCC-CCG-A-CT-CAT-TG--
1 GGGGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTGAA
* *
11148599 GTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAA
1 GGGGTTGCTAAGTGCTGATTCCACCGTAT-TTAAATGTGAA
* *
11148640 GGGGGTTGCTAAGTGCTGATTCC-CCG-A-CT-CAT-TG--
1 -GGGGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTGAA
* *
11148674 GTGGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAA
1 GGGGTTGCTAAGTGCTGATTCCACCGTAT-TTAAATGTG-AA
11148716 GGGGTTGCTAAGTGCTGATTCC
1 GGGGTTGCTAAGTGCTGATTCC
11148738 CCGAATCACT
Statistics
Matches: 195, Mismatches: 25, Indels: 54
0.71 0.09 0.20
Matches are distributed among these distances:
33 60 0.31
34 9 0.05
35 3 0.02
36 6 0.03
37 9 0.05
38 9 0.05
39 6 0.03
40 3 0.02
41 8 0.04
42 82 0.42
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (40 bp):
GGGGTTGCTAAGTGCTGATTCCACCGTATTTAAATGTGAA
Found at i:11148535 original size:33 final size:34
Alignment explanation
Indices: 11148493--11148775 Score: 214
Period size: 33 Copynumber: 7.7 Consensus size: 34
11148483 ATGTGAAAGG
11148493 GGTTGCTAAGTGCTGATTCC-CCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGACTCATTGGT
* * *
11148526 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCG-A-C-T-CAT-TG---GT
11148568 GGTTGCTAAGTGCTGATTCC-CCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGACTCATTGGT
* * *
11148601 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCCACCG-A-C-T-CAT-T---GGT
11148643 GGTTGCTAAGTGCTGATTCC-CCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCACCGACTCATTGGT
* * *
11148676 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCACCG-A-C-T-CAT-TG---GT
* *
11148718 GGTTGCTAAGTGCTGATTCC-CCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCACCGACTCATTGGT
*
11148751 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCCACCGA
11148776 TAACGGACAA
Statistics
Matches: 201, Mismatches: 21, Indels: 55
0.73 0.08 0.20
Matches are distributed among these distances:
33 80 0.40
34 13 0.06
35 3 0.01
36 8 0.04
37 8 0.04
38 9 0.04
39 7 0.03
40 3 0.01
41 9 0.04
42 61 0.30
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.30
Consensus pattern (34 bp):
GGTTGCTAAGTGCTGATTCCACCGACTCATTGGT
Found at i:11148574 original size:75 final size:75
Alignment explanation
Indices: 11148451--11148774 Score: 578
Period size: 75 Copynumber: 4.3 Consensus size: 75
11148441 ATATAAAGGG
* * *
11148451 GGTTGCTAAGTGCTGATTCCACTGTATTTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
1 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
11148516 ACTCATTGGT
66 ACTCATTGGT
11148526 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
1 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
11148591 ACTCATTGGT
66 ACTCATTGGT
*
11148601 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCCCG
1 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
11148666 ACTCATTGGT
66 ACTCATTGGT
11148676 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
1 GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
* *
11148741 AATCACTGGT
66 ACTCATTGGT
11148751 GGTTGCTAAGTGCTGAAT-CCACCG
1 GGTTGCTAAGTGCTG-ATCCCACCG
11148775 ATAACGGACA
Statistics
Matches: 241, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
75 239 0.99
76 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (75 bp):
GGTTGCTAAGTGCTGATCCCACCGTATCTTAAATGTGAAAGGGGTTGCTAAGTGCTGATTCCCCG
ACTCATTGGT
Found at i:11152981 original size:11 final size:11
Alignment explanation
Indices: 11152965--11153003 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
11152955 AAAAAGTTAC
11152965 AATTTTTTTAT
1 AATTTTTTTAT
11152976 AA--TTTTTAT
1 AATTTTTTTAT
*
11152985 AATTTTTTTAC
1 AATTTTTTTAT
11152996 AATTTTTT
1 AATTTTTT
11153004 GTAATTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (11 bp):
AATTTTTTTAT
Found at i:11152988 original size:20 final size:20
Alignment explanation
Indices: 11152965--11153002 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
11152955 AAAAAGTTAC
*
11152965 AATTTTTTTATAATTTTTAT
1 AATTTTTTTACAATTTTTAT
11152985 AATTTTTTTACAATTTTT
1 AATTTTTTTACAATTTTT
11153003 TGTAATTATT
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:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTTTTTTACAATTTTTAT
Found at i:11152991 original size:10 final size:10
Alignment explanation
Indices: 11152968--11153009 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
11152958 AAGTTACAAT
11152968 TTTTTTATAA
1 TTTTTTATAA
11152978 -TTTTTATAA
1 TTTTTTATAA
*
11152987 TTTTTTTACAA
1 -TTTTTTATAA
*
11152998 TTTTTTGTAA
1 TTTTTTATAA
11153008 TT
1 TT
11153010 ATTAATTTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 9 0.33
10 10 0.37
11 8 0.30
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:11153092 original size:20 final size:20
Alignment explanation
Indices: 11153061--11153172 Score: 60
Period size: 20 Copynumber: 5.7 Consensus size: 20
11153051 TTTATTTTAT
11153061 TTTATA-AT-TTTTTTATAA
1 TTTATATATATTTTTTATAA
* *
11153079 TTTATATATATTTTCTA-GA
1 TTTATATATATTTTTTATAA
* *
11153098 TGTTATAAATATTTAATTTTCTTAA
1 T-TTATATATA-TT--TTTT-ATAA
* *
11153123 TTT-TAGTTTAATTTTTAT--
1 TTTATA-TATATTTTTTATAA
11153141 TTTATA-AT-TTTTTTATAA
1 TTTATATATATTTTTTATAA
11153159 TTTATATATATTTT
1 TTTATATATATTTT
11153173 CTAGATGTTA
Statistics
Matches: 68, Mismatches: 12, Indels: 26
0.64 0.11 0.25
Matches are distributed among these distances:
16 7 0.10
17 1 0.01
18 15 0.22
19 8 0.12
20 19 0.28
21 6 0.09
23 6 0.09
24 4 0.06
25 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTATATATATTTTTTATAA
Found at i:11153118 original size:25 final size:24
Alignment explanation
Indices: 11153088--11153245 Score: 61
Period size: 26 Copynumber: 6.1 Consensus size: 24
11153078 ATTTATATAT
11153088 ATTTTCTAGATGTTATAAATATTTA
1 ATTTTCTA-ATGTTATAAATATTTA
* * *
11153113 ATTTTCTTAATTTTAGTTTAAT-TTTT
1 ATTTTC-TAATGTTA--TAAATATTTA
* * * *
11153139 ATTTTATAATTTTTTTATAATTTATATA
1 ATTTTCTAA---TGTTATAA-ATATTTA
11153167 TATTTTCTAGATGTTATAAATATTTA
1 -ATTTTCTA-ATGTTATAAATATTTA
* * *
11153193 ATTTTTTTAATTTTAGTTTAAT-TTTA
1 A-TTTTCTAATGTTA--TAAATATTTA
*
11153219 TATTTT-TAATGTATATATATATTTA
1 -ATTTTCTAATGT-TATAAATATTTA
11153244 AT
1 AT
11153246 AAAATAAAGT
Statistics
Matches: 99, Mismatches: 18, Indels: 33
0.66 0.12 0.22
Matches are distributed among these distances:
24 5 0.05
25 29 0.29
26 33 0.33
27 17 0.17
28 7 0.07
29 7 0.07
30 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.61
Consensus pattern (24 bp):
ATTTTCTAATGTTATAAATATTTA
Found at i:11153149 original size:80 final size:80
Alignment explanation
Indices: 11153055--11153228 Score: 323
Period size: 80 Copynumber: 2.2 Consensus size: 80
11153045 TTTTTGTTTA
11153055 TTTTATTTTATAATTTTTTTATAATTTATATATATTTTCTAGATGTTATAAATATTTAATTTTCT
1 TTTTATTTTATAATTTTTTTATAATTTATATATATTTTCTAGATGTTATAAATATTTAATTTTCT
11153120 TAATTTTAGTTTAAT
66 TAATTTTAGTTTAAT
*
11153135 TTTTATTTTATAATTTTTTTATAATTTATATATATTTTCTAGATGTTATAAATATTTAATTTTTT
1 TTTTATTTTATAATTTTTTTATAATTTATATATATTTTCTAGATGTTATAAATATTTAATTTTCT
11153200 TAATTTTAGTTTAAT
66 TAATTTTAGTTTAAT
11153215 TTTATATTTT-TAAT
1 TTT-TATTTTATAAT
11153229 GTATATATAT
Statistics
Matches: 92, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
80 86 0.93
81 6 0.07
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (80 bp):
TTTTATTTTATAATTTTTTTATAATTTATATATATTTTCTAGATGTTATAAATATTTAATTTTCT
TAATTTTAGTTTAAT
Found at i:11153172 original size:18 final size:20
Alignment explanation
Indices: 11153151--11153191 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
11153141 TTTATAATTT
*
11153151 TTTTATA-AT-TTATATATA
1 TTTTATAGATGTTATAAATA
*
11153169 TTTTCTAGATGTTATAAATA
1 TTTTATAGATGTTATAAATA
11153189 TTT
1 TTT
11153192 AATTTTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 6 0.32
19 2 0.11
20 11 0.58
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (20 bp):
TTTTATAGATGTTATAAATA
Found at i:11153214 original size:11 final size:10
Alignment explanation
Indices: 11153187--11153219 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
11153177 ATGTTATAAA
11153187 TATTTAATTT
1 TATTTAATTT
11153197 T-TTTAATTT
1 TATTTAATTT
11153206 TAGTTTAATTT
1 TA-TTTAATTT
11153217 TAT
1 TAT
11153220 ATTTTTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.43
10 2 0.10
11 10 0.48
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (10 bp):
TATTTAATTT
Found at i:11156142 original size:40 final size:40
Alignment explanation
Indices: 11156063--11156173 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
11156053 GTGGTTTTAG
* * *
11156063 TCTGCTCCACTACAACTTCAGAGAGCA-AAGACTTGATGCGA
1 TCTGATCCACTACTACTT-AGGGAG-ATAAGACTTGATGCGA
* *
11156104 TCTGATCCACTACTGCTTAGGGAGATAAGAGTTGATGCGA
1 TCTGATCCACTACTACTTAGGGAGATAAGACTTGATGCGA
*
11156144 TCTGCTCCACTACTACTTAGGGAGATAAGA
1 TCTGATCCACTACTACTTAGGGAGATAAGA
11156174 TCAGTAATCT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.02
40 46 0.74
41 15 0.24
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (40 bp):
TCTGATCCACTACTACTTAGGGAGATAAGACTTGATGCGA
Found at i:11156319 original size:44 final size:44
Alignment explanation
Indices: 11156101--11156325 Score: 117
Period size: 44 Copynumber: 5.2 Consensus size: 44
11156091 AGACTTGATG
* * *
11156101 CGATCTGATCCACTACTGCTTAGGGAGATAAGAGT-TG--A--TG
1 CGATCTGCTCCACTGCTGCTTAGGGAGATAAGA-TCTGTAATCTT
* * *
11156141 CGATCTGCTCCACTACTACTTAGGGAGATAAGATCAGTAATCTT
1 CGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTT
* * ** ** * *
11156185 CAATGTATTCCACTGCTGCCCAGGGAGAT-AGAAC--TACTGGCTT
1 CGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAAT--CTT
* * * * * * * * * **
11156228 CAATGTACTCCACTG-TAATCTCAGGAAGGTAAAATCCGCCATCTT
1 CGATCTGCTCCACTGCT--GCTTAGGGAGATAAGATCTGTAATCTT
11156273 CGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTT
1 CGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTT
11156317 CGATCTGCT
1 CGATCTGCT
11156326 TCGCTGTCAA
Statistics
Matches: 137, Mismatches: 35, Indels: 22
0.71 0.18 0.11
Matches are distributed among these distances:
39 1 0.01
40 32 0.23
41 3 0.02
42 2 0.01
43 21 0.15
44 58 0.42
45 18 0.13
46 1 0.01
47 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
CGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTT
Found at i:11156406 original size:89 final size:88
Alignment explanation
Indices: 11156313--11156797 Score: 413
Period size: 89 Copynumber: 5.5 Consensus size: 88
11156303 AGATCTGTAA
* * * *
11156313 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGAAAGATCTGCTATCTTCAGTCTGCTCTGCTGT
1 TCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT-T
*
11156378 CAGTACAGGAAGGCAAGACTAGTT
65 CAGTACAGGAAGGCAAGACTGGTT
* * * * *
11156402 TCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAAATCTGTTATCTTTAGTCTGCTCCGCTAT
1 TCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT-T
*
11156467 CAGTATAGGAAGGCAAGACTGGTT
65 CAGTACAGGAAGGCAAGACTGGTT
* * * * * *
11156491 CCTTCGATCTACTTCGCCGTCAGTATAGGAAGGCAAGATCTACTATCTTGAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCT-T
**
11156556 CAGTACATAAAGGCAAGACTGGTT
65 CAGTACAGGAAGGCAAGACTGGTT
* * * * * * * *
11156580 TCTAT-GATCTGTTTCACCGTTAGTACAGGAAGGCAAGATCTGCTATCTT-TGACCAGCTCCACT
1 TCT-TCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTCAG-TCTGCTCCGCT
* * * * * *
11156643 ACA-AACGAGGGAGGTAAGACTTGTG
64 TCAGTAC-AGGAAGGCAAGACTGGTT
* * * ** * * *
11156668 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTAC
1 TCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTTC
* ** * *
11156733 A--ACCGAGAGAGGCAAGGTTTGTG
66 AGTACAG-GA-AGGCAAGACTGGTT
* * * *
11156756 TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGTAAGATCTG
1 TCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTG
11156798 TTGTATTCAA
Statistics
Matches: 328, Mismatches: 61, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
86 1 0.00
87 6 0.02
88 118 0.36
89 202 0.62
90 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCCGTCAATACAGGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGCTTC
AGTACAGGAAGGCAAGACTGGTT
Found at i:11156424 original size:44 final size:43
Alignment explanation
Indices: 11156313--11156617 Score: 220
Period size: 44 Copynumber: 6.9 Consensus size: 43
11156303 AGATCTGTAA
* * * * *
11156313 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGAAAGATCT-GCTA
1 TCTT-GATCTGCTTCGCCGTCAGTACAGGAAGGCAAGA-CTAG-TT
* *
11156358 TCTTCAGTCTGC-TCTGCTGTCAGTACAGGAAGGCAAGACTAGTT
1 TCTTGA-TCTGCTTC-GCCGTCAGTACAGGAAGGCAAGACTAGTT
* *
11156402 TCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAAATCT-GTT
1 TCTT-GATCTGCTTCGCCGTCAGTACAGGAAGGCAAGA-CTAGTT
* * ** * *
11156446 ATCTTTAGTCTGCTCCGCTATCAGTATAGGAAGGCAAGACTGGTT
1 -TCTTGA-TCTGCTTCGCCGTCAGTACAGGAAGGCAAGACTAGTT
* * * * *
11156491 CCTTCGATCTACTTCGCCGTCAGTATAGGAAGGCAAGATCTACTA
1 TCTT-GATCTGCTTCGCCGTCAGTACAGGAAGGCAAGA-CTAGTT
* * ** *
11156536 TCTTGAGTCTGCTCCGCTGTCAGTACATAAAGGCAAGACTGGTT
1 TCTTGA-TCTGCTTCGCCGTCAGTACAGGAAGGCAAGACTAGTT
* * *
11156580 TCTATGATCTGTTTCACCGTTAGTACAGGAAGGCAAGA
1 TCT-TGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGA
11156618 TCTGCTATCT
Statistics
Matches: 205, Mismatches: 42, Indels: 27
0.75 0.15 0.10
Matches are distributed among these distances:
44 103 0.50
45 102 0.50
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (43 bp):
TCTTGATCTGCTTCGCCGTCAGTACAGGAAGGCAAGACTAGTT
Found at i:11156707 original size:88 final size:88
Alignment explanation
Indices: 11156605--11157413 Score: 1222
Period size: 88 Copynumber: 9.2 Consensus size: 88
11156595 ACCGTTAGTA
* * ** ** * * * **
11156605 CAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTACAAACGAGGGAGGTAAGACTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
*
11156670 TTCGATCTGCTTCGCTGTCAATG
66 TTTGATCTGCTTCGCTGTCAATG
*
11156693 CAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
11156758 TTTGATCTGCTTCGCTGTCAATG
66 TTTGATCTGCTTCGCTGTCAATG
* * ** * * *
11156781 CAGGAAGGTAAGATCTGTTGTATTCAACCAGCTCCACTACAACCGAGTGAGGTAAGGCTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
* * **
11156846 TTCGATCTGCTTCGGTGTCAGGG
66 TTTGATCTGCTTCGCTGTCAATG
* *
11156869 CAGAAAGGCAAGATCTGTTGTCTTCAAACAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
11156934 TTTGATCTGCTTCGCTGTCAATG
66 TTTGATCTGCTTCGCTGTCAATG
11156957 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
* *
11157022 TTCGATCTGCTTCGCTGTCAACG
66 TTTGATCTGCTTCGCTGTCAATG
* *
11157045 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTTGCTACAACCGAGAGAGGGAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
*
11157110 TTTGATCTGCTTCGCTATCAATG
66 TTTGATCTGCTTCGCTGTCAATG
* *
11157133 CAGGAAGGTAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGTAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
** *
11157198 TTTGATCTATTTCGCTGTCAACG
66 TTTGATCTGCTTCGCTGTCAATG
*
11157221 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAATCGAGAGAGGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
11157286 TTTGATCTGCTTCGCTGTCAATG
66 TTTGATCTGCTTCGCTGTCAATG
* * * *
11157309 CAGGAAGGTAAGATCTGTTGTATTCAACCAGCTCTGCTACAATCGAGAGATGCAAGGTTTGTGTC
1 CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
**
11157374 TTCAATCTGCTTCGCTGTCAATG
66 TTTGATCTGCTTCGCTGTCAATG
*
11157397 CAAGAAGGCAAGATCTG
1 CAGGAAGGCAAGATCTG
11157414 GTAACTTCAT
Statistics
Matches: 656, Mismatches: 65, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 656 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (88 bp):
CAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTTTGTGTC
TTTGATCTGCTTCGCTGTCAATG
Found at i:11158612 original size:9 final size:10
Alignment explanation
Indices: 11158592--11158616 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11158582 CCATTTTTAC
11158592 TTTTTCATTT
1 TTTTTCATTT
11158602 TTTTTCATTT
1 TTTTTCATTT
11158612 TTTTT
1 TTTTT
11158617 GGTTTGACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:11159450 original size:11 final size:11
Alignment explanation
Indices: 11159434--11159483 Score: 82
Period size: 11 Copynumber: 4.5 Consensus size: 11
11159424 TTGACTTTGA
*
11159434 TTTTTTTGATT
1 TTTTTTTGTTT
11159445 TTTTTTTGTTT
1 TTTTTTTGTTT
11159456 TTTTTTTGTTT
1 TTTTTTTGTTT
11159467 TTATTTTTGTTT
1 TT-TTTTTGTTT
11159479 TTTTT
1 TTTTT
11159484 AGTCTAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
11 26 0.70
12 11 0.30
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:11159460 original size:23 final size:23
Alignment explanation
Indices: 11159434--11159483 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
11159424 TTGACTTTGA
11159434 TTTTTTTGATTTT-TTTTTGTTT
1 TTTTTTTGATTTTATTTTTGTTT
*
11159456 TTTTTTTGTTTTTATTTTTGTTT
1 TTTTTTTGATTTTATTTTTGTTT
11159479 TTTTT
1 TTTTT
11159484 AGTCTAAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.04, C:0.00, G:0.08, T:0.88
Consensus pattern (23 bp):
TTTTTTTGATTTTATTTTTGTTT
Found at i:11163668 original size:14 final size:13
Alignment explanation
Indices: 11163645--11163692 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
11163635 AATTCAAAGT
11163645 AAATAATAATTTA
1 AAATAATAATTTA
11163658 AAATAAATAATTTA
1 AAAT-AATAATTTA
* * *
11163672 CAACAACAATTTA
1 AAATAATAATTTA
11163685 AAA-AATAA
1 AAATAATAA
11163693 ATAATAAAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 4 0.14
13 14 0.48
14 11 0.38
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATAATAATTTA
Found at i:11166718 original size:12 final size:12
Alignment explanation
Indices: 11166703--11166734 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
11166693 ATTAGATTAT
11166703 TTATTATTATTG
1 TTATTATTATTG
11166715 TTATTATTATTG
1 TTATTATTATTG
11166727 TT-TTATTA
1 TTATTATTA
11166735 GGCAAATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (12 bp):
TTATTATTATTG
Found at i:11167098 original size:9 final size:9
Alignment explanation
Indices: 11167081--11167117 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11167071 TGAGTTTTCG
11167081 AATTCGAAT
1 AATTCGAAT
*
11167090 AACTCGAAT
1 AATTCGAAT
11167099 AATTCGAAT
1 AATTCGAAT
11167108 AATTCGAAT
1 AATTCGAAT
11167117 A
1 A
11167118 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:11169975 original size:5 final size:5
Alignment explanation
Indices: 11169967--11170005 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
11169957 AGTTAAGTTA
11169967 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
11170006 AAAGAAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:11170997 original size:25 final size:25
Alignment explanation
Indices: 11170969--11171071 Score: 131
Period size: 25 Copynumber: 4.2 Consensus size: 25
11170959 TTTAGCGCGT
11170969 TCTCTGATTATTAGCACGTTGGTGC
1 TCTCTGATTATTAGCACGTTGGTGC
*
11170994 TCTCTGATTATTAGCATGTTGGTGC
1 TCTCTGATTATTAGCACGTTGGTGC
* **
11171019 TCTCTGATTACTAGCACGTCAGTGC
1 TCTCTGATTATTAGCACGTTGGTGC
* *
11171044 TCTCTG--T-TTAGCACATTTGTGC
1 TCTCTGATTATTAGCACGTTGGTGC
11171066 TCTCTG
1 TCTCTG
11171072 TATAGCACTT
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
22 17 0.25
23 1 0.01
25 51 0.74
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.41
Consensus pattern (25 bp):
TCTCTGATTATTAGCACGTTGGTGC
Found at i:11171044 original size:50 final size:48
Alignment explanation
Indices: 11170969--11171101 Score: 148
Period size: 50 Copynumber: 2.8 Consensus size: 48
11170959 TTTAGCGCGT
** **
11170969 TCTCTGATTATTAGCACGTTGGTGCTCTCTGATTATTAGCATGTTGGTGC
1 TCTCTGATTA-TAGCACGTCAGTGCTCTCTG-TTATTAGCACATTGGTGC
*
11171019 TCTCTGATTACTAGCACGTCAGTGCTCTCTG-T-TTAGCACATTTGTGC
1 TCTCTGATTA-TAGCACGTCAGTGCTCTCTGTTATTAGCACATTGGTGC
*
11171066 TCTCTG--TATAGCACTTCAGTGCTCTCTGTTCATTAG
1 TCTCTGATTATAGCACGTCAGTGCTCTCTGTT-ATTAG
11171102 TGCATAACAA
Statistics
Matches: 73, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
44 19 0.26
45 3 0.04
47 22 0.30
48 1 0.01
50 28 0.38
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (48 bp):
TCTCTGATTATAGCACGTCAGTGCTCTCTGTTATTAGCACATTGGTGC
Found at i:11171065 original size:22 final size:22
Alignment explanation
Indices: 11171015--11171095 Score: 92
Period size: 22 Copynumber: 3.5 Consensus size: 22
11171005 TAGCATGTTG
*
11171015 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTG-TT--TAGCACTTCA
*
11171040 GTGCTCTCTGTTTAGCACATT-T
1 GTGCTCTCTGTTTAGCAC-TTCA
*
11171062 GTGCTCTCTGTATAGCACTTCA
1 GTGCTCTCTGTTTAGCACTTCA
11171084 GTGCTCTCTGTT
1 GTGCTCTCTGTT
11171096 CATTAGTGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
21 2 0.04
22 34 0.69
23 1 0.02
24 2 0.04
25 10 0.20
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.40
Consensus pattern (22 bp):
GTGCTCTCTGTTTAGCACTTCA
Found at i:11180595 original size:44 final size:44
Alignment explanation
Indices: 11180532--11180617 Score: 163
Period size: 44 Copynumber: 2.0 Consensus size: 44
11180522 ATTGTTTTTG
*
11180532 AGGTTGAAAAAATTCCAACTAAAGTTTAATCCAGTAAAATGTTA
1 AGGTTGAAAAAATTCCAACTAAAGCTTAATCCAGTAAAATGTTA
11180576 AGGTTGAAAAAATTCCAACTAAAGCTTAATCCAGTAAAATGT
1 AGGTTGAAAAAATTCCAACTAAAGCTTAATCCAGTAAAATGT
11180618 ACCTTCGGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (44 bp):
AGGTTGAAAAAATTCCAACTAAAGCTTAATCCAGTAAAATGTTA
Found at i:11182580 original size:17 final size:17
Alignment explanation
Indices: 11182558--11182594 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
11182548 AACTAAAAGC
11182558 TATCTGTCATGGTCAGA
1 TATCTGTCATGGTCAGA
11182575 TATCTGTCATGGTCAGA
1 TATCTGTCATGGTCAGA
11182592 TAT
1 TAT
11182595 ACCAAAAACG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (17 bp):
TATCTGTCATGGTCAGA
Found at i:11183800 original size:44 final size:44
Alignment explanation
Indices: 11183737--11184291 Score: 562
Period size: 44 Copynumber: 12.6 Consensus size: 44
11183727 TCGTGGCGAG
* *
11183737 TCTTATCTC-CTTGAAGTTGCAGTGGAGCAGATTAAAGTTATAAA
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * *
11183781 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTAAACCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * *
11183825 TCTTATCT-TCCTGAAGTTGCAATGGAGCAAATTAAAGCCACAAA
1 TCTTATCTCT-CTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * * *
11183869 TCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTCAAGATAGTAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAA
* * *
11183914 TCTTATCTCTCAGAATTTGCAGTAGAGCAGATTAAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * *
11183958 TTTTATCTCCCTG-AGTTGCAGTGAAGCAGATTGAAGATAGCAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAA
* * * *
11184002 TCTTATCTTTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * *
11184046 TTTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAA
* * *
11184091 TCTTATCACTCTGAAGTTGTAGTAGAGCAGATTAAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
*
11184135 TCTTATCTCTTTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * *
11184179 TCTTATCTCCCTGAAATTGCAGTGGAGTAGATTGAAGATACAAA
1 TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
* * * * * *
11184223 TCTTATTTC-CTTGAAGATGTAGTGGAGTAGATTGAAA-TTACAAT
1 TCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATT-AAAGCTACAAA
* * * *
11184267 TCCTATATCCCTGAAGTTGTAGTGG
1 TCTTATCTCTCTGAAGTTGCAGTGG
11184292 GTTAGACTGA
Statistics
Matches: 422, Mismatches: 79, Indels: 20
0.81 0.15 0.04
Matches are distributed among these distances:
43 23 0.05
44 302 0.72
45 97 0.23
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (44 bp):
TCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAA
Found at i:11184257 original size:177 final size:177
Alignment explanation
Indices: 11183748--11184258 Score: 682
Period size: 177 Copynumber: 2.9 Consensus size: 177
11183738 CTTATCTCCT
* * * * *
11183748 TGAAGTTGCAGTGGAGCAGATTAAAGTTATAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAGAT
1 TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
* * * *
11183813 TAAACCTACAAATCTTATCTTCCTGAAGTTGCAATGGAGCAAATTAAAGCCACAAATCTTATCTC
66 TAAAGCTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTC
* * * *
11183878 CCTAAAGTTGTAGTGGAGCAGATTCAAGATAGTAAATCTTATCTCTC
131 CCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCACTC
* * * * *
11183925 AGAATTTGCAGTAGAGCAGATTAAAGCTACAAATTTTATCTCCCTG-AGTTGCAGTGAAGCAGAT
1 TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
* * * * * * *
11183989 TGAAGATAGCAAATCTTATCTTTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAATTTTATCT
66 TAAAGCTA-CAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCT
11184054 CCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCACTC
130 CCCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCACTC
* *
11184102 TGAAGTTGTAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTTTGAAGTTGCAGTGGAGCAGAT
1 TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
* * * * * *
11184167 TAAAGCTACAAATCTTATCTCCCTGAAATTGCAGTGGAGTAGATTGAAGATACAAATCTTATTTC
66 TAAAGCTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTC
* * *
11184232 CTTGAAGATGTAGTGGAGTAGATTGAA
131 CCTGAAGTTGTAGTGGAGCAGATTGAA
11184259 ATTACAATTC
Statistics
Matches: 284, Mismatches: 48, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
176 20 0.07
177 241 0.85
178 23 0.08
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (177 bp):
TGAAGTTGCAGTAGAGCAGATTAAAGCTACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGAT
TAAAGCTACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTC
CCTGAAGTTGTAGTGGAGCAGATTGAAGATAGCAAATCTTATCACTC
Found at i:11185102 original size:13 final size:13
Alignment explanation
Indices: 11185043--11185102 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
11185033 CCAAGTACTT
11185043 TTTATATTTAAAAA
1 TTTATATTT-AAAA
* *
11185057 GTAATATTTAAAA
1 TTTATATTTAAAA
11185070 TTTATACTTTAAAA
1 TTTATA-TTTAAAA
11185084 ---ATATTTAAAA
1 TTTATATTTAAAA
11185094 TTTATATTT
1 TTTATATTT
11185103 CATATATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
10 7 0.18
11 3 0.08
13 14 0.37
14 14 0.37
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (13 bp):
TTTATATTTAAAA
Found at i:11192300 original size:29 final size:29
Alignment explanation
Indices: 11192245--11192300 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
11192235 TTTTTTCTTT
*
11192245 TTAATAATAAAAGGACTAAATTGATCAAC
1 TTAATAATAAAAGGACTAAATTAATCAAC
* *
11192274 TTAATAATAAAATGACTAATTTAATCA
1 TTAATAATAAAAGGACTAAATTAATCA
11192301 TGTCCCTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (29 bp):
TTAATAATAAAAGGACTAAATTAATCAAC
Found at i:11192770 original size:17 final size:16
Alignment explanation
Indices: 11192733--11192769 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
11192723 AAAACCAAGA
11192733 TTTTTACAACATGCAT
1 TTTTTACAACATGCAT
* *
11192749 TTTTTACAATATTCAT
1 TTTTTACAACATGCAT
11192765 TTTTT
1 TTTTT
11192770 TTTCATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.14, G:0.03, T:0.57
Consensus pattern (16 bp):
TTTTTACAACATGCAT
Found at i:11195631 original size:33 final size:33
Alignment explanation
Indices: 11195556--11195670 Score: 81
Period size: 33 Copynumber: 3.5 Consensus size: 33
11195546 ATAGTCCAAC
* * *
11195556 TATGGTCTTACACATGCATTGCCATGACCCTGT
1 TATGGTCTTACACATGCAGTGCCATAACCCAGT
* * ** *
11195589 CATGATCTTACATTTGTAGTGCCATAACCCAGT
1 TATGGTCTTACACATGCAGTGCCATAACCCAGT
* * **
11195622 TATGGTCTTATCATCA-G-AATGCCATAGCCCAAC
1 TATGGTCTTA-CA-CATGCAGTGCCATAACCCAGT
*
11195655 TATGGTTTTACACATG
1 TATGGTCTTACACATG
11195671 TATCTATACT
Statistics
Matches: 62, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
31 2 0.03
32 3 0.05
33 54 0.87
34 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (33 bp):
TATGGTCTTACACATGCAGTGCCATAACCCAGT
Found at i:11205332 original size:18 final size:18
Alignment explanation
Indices: 11205311--11205752 Score: 110
Period size: 18 Copynumber: 24.6 Consensus size: 18
11205301 GAAAATTTTT
* *
11205311 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAGAA
11205329 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAGAA
*
11205347 --TTTGTAAACACGA-ATA
1 TTTTTGAAAACACGAGA-A
* *
11205363 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
11205380 TTTTTGGAAAAAAACGA-AA
1 TTTTT-G-AAAACACGAGAA
* * *
11205399 TTTTCTTAAAACACGACATTTT
1 TTTT-TGAAAACACGAGA---A
*
11205421 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAGAA
* * *
11205438 TTTTT-AAAACAAGACATT
1 TTTTTGAAAACACGAGA-A
11205456 TTTTTG-AAACA--A-AA
1 TTTTTGAAAACACGAGAA
* *
11205470 TTTTTTCTTAAAA-A--AAAA
1 --TTTT-TGAAAACACGAGAA
* *
11205488 ATTTT--AAATACGAGAA
1 TTTTTGAAAACACGAGAA
*
11205504 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
11205521 TTTTT-AAAACACGGAAATA
1 TTTTTGAAAACAC-GAGA-A
* *
11205540 TTTTTTTTTAAAACACGAAAA
1 ---TTTTTGAAAACACGAGAA
* *
11205561 TTTTTTTTTTGAAAACAAGAAAA
1 -----TTTTTGAAAACACGAGAA
*
11205584 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAGAA
11205601 -TTTTGAAAACACGA-AGA
1 TTTTTGAAAACACGAGA-A
*
11205618 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACACGAGAA
*
11205635 TTTTT-AAAAGCACGAGGA
1 TTTTTGAAAA-CACGAGAA
* *
11205653 TTATTGAAAGCACGA-AGA
1 TTTTTGAAAACACGAGA-A
* * *
11205671 TTTAT-AAAAAACGACAA
1 TTTTTGAAAACACGAGAA
*
11205688 TTTTTG-AAATACGAGAAA
1 TTTTTGAAAACACGAG-AA
* * *
11205706 TTTTT-TAAACGCGAAAA
1 TTTTTGAAAACACGAGAA
** *
11205723 TTTTTTTCAAACACGAAAA
1 -TTTTTGAAAACACGAGAA
*
11205742 CTTTTGAAAAC
1 TTTTTGAAAAC
11205753 GCGAAAATTC
Statistics
Matches: 327, Mismatches: 51, Indels: 92
0.70 0.11 0.20
Matches are distributed among these distances:
13 3 0.01
14 1 0.00
15 3 0.01
16 34 0.10
17 102 0.31
18 106 0.32
19 21 0.06
20 16 0.05
21 2 0.01
22 13 0.04
23 26 0.08
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAA
Done.