Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 1 of 91
Found at i:52 original size:11 final size:11
Alignment explanation
Indices: 36--187 Score: 50
Period size: 11 Copynumber: 14.3 Consensus size: 11
26 ATTTCTAAAG
36 ATTTTTAAGGT
1 ATTTTTAAGGT
* *
47 ATTTTT-GGGA
1 ATTTTTAAGGT
*
57 ATTTTTAAGGA
1 ATTTTTAAGGT
* *
68 ATTTTT--TGA
1 ATTTTTAAGGT
*
77 ATTTTTGAGGT
1 ATTTTTAAGGT
* *
88 -TTTGTAAGTT
1 ATTTTTAAGGT
*
98 ATTTTTAAAAG-
1 ATTTTT-AAGGT
*
109 ATTTTTAAAGT
1 ATTTTTAAGGT
* *
120 A-TTTTAAAGC
1 ATTTTTAAGGT
* *
130 ATATTTAAGAT
1 ATTTTTAAGGT
* * *
141 TTTTTTCA-TT
1 ATTTTTAAGGT
*
151 GATTTTTAA-GC
1 -ATTTTTAAGGT
162 ATTTTTAAGGT
1 ATTTTTAAGGT
*
173 CTTTTTAAGGAT
1 ATTTTTAAGG-T
185 ATT
1 ATT
188 AAACATTTTT
Statistics
Matches: 103, Mismatches: 28, Indels: 19
0.69 0.19 0.13
Matches are distributed among these distances:
9 8 0.08
10 37 0.36
11 53 0.51
12 5 0.05
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (11 bp):
ATTTTTAAGGT
Found at i:60 original size:21 final size:20
Alignment explanation
Indices: 36--87 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
26 ATTTCTAAAG
36 ATTTTTAAGGTATTTTTGGGA
1 ATTTTTAAGGTATTTTT-GGA
* *
57 ATTTTTAAGGAATTTTTTGA
1 ATTTTTAAGGTATTTTTGGA
*
77 ATTTTTGAGGT
1 ATTTTTAAGGT
88 TTTGTAAGTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (20 bp):
ATTTTTAAGGTATTTTTGGA
Found at i:657 original size:19 final size:19
Alignment explanation
Indices: 585--657 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
575 AATTTGAAGA
585 ATTTTTTATGTTTTTAAAG
1 ATTTTTTATGTTTTTAAAG
* * *
604 CATTTTTAATTTTTTTAATG
1 -ATTTTTTATGTTTTTAAAG
** *
624 ATTTTTTACAATTTTAAAAG
1 ATTTTTTA-TGTTTTTAAAG
*
644 ATTTTTTAGGTTTT
1 ATTTTTTATGTTTT
658 GTAGGGTTTT
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
19 11 0.26
20 31 0.74
ACGTcount: A:0.27, C:0.03, G:0.08, T:0.62
Consensus pattern (19 bp):
ATTTTTTATGTTTTTAAAG
Found at i:720 original size:31 final size:30
Alignment explanation
Indices: 697--761 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
687 TTTAATTATG
697 TTTAATGTCA-TTCTAAGCATTTTTAAGGTTT
1 TTTAATGT-ATTTCTAAGCATTTTTAA-GTTT
*
728 TTTAATGTATTTCTAAGGATTTTTAAGATTT
1 TTTAATGTATTTCTAAGCATTTTTAAG-TTT
759 TTT
1 TTT
762 TGAGGATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.55
Consensus pattern (30 bp):
TTTAATGTATTTCTAAGCATTTTTAAGTTT
Found at i:739 original size:21 final size:19
Alignment explanation
Indices: 710--815 Score: 59
Period size: 21 Copynumber: 5.2 Consensus size: 19
700 AATGTCATTC
*
710 TAAGCATTTTTAAGGTTTTT
1 TAAG-ATTTTTAAGGATTTT
*
730 TAATGTATTTCTAAGGATTTT
1 TAA-G-ATTTTTAAGGATTTT
*
751 TAAGATTTTTTTGAGGATTTT
1 TAAGA--TTTTTAAGGATTTT
* * * *
772 CAAGGAATATTATGGATTTT
1 TAA-GATTTTTAAGGATTTT
* *
792 TAAGGTTTTGTAAGTTATTTT
1 TAAGATTTT-TAAG-GATTTT
813 TAA
1 TAA
816 AAGACTTTTA
Statistics
Matches: 64, Mismatches: 16, Indels: 11
0.70 0.18 0.12
Matches are distributed among these distances:
19 4 0.06
20 19 0.30
21 39 0.61
22 2 0.03
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (19 bp):
TAAGATTTTTAAGGATTTT
Found at i:1049 original size:21 final size:21
Alignment explanation
Indices: 1025--1080 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
1015 TTAAATGATT
1025 TTTAGGGTCTTTTTAAGAATG
1 TTTAGGGTCTTTTTAAGAATG
* * * *
1046 TTTAAGGTCTCTTTAAGCATT
1 TTTAGGGTCTTTTTAAGAATG
* *
1067 TTTAGAGTTTTTTT
1 TTTAGGGTCTTTTT
1081 TAATGGATTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.07, G:0.18, T:0.54
Consensus pattern (21 bp):
TTTAGGGTCTTTTTAAGAATG
Found at i:1189 original size:10 final size:10
Alignment explanation
Indices: 1169--1215 Score: 53
Period size: 11 Copynumber: 4.6 Consensus size: 10
1159 TTTGTATGTT
1169 ATTTTTGAAAG
1 ATTTTT-AAAG
1180 ATTTTTAAAG
1 ATTTTTAAAG
1190 -TCTTTTAAAG
1 AT-TTTTAAAG
1200 TATTTTTAAAG
1 -ATTTTTAAAG
1211 -TTTTT
1 ATTTTT
1216 TTATGGAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
9 6 0.18
10 12 0.36
11 14 0.42
12 1 0.03
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (10 bp):
ATTTTTAAAG
Found at i:1195 original size:21 final size:21
Alignment explanation
Indices: 1171--1216 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1161 TGTATGTTAT
1171 TTTTGAAAG-ATTTTTAAAGTC
1 TTTT-AAAGTATTTTTAAAGTC
*
1192 TTTTAAAGTATTTTTAAAGTT
1 TTTTAAAGTATTTTTAAAGTC
1213 TTTT
1 TTTT
1217 TATGGAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (21 bp):
TTTTAAAGTATTTTTAAAGTC
Found at i:1216 original size:10 final size:10
Alignment explanation
Indices: 1170--1216 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
1160 TTGTATGTTA
*
1170 TTTTTGAAAG
1 TTTTTTAAAG
*
1180 ATTTTTAAAG
1 TTTTTTAAAG
*
1190 TCTTTTAAAG
1 TTTTTTAAAG
1200 TATTTTTAAAG
1 T-TTTTTAAAG
1211 TTTTTT
1 TTTTTT
1217 TATGGAGTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 22 0.71
11 9 0.29
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (10 bp):
TTTTTTAAAG
Found at i:1563 original size:10 final size:10
Alignment explanation
Indices: 1549--1627 Score: 54
Period size: 10 Copynumber: 7.6 Consensus size: 10
1539 CTTTTAAAAC
1549 ATTTTTAAGG
1 ATTTTTAAGG
* *
1559 TTTTTTTCATGG
1 -ATTTTT-AAGG
*
1571 ATTTTTAAGC
1 ATTTTTAAGG
1581 ATTTTTAAGG
1 ATTTTTAAGG
1591 -TCCTTTTAAGG
1 AT--TTTTAAGG
*
1602 ATATTTAAGG
1 ATTTTTAAGG
*
1612 CTTTTT-AGAG
1 ATTTTTAAG-G
1622 ATTTTT
1 ATTTTT
1628 CGAGGAATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 11
0.72 0.14 0.15
Matches are distributed among these distances:
9 3 0.06
10 28 0.53
11 18 0.34
12 4 0.08
ACGTcount: A:0.24, C:0.06, G:0.16, T:0.53
Consensus pattern (10 bp):
ATTTTTAAGG
Found at i:1597 original size:21 final size:19
Alignment explanation
Indices: 1573--1627 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
1563 TTTCATGGAT
1573 TTTTAAGCATTTTTAAGGTCC
1 TTTTAAG-ATTTTTAAGG-CC
* *
1594 TTTTAAGGATATTTAAGGCT
1 TTTTAA-GATTTTTAAGGCC
1614 TTTTAGAGATTTTT
1 TTTTA-AGATTTTT
1628 CGAGGAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 12 0.41
21 16 0.55
22 1 0.03
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.51
Consensus pattern (19 bp):
TTTTAAGATTTTTAAGGCC
Found at i:1918 original size:32 final size:32
Alignment explanation
Indices: 1872--1954 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 32
1862 ATTTTTGAAG
*
1872 TTTTGTAAGTTATTTTTAAATGATTTT-TATTGT-C
1 TTTTG-AAG-TATTTTTAAA-GATTTTAT-TTGTAA
1906 TTTTGAAGTA-TTTTAAAGATTTTATTTGTAGA
1 TTTTGAAGTATTTTTAAAGATTTTATTTGTA-A
*
1938 TTTTTAAGTATTTTTAA
1 TTTTGAAGTATTTTTAA
1955 GGTCTTTTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
30 10 0.23
31 8 0.19
32 11 0.26
33 9 0.21
34 5 0.12
ACGTcount: A:0.28, C:0.01, G:0.12, T:0.59
Consensus pattern (32 bp):
TTTTGAAGTATTTTTAAAGATTTTATTTGTAA
Found at i:2271 original size:21 final size:22
Alignment explanation
Indices: 2234--2280 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
2224 TGTAAGTTAT
2234 TTTTAAAAGATTCTTAAAG-TC
1 TTTTAAAAGATTCTTAAAGTTC
* *
2255 TTTT-AAAGCATTTTTAAGGTTC
1 TTTTAAAAG-ATTCTTAAAGTTC
2277 TTTT
1 TTTT
2281 CATGGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 4 0.18
21 12 0.55
22 6 0.27
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.51
Consensus pattern (22 bp):
TTTTAAAAGATTCTTAAAGTTC
Found at i:2278 original size:22 final size:22
Alignment explanation
Indices: 2253--2294 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2243 ATTCTTAAAG
2253 TCTTTTAAAGCATTTTTAAGGT
1 TCTTTTAAAGCATTTTTAAGGT
* * *
2275 TCTTTTCATGGATTTTTAAG
1 TCTTTTAAAGCATTTTTAAG
2295 CATTTGTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (22 bp):
TCTTTTAAAGCATTTTTAAGGT
Found at i:2454 original size:10 final size:10
Alignment explanation
Indices: 2439--2567 Score: 54
Period size: 10 Copynumber: 12.9 Consensus size: 10
2429 TTATATCACC
2439 TTTTTAAGGA
1 TTTTTAAGGA
2449 TTTTTAA-GA
1 TTTTTAAGGA
*
2458 TCTTTTTAGAGA
1 T-TTTTAAG-GA
*
2470 TGTTTAAGG-
1 TTTTTAAGGA
*
2479 TCATTTTAAGCA
1 T--TTTTAAGGA
**
2491 TTTTTATTG-
1 TTTTTAAGGA
*
2500 TTTTT--GTA
1 TTTTTAAGGA
*
2508 TTTTTAATGA
1 TTTTTAAGGA
*
2518 TTTTAAAGGTA
1 TTTTTAAGG-A
* *
2529 TTTTCAAAGA
1 TTTTTAAGGA
*
2539 TTTTAAAGGA
1 TTTTTAAGGA
*
2549 ATTTTATA-GA
1 TTTTTA-AGGA
2559 TTTTTAAGG
1 TTTTTAAGG
2568 TTTGGTAAGT
Statistics
Matches: 86, Mismatches: 21, Indels: 24
0.66 0.16 0.18
Matches are distributed among these distances:
8 5 0.06
9 10 0.12
10 47 0.55
11 20 0.23
12 4 0.05
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (10 bp):
TTTTTAAGGA
Found at i:2462 original size:21 final size:21
Alignment explanation
Indices: 2438--2496 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
2428 TTTATATCAC
2438 CTTTTTAAGGATTTTTAAGAT
1 CTTTTTAAGGATTTTTAAGAT
* *
2459 CTTTTT-AGAGATGTTTAAGGT
1 CTTTTTAAG-GATTTTTAAGAT
* *
2480 CATTTTAAGCATTTTTA
1 CTTTTTAAGGATTTTTA
2497 TTGTTTTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (21 bp):
CTTTTTAAGGATTTTTAAGAT
Found at i:2531 original size:21 final size:21
Alignment explanation
Indices: 2505--2568 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
2495 TATTGTTTTT
* *
2505 GTATTTTTAATGATTTTAAAG
1 GTATTTTCAAAGATTTTAAAG
2526 GTATTTTCAAAGATTTTAAAG
1 GTATTTTCAAAGATTTTAAAG
* * *
2547 GAATTTT-ATAGATTTTTAAG
1 GTATTTTCAAAGATTTTAAAG
2567 GT
1 GT
2569 TTGGTAAGTT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 12 0.32
21 25 0.68
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (21 bp):
GTATTTTCAAAGATTTTAAAG
Found at i:2894 original size:21 final size:20
Alignment explanation
Indices: 2855--2899 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
2845 TTTTTATAGA
**
2855 TTTTT-AAGGATTTTTAAGG
1 TTTTTGAAGGATTTGCAAGG
2874 TCTTTTGAAGGATTTGCAAGG
1 T-TTTTGAAGGATTTGCAAGG
2895 TTTTT
1 TTTTT
2900 ATAGAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 8 0.36
21 13 0.59
ACGTcount: A:0.22, C:0.04, G:0.22, T:0.51
Consensus pattern (20 bp):
TTTTTGAAGGATTTGCAAGG
Found at i:3114 original size:21 final size:20
Alignment explanation
Indices: 3088--3126 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
3078 AGCTATTTTT
*
3088 ATTTTTTAGTGATTTTTTACA
1 ATTTTTTAG-GATATTTTACA
3109 ATTTTTTAGGATATTTTA
1 ATTTTTTAGGATATTTTA
3127 GATTTTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.62
Consensus pattern (20 bp):
ATTTTTTAGGATATTTTACA
Found at i:3582 original size:52 final size:52
Alignment explanation
Indices: 3526--3633 Score: 130
Period size: 52 Copynumber: 2.1 Consensus size: 52
3516 TTTTAAGGTC
* *
3526 TTTTTAAGAATGTTTAAGATCA-TTCTAAGCATTTTTAA-TGTTTTTATATGAA
1 TTTTTAAGAATGTTTAAGATCATTTC-AAGCATTTTTAAGGGTTTTCAT-TGAA
* * * *
3578 TTTTTAAGTATTTTTAAGGTCATTTCAAGGATTTTTAAGGGTTTTCATTGAA
1 TTTTTAAGAATGTTTAAGATCATTTCAAGCATTTTTAAGGGTTTTCATTGAA
3630 TTTT
1 TTTT
3634 AATTTTTTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
52 38 0.79
53 10 0.21
ACGTcount: A:0.29, C:0.06, G:0.14, T:0.52
Consensus pattern (52 bp):
TTTTTAAGAATGTTTAAGATCATTTCAAGCATTTTTAAGGGTTTTCATTGAA
Found at i:3820 original size:20 final size:19
Alignment explanation
Indices: 3793--3839 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
3783 TTTTCAAGGG
**
3793 ATTTTTATTTTTTTTAATT
1 ATTTTTATAATTTTTAATT
3812 ATTTATTATAATTTTTAATT
1 ATTT-TTATAATTTTTAATT
3832 AATTTTTA
1 -ATTTTTA
3840 GGTTTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 4 0.17
20 16 0.67
21 4 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTATAATTTTTAATT
Found at i:3920 original size:9 final size:10
Alignment explanation
Indices: 3907--4034 Score: 66
Period size: 10 Copynumber: 12.5 Consensus size: 10
3897 TTTAAGGTTT
*
3907 TTTTTATAGA
1 TTTTTAAAGA
3917 TTTTTAAAGA
1 TTTTTAAAGA
* *
3927 TTTTTAAGGT
1 TTTTTAAAGA
*
3937 TTTTTCAAGGA
1 TTTTT-AAAGA
*
3948 TTTTTAAGGAA
1 TTTTTAAAG-A
* **
3959 TTTTGATGGA
1 TTTTTAAAGA
*
3969 TTTTT-AAGG
1 TTTTTAAAGA
3978 TTTTGT-AAGTTA
1 TTTT-TAAAG--A
3990 TTTTTAAAAGA
1 TTTTT-AAAGA
*
4001 TTTTTTAAG-
1 TTTTTAAAGA
4010 TTTTTAAAGCA
1 TTTTTAAAG-A
*
4021 TTTTT-TAGA
1 TTTTTAAAGA
4030 TTTTT
1 TTTTT
4035 TCATGAATTT
Statistics
Matches: 95, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
9 19 0.20
10 40 0.42
11 29 0.31
12 4 0.04
13 3 0.03
ACGTcount: A:0.28, C:0.02, G:0.15, T:0.55
Consensus pattern (10 bp):
TTTTTAAAGA
Found at i:3941 original size:21 final size:21
Alignment explanation
Indices: 3917--3981 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
3907 TTTTTATAGA
*
3917 TTTTT-AAAGATTTTTAAGGT
1 TTTTTCAAGGATTTTTAAGGT
*
3937 TTTTTCAAGGATTTTTAAGGA
1 TTTTTCAAGGATTTTTAAGGT
* * *
3958 ATTTTGATGGATTTTTAAGGT
1 TTTTTCAAGGATTTTTAAGGT
3979 TTT
1 TTT
3982 GTAAGTTATT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
20 5 0.14
21 32 0.86
ACGTcount: A:0.26, C:0.02, G:0.18, T:0.54
Consensus pattern (21 bp):
TTTTTCAAGGATTTTTAAGGT
Found at i:3941 original size:42 final size:41
Alignment explanation
Indices: 3895--4016 Score: 99
Period size: 42 Copynumber: 2.9 Consensus size: 41
3885 ACTCTAAGCA
3895 TTTTTAAGGTTTTTTTTATAGATTTTTAAAGATTTTTAAGGT
1 TTTTTAAGGTTTTTTTTA-AGATTTTTAAAGATTTTTAAGGT
* * **
3937 TTTTTCAAGG--ATTTTTAAGGAATTTTGATGGATTTTTAAGGT
1 TTTTT-AAGGTTTTTTTTAA-G-ATTTTTAAAGATTTTTAAGGT
* * *
3979 TTTGTAA-GTTATTTTTAAAAGATTTTTTAAG-TTTTTAA
1 TTTTTAAGGTT-TTTTT-TAAGATTTTTAAAGATTTTTAA
4017 AGCATTTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 15
0.70 0.12 0.17
Matches are distributed among these distances:
40 2 0.03
41 16 0.26
42 33 0.53
43 9 0.15
44 2 0.03
ACGTcount: A:0.28, C:0.01, G:0.16, T:0.56
Consensus pattern (41 bp):
TTTTTAAGGTTTTTTTTAAGATTTTTAAAGATTTTTAAGGT
Found at i:3950 original size:31 final size:31
Alignment explanation
Indices: 3890--4070 Score: 115
Period size: 31 Copynumber: 5.7 Consensus size: 31
3880 TGGTAACTCT
3890 AAGCATTTTTAAGGTTTTTTTTATA-GATTTTTA
1 AAGCATTTTTAAGG--TTTTTTA-AGGATTTTTA
3923 AAG-ATTTTTAAGGTTTTTTCAAGGATTTTTA
1 AAGCATTTTTAAGGTTTTTT-AAGGATTTTTA
* * * * *
3954 AGGAATTTTGATGGATTTTTAAGG-TTTTGT-
1 AAGCATTTTTAAGGTTTTTTAAGGATTTT-TA
* *
3984 AAGTTATTTTTAAAAGATTTTTTAA-G-TTTTTA
1 AAG-CATTTTT--AAGGTTTTTTAAGGATTTTTA
* * * *
4016 AAGCATTTTTTAGATTTTTTCATGAATTTTT-
1 AAGCATTTTTAAGGTTTTTT-AAGGATTTTTA
*
4047 AAGCATTTTTAAGGTCTTTGTAAG
1 AAGCATTTTTAAGGT-TTTTTAAG
4071 AAAACTTAAA
Statistics
Matches: 118, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
29 9 0.08
30 14 0.12
31 43 0.36
32 40 0.34
33 12 0.10
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.53
Consensus pattern (31 bp):
AAGCATTTTTAAGGTTTTTTAAGGATTTTTA
Found at i:3992 original size:21 final size:20
Alignment explanation
Indices: 3907--3996 Score: 76
Period size: 21 Copynumber: 4.3 Consensus size: 20
3897 TTTAAGGTTT
* *
3907 TTTTTATAGATTTT-TAAAGA
1 TTTTTA-AGGTTTTGTAAGGA
*
3927 TTTTTAAGGTTTTTTCAAGGA
1 TTTTTAAGGTTTTGT-AAGGA
*
3948 TTTTTAAGGAATTTTG-ATGGA
1 TTTTTAAGG--TTTTGTAAGGA
*
3969 TTTTTAAGGTTTTGTAAGTTA
1 TTTTTAAGGTTTTGTAAG-GA
3990 TTTTTAA
1 TTTTTAA
3997 AAGATTTTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
19 11 0.19
20 9 0.16
21 34 0.59
23 4 0.07
ACGTcount: A:0.28, C:0.01, G:0.17, T:0.54
Consensus pattern (20 bp):
TTTTTAAGGTTTTGTAAGGA
Found at i:4054 original size:10 final size:9
Alignment explanation
Indices: 3907--4059 Score: 65
Period size: 10 Copynumber: 14.9 Consensus size: 9
3897 TTTAAGGTTT
3907 TTTTTATAGA
1 TTTTTA-AGA
3917 TTTTTAAAGA
1 TTTTT-AAGA
*
3927 TTTTTAAGGT
1 TTTTTAA-GA
3937 TTTTTCAAGGA
1 TTTTT-AA-GA
3948 TTTTTAAGGAA
1 TTTTTAA-G-A
* *
3959 TTTTGATGGA
1 TTTTTA-AGA
*
3969 TTTTTAAGG
1 TTTTTAAGA
3978 TTTTGTAAGTTA
1 TTTT-TAAG--A
3990 TTTTTAAAAGA
1 TTTTT--AAGA
4001 TTTTTTAAG-
1 -TTTTTAAGA
4010 TTTTTAAAGCA
1 TTTTT-AAG-A
*
4021 TTTTTTAGA
1 TTTTTAAGA
*
4030 TTTTTTCATGAA
1 -TTTTT-AAG-A
4042 TTTTTAAGCA
1 TTTTTAAG-A
4052 TTTTTAAG
1 TTTTTAAG
4060 GTCTTTGTAA
Statistics
Matches: 113, Mismatches: 13, Indels: 34
0.71 0.08 0.21
Matches are distributed among these distances:
8 5 0.04
9 11 0.10
10 54 0.48
11 30 0.27
12 10 0.09
13 3 0.03
ACGTcount: A:0.29, C:0.03, G:0.14, T:0.54
Consensus pattern (9 bp):
TTTTTAAGA
Found at i:4334 original size:11 final size:10
Alignment explanation
Indices: 4314--4361 Score: 53
Period size: 10 Copynumber: 4.6 Consensus size: 10
4304 TTTTATGAAA
*
4314 TTTTATAGAT
1 TTTTAAAGAT
4324 TTTTGAAAGAT
1 TTTT-AAAGAT
4335 TTTTAAAG-T
1 TTTTAAAGAT
4344 CTTTTAAAGCAT
1 -TTTTAAAG-AT
4356 TTTTAA
1 TTTTAA
4362 GGTTTTCTCA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
9 1 0.03
10 16 0.48
11 15 0.45
12 1 0.03
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.52
Consensus pattern (10 bp):
TTTTAAAGAT
Found at i:4338 original size:21 final size:19
Alignment explanation
Indices: 4314--4382 Score: 50
Period size: 21 Copynumber: 3.3 Consensus size: 19
4304 TTTTATGAAA
4314 TTTTATAGATTTTTGAAAGAT
1 TTTTATAG-TTTTT-AAAGAT
*
4335 TTTTAAAGTCTTTTAAAGCAT
1 TTTTATAGT-TTTTAAAG-AT
*
4356 TTTTA-AGGTTTTCTCATAGAT
1 TTTTATA-GTTTT-T-AAAGAT
4377 TTTTAT
1 TTTTAT
4383 GCTTTTTTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
20 9 0.22
21 28 0.70
22 3 0.08
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.54
Consensus pattern (19 bp):
TTTTATAGTTTTTAAAGAT
Found at i:4719 original size:10 final size:10
Alignment explanation
Indices: 4706--4822 Score: 51
Period size: 10 Copynumber: 11.4 Consensus size: 10
4696 TTTTAAAACA
*
4706 TTTTAAGGTT
1 TTTTAAGGAT
4716 TTTTCATA-GAT
1 TTTT-A-AGGAT
*
4727 TTTTAAGCAT
1 TTTTAAGGAT
4737 TTTTAAGG-T
1 TTTTAAGGAT
4746 CATTTTAAGGAT
1 --TTTTAAGGAT
* *
4758 ATTTAAGGTT
1 TTTTAAGGAT
*
4768 TTTTTAGAGAT
1 TTTTAAG-GAT
* * *
4779 TTTTCACGAA
1 TTTTAAGGAT
* *
4789 ATGTAACGGAT
1 TTTTAA-GGAT
*
4800 TTTTAATG-T
1 TTTTAAGGAT
*
4809 TTTTAAAGAT
1 TTTTAAGGAT
4819 TTTT
1 TTTT
4823 TAATTTTTTA
Statistics
Matches: 78, Mismatches: 20, Indels: 18
0.67 0.17 0.16
Matches are distributed among these distances:
9 10 0.13
10 38 0.49
11 28 0.36
12 2 0.03
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.51
Consensus pattern (10 bp):
TTTTAAGGAT
Found at i:4751 original size:21 final size:21
Alignment explanation
Indices: 4727--4766 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4717 TTTCATAGAT
*
4727 TTTTAAGCATTTTTAAGGTCA
1 TTTTAAGCATATTTAAGGTCA
*
4748 TTTTAAGGATATTTAAGGT
1 TTTTAAGCATATTTAAGGT
4767 TTTTTTAGAG
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:0.30, C:0.05, G:0.17, T:0.47
Consensus pattern (21 bp):
TTTTAAGCATATTTAAGGTCA
Found at i:4772 original size:21 final size:21
Alignment explanation
Indices: 4726--4773 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
4716 TTTTCATAGA
*
4726 TTTTTAAGCATTTTTAAGGTC
1 TTTTTAAGCATATTTAAGGTC
* * *
4747 ATTTTAAGGATATTTAAGGTT
1 TTTTTAAGCATATTTAAGGTC
4768 TTTTTA
1 TTTTTA
4774 GAGATTTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.27, C:0.04, G:0.15, T:0.54
Consensus pattern (21 bp):
TTTTTAAGCATATTTAAGGTC
Found at i:4858 original size:10 final size:10
Alignment explanation
Indices: 4797--4917 Score: 52
Period size: 10 Copynumber: 12.1 Consensus size: 10
4787 AAATGTAACG
*
4797 GATTTTTAAT
1 GATTTTTAAA
4807 G-TTTTTAAA
1 GATTTTTAAA
*
4816 GATTTTTTAA
1 GATTTTTAAA
* *
4826 -TTTTTTAAT
1 GATTTTTAAA
* *
4835 TATTTATT-AC
1 GATTT-TTAAA
4845 GATTTTTAAA
1 GATTTTTAAA
*
4855 GATTTTT-TA
1 GATTTTTAAA
* **
4864 GGTTTTGTATT
1 GATTTT-TAAA
*
4875 GCTTTTTAAA
1 GATTTTTAAA
4885 TGATTTTTAAA
1 -GATTTTTAAA
* *
4896 GTCTTTTTAAT
1 G-ATTTTTAAA
*
4907 GATGTTTAAA
1 GATTTTTAAA
4917 G
1 G
4918 TCATTTTAAG
Statistics
Matches: 82, Mismatches: 21, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
9 22 0.27
10 35 0.43
11 25 0.30
ACGTcount: A:0.28, C:0.02, G:0.12, T:0.58
Consensus pattern (10 bp):
GATTTTTAAA
Found at i:4907 original size:21 final size:21
Alignment explanation
Indices: 4876--4944 Score: 88
Period size: 21 Copynumber: 3.3 Consensus size: 21
4866 TTTTGTATTG
4876 CTTTTTAAATGATTTTTAAAGT
1 CTTTTT-AATGATTTTTAAAGT
*
4898 CTTTTTAATGATGTTTAAAGT
1 CTTTTTAATGATTTTTAAAGT
*
4919 CATTTTAA-GCATTTTT-AAGT
1 CTTTTTAATG-ATTTTTAAAGT
4939 CTTTTT
1 CTTTTT
4945 TTATGTATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.24
21 26 0.62
22 6 0.14
ACGTcount: A:0.28, C:0.07, G:0.10, T:0.55
Consensus pattern (21 bp):
CTTTTTAATGATTTTTAAAGT
Found at i:5193 original size:20 final size:20
Alignment explanation
Indices: 5151--5193 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
5141 TTTGAAGGAC
***
5151 TTTTAATGTTTTTAATGGTT
1 TTTTAATGTTTTTAATAACT
*
5171 TTTTAATTTTTTTAATAACT
1 TTTTAATGTTTTTAATAACT
5191 TTT
1 TTT
5194 AGGAGTTTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTAATGTTTTTAATAACT
Found at i:5253 original size:10 final size:11
Alignment explanation
Indices: 5227--5258 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
5217 TTTTATATGG
5227 CTTTTTAAAGT
1 CTTTTTAAAGT
*
5238 CTTTTTAAGGT
1 CTTTTTAAAGT
5249 CTTTTTAAAG
1 CTTTTTAAAG
5259 ATGTTTAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.25, C:0.09, G:0.12, T:0.53
Consensus pattern (11 bp):
CTTTTTAAAGT
Found at i:5297 original size:351 final size:348
Alignment explanation
Indices: 4528--5308 Score: 862
Period size: 351 Copynumber: 2.2 Consensus size: 348
4518 TTTGTAAGAT
* * * * *
4528 TTTTTAAAAG-CTTTTTAGGGTATTTTTAAATATGTTTAAGGTCATTTTAAGTATTTTTAATTTT
1 TTTTT-AAAGTCTTTTTAAGGTCTTTTTAAAGATGTTTAAGGTCATTTTAAGCATTTTTAAGTTT
* * ** *
4592 TTTTTATAG-ATTTCTAAGGATTTTTAAGGTCCTTTAAAGGATTTTGAAGGAATTTTATATATTT
65 TTTTTAT-GTATTTCTAAAGATTTTTAAGGTCCTTTAAAGGATTTTCAAAAAAATTTATATATTT
* * * *
4656 TTGAGTTTTTGTAAATTGTTTTTAGAAGATTTTAAAAATCTTTTAAAACATTTTAAGGTTTTTTC
129 TTAAGTTTTTGTAAATTATTCTTAGAAGATTTTAAAAATCTTGTAAAACATTTTAAGGTTTTTTC
* * ** * * ** *
4721 ATAGATTTTTAAGCATTTTTAAGGTCATTTTAAGGATATTTAAGGTTTTTTTAGAGATTTTTCAC
194 ATAAATTTTTAAGCATTTTGAAGACCATTTTAAAGATATTTAAGG-TTTTTAAGAGATTCGTCAA
* * * *
4786 GAAATGTAACGGATTTTTAATGTTTTTAAAGATTTTTTAATTTTTTAATTATTTATTACGATTTT
258 GAAATGTAACGGACTTTTAATGTTTTTAAAGATTTTTTAATTTTTTAATAACTTATTACGAGTTT
* * *
4851 TAAAGATTTTTTAGGTTTTGTATTGC
323 TAAAGATTTTTTAAGTTTTATATGGC
* * * *
4877 TTTTTAAA-TGATTTTTAAAGTCTTTTTAATGATGTTTAAAGTCATTTTAAGCATTTTTAAGTCT
1 TTTTTAAAGT-CTTTTTAAGGTCTTTTTAAAGATGTTTAAGGTCATTTTAAGCATTTTTAAGT-T
* *
4941 TTTTTTATGTATTTCTAAAGATTTTTAAGGT-CTTATCAAGGATTTTCAAAAAAATTTATGTATT
64 TTTTTTATGTATTTCTAAAGATTTTTAAGGTCCTT-TAAAGGATTTTCAAAAAAATTTATATATT
* * * * * * * *
5005 TTTAAAGTTTTT-TAAGTTATTCTTATAAGATTTTTATAGTCTTGTAAAGCATTTTTATGATTTT
128 TTT-AAGTTTTTGTAAATTATTCTTAGAAGATTTTAAAAATCTTGTAAAACA-TTTTAAG-GTTT
* *
5069 TTTCATAAATTTTTAAGTATTTTGAAGACCCTTTTAAAGATATTTAATGG-TTTTAAGAGATTCG
190 TTTCATAAATTTTTAAGCATTTTGAAGACCATTTTAAAGATATTTAA-GGTTTTTAAGAGATTCG
* * * * *
5133 TCAAGAGATTTGAA-GGACTTTTAATGTTTTTAATGGTTTTTTAATTTTTTTAATAACTT-TTAG
254 TCAAGAAATGT-AACGGACTTTTAATGTTTTTAAAGATTTTTTAA-TTTTTTAATAACTTATTAC
*
5196 GAGTTTTAAGGATTTTTTAAGTTTTATATGGC
317 GAGTTTTAAAGATTTTTTAAGTTTTATATGGC
* * *
5228 TTTTTAAAGTCTTTTTAAGGTCTTTTTAAAGATGTTTAAGG-CTAGTCTAAGCATATTTAAGGTT
1 TTTTTAAAGTCTTTTTAAGGTCTTTTTAAAGATGTTTAAGGTC-ATTTTAAGCATTTTTAA-GTT
5292 TTTTTTAT-TGATTTCTA
64 TTTTTTATGT-ATTTCTA
5309 GTGCTTTTTA
Statistics
Matches: 358, Mismatches: 59, Indels: 28
0.80 0.13 0.06
Matches are distributed among these distances:
348 3 0.01
349 52 0.15
350 87 0.24
351 154 0.43
352 60 0.17
353 2 0.01
ACGTcount: A:0.29, C:0.05, G:0.14, T:0.52
Consensus pattern (348 bp):
TTTTTAAAGTCTTTTTAAGGTCTTTTTAAAGATGTTTAAGGTCATTTTAAGCATTTTTAAGTTTT
TTTTATGTATTTCTAAAGATTTTTAAGGTCCTTTAAAGGATTTTCAAAAAAATTTATATATTTTT
AAGTTTTTGTAAATTATTCTTAGAAGATTTTAAAAATCTTGTAAAACATTTTAAGGTTTTTTCAT
AAATTTTTAAGCATTTTGAAGACCATTTTAAAGATATTTAAGGTTTTTAAGAGATTCGTCAAGAA
ATGTAACGGACTTTTAATGTTTTTAAAGATTTTTTAATTTTTTAATAACTTATTACGAGTTTTAA
AGATTTTTTAAGTTTTATATGGC
Found at i:5394 original size:21 final size:22
Alignment explanation
Indices: 5359--5408 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
5349 GAGTTTTTGC
**
5359 AAGTTATTCTTAAAAGGTTTTAA
1 AAGTT-TTCTTAAAACATTTTAA
*
5382 AAGTTTT-TTAAAACATTTTTA
1 AAGTTTTCTTAAAACATTTTAA
5403 AAGTTT
1 AAGTTT
5409 AGGATTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.71
22 2 0.08
23 5 0.21
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (22 bp):
AAGTTTTCTTAAAACATTTTAA
Found at i:5596 original size:10 final size:10
Alignment explanation
Indices: 5540--5731 Score: 61
Period size: 10 Copynumber: 18.6 Consensus size: 10
5530 AAATTTCTCG
5540 AAAAAT-CTCT
1 AAAAATCCT-T
5550 AAAAATCCTT
1 AAAAATCCTT
*
5560 -AATATCCTT
1 AAAAATCCTT
* *
5569 AAAAAGGCTTT
1 AAAAA-TCCTT
*
5580 CAAAATCCTT
1 AAAAATCCTT
5590 AAAAAT-CTAT
1 AAAAATCCT-T
* *
5600 AAAAAAAAACTTT
1 ---AAAAATCCTT
*
5613 AAAAATGCTT
1 AAAAATCCTT
* *
5623 AAAAAAACTTT
1 -AAAAATCCTT
*
5634 AAAAATCTTTT
1 AAAAATC-CTT
**
5645 AAAAATAAGTT
1 AAAAAT-CCTT
* *
5656 ACGAAA-CCTA
1 A-AAAATCCTT
*
5666 AAAAATCCAT
1 AAAAATCCTT
** *
5676 AAACTTCCATA
1 AAAAATCC-TT
5687 AAAAATCC-T
1 AAAAATCCTT
*
5696 AAAATTCCTT
1 AAAAATCCTT
* *
5706 TAAAGTCCTT
1 AAAAATCCTT
5716 AAAAATCCTT
1 AAAAATCCTT
5726 AAAAAT
1 AAAAAT
5732 TTATAAAAAA
Statistics
Matches: 129, Mismatches: 38, Indels: 30
0.65 0.19 0.15
Matches are distributed among these distances:
9 20 0.16
10 65 0.50
11 34 0.26
12 3 0.02
13 6 0.05
14 1 0.01
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (10 bp):
AAAAATCCTT
Found at i:5605 original size:21 final size:20
Alignment explanation
Indices: 5588--5642 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 20
5578 TTCAAAATCC
5588 TTAAAAATCTATAAAAAAAAACT
1 TTAAAAATCT-T--AAAAAAACT
5611 TTAAAAATGCTTAAAAAAACT
1 TTAAAAAT-CTTAAAAAAACT
5632 TTAAAAATCTT
1 TTAAAAATCTT
5643 TTAAAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.10
21 17 0.55
23 9 0.29
24 2 0.06
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (20 bp):
TTAAAAATCTTAAAAAAACT
Found at i:5645 original size:11 final size:10
Alignment explanation
Indices: 5540--5650 Score: 62
Period size: 10 Copynumber: 10.6 Consensus size: 10
5530 AAATTTCTCG
*
5540 AAAAATCTCT
1 AAAAATCTTT
*
5550 AAAAATCCTT
1 AAAAATCTTT
* *
5560 -AATATCCTT
1 AAAAATCTTT
*
5569 AAAAAGGCTTT
1 AAAAA-TCTTT
* *
5580 CAAAATCCTT
1 AAAAATCTTT
*
5590 AAAAATCTATAAA
1 AAAAATCT-T--T
*
5603 AAAAAACTTT
1 AAAAATCTTT
*
5613 AAAAATGCTTA
1 AAAAAT-CTTT
*
5624 AAAAAACTTT
1 AAAAATCTTT
5634 AAAAATCTTTT
1 AAAAATC-TTT
5645 AAAAAT
1 AAAAAT
5651 AAGTTACGAA
Statistics
Matches: 75, Mismatches: 19, Indels: 13
0.70 0.18 0.12
Matches are distributed among these distances:
9 8 0.11
10 34 0.45
11 25 0.33
12 1 0.01
13 7 0.09
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.31
Consensus pattern (10 bp):
AAAAATCTTT
Found at i:5709 original size:21 final size:21
Alignment explanation
Indices: 5664--5703 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5654 TTACGAAACC
*
5664 TAAAAAATCCATAAACTTCCA
1 TAAAAAATCCATAAAATTCCA
5685 TAAAAAATCC-TAAAATTCC
1 TAAAAAATCCATAAAATTCC
5704 TTTAAAGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAAAAATCCATAAAATTCCA
Found at i:5797 original size:19 final size:20
Alignment explanation
Indices: 5757--5799 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
5747 TAAAATGCTT
*
5757 AACCTTTAAAATCCTTTAAA
1 AACCTTTAAAATCCTGTAAA
5777 AACC-TTAAAATCCTAGTAAA
1 AACCTTTAAAATCCT-GTAAA
5797 AAC
1 AAC
5800 TATAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (20 bp):
AACCTTTAAAATCCTGTAAA
Found at i:5824 original size:66 final size:68
Alignment explanation
Indices: 5695--5837 Score: 179
Period size: 66 Copynumber: 2.1 Consensus size: 68
5685 TAAAAAATCC
** * * *
5695 TAAAATTCCTTTAAAGTCCTTAAAAATCCTTAAAAATTTATAAAAAAAACCTTAAAATGCTTAAC
1 TAAAATTCCTTTAAAAACCTTAAAAATCCTTAAAAATCTATAAAAAAAACCATAAAATCCTTAAC
5760 CTT
66 CTT
5763 TAAAA-TCCTTTAAAAACCTT-AAAATCCTAGTAAAAA-CTAT-AAAAAAACCATAAAATCCTTA
1 TAAAATTCCTTTAAAAACCTTAAAAATCCT--TAAAAATCTATAAAAAAAACCATAAAATCCTTA
5824 ACC-T
64 ACCTT
*
5828 CAAAATTCCT
1 TAAAATTCCT
5838 AAAGATTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
65 5 0.08
66 34 0.52
67 16 0.24
68 11 0.17
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (68 bp):
TAAAATTCCTTTAAAAACCTTAAAAATCCTTAAAAATCTATAAAAAAAACCATAAAATCCTTAAC
CTT
Found at i:6044 original size:34 final size:33
Alignment explanation
Indices: 5879--6045 Score: 84
Period size: 34 Copynumber: 4.7 Consensus size: 33
5869 TATGTTAATT
* *
5879 TTATATAT-TATAAATTTATATGTATTACTTTA
1 TTATATATATATAAATTTATATCTATTATTTTA
* * *
5911 TTATATATATATGAAATTAATGACACAACTTATATGTTA
1 TTATATATATAT-AAATTTAT-A-TCTA-TTAT-T-TTA
* * * *
5950 TAATATTTTATATCAAAGTTTGTATAACTAATATTTTAA
1 TTATA-TATATAT-AAA--TT-TATATCTATTATTTT-A
* * * *
5989 TTTTATAGAGTATATATTTATATGTATTATTTTA
1 TTATATATA-TATAAATTTATATCTATTATTTTA
6023 TTATATATATATGAAATTTATAT
1 TTATATATATAT-AAATTTATAT
6046 AAATAATAAC
Statistics
Matches: 99, Mismatches: 22, Indels: 26
0.67 0.15 0.18
Matches are distributed among these distances:
32 8 0.08
33 6 0.06
34 24 0.24
35 13 0.13
36 3 0.03
37 3 0.03
38 7 0.07
39 15 0.15
40 12 0.12
41 3 0.03
42 3 0.03
43 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.51
Consensus pattern (33 bp):
TTATATATATATAAATTTATATCTATTATTTTA
Found at i:6550 original size:3 final size:3
Alignment explanation
Indices: 6542--6569 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6532 ATTTATATAT
6542 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
6570 CATATTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9930 original size:12 final size:12
Alignment explanation
Indices: 9913--9939 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9903 TCTTAACAAT
9913 ACAATTTTAGGA
1 ACAATTTTAGGA
9925 ACAATTTTAGGA
1 ACAATTTTAGGA
9937 ACA
1 ACA
9940 TAGTTTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.30
Consensus pattern (12 bp):
ACAATTTTAGGA
Found at i:10255 original size:16 final size:16
Alignment explanation
Indices: 10209--10255 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
10199 TCAAAATTCT
* *
10209 AAAAACTCAAAAAC-T
1 AAAAACCCAAAAACAA
* *
10224 AAAAATCCAAATACAA
1 AAAAACCCAAAAACAA
10240 AAAAACCCAAAAACAA
1 AAAAACCCAAAAACAA
10256 TATAACCTAA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 11 0.44
16 14 0.56
ACGTcount: A:0.70, C:0.21, G:0.00, T:0.09
Consensus pattern (16 bp):
AAAAACCCAAAAACAA
Found at i:10326 original size:16 final size:16
Alignment explanation
Indices: 10307--10380 Score: 71
Period size: 16 Copynumber: 4.7 Consensus size: 16
10297 TTAATCCAAA
10307 AACTCAAAAACAACTT
1 AACTCAAAAACAACTT
*
10323 AACTC-AAAATAACTT
1 AACTCAAAAACAACTT
* * *
10338 AATTCAAAAACCA-TAA
1 AACTCAAAAACAACT-T
* *
10354 AACTCAAAAATAATTT
1 AACTCAAAAACAACTT
10370 AACTCAAAAAC
1 AACTCAAAAAC
10381 CTAAAAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
15 14 0.31
16 30 0.67
17 1 0.02
ACGTcount: A:0.58, C:0.20, G:0.00, T:0.22
Consensus pattern (16 bp):
AACTCAAAAACAACTT
Found at i:10331 original size:24 final size:24
Alignment explanation
Indices: 10279--10324 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
10269 CCCACAAATA
*
10279 CAAAAACTCAAAAGCAACTTAATC
1 CAAAAACTCAAAAACAACTTAATC
10303 CAAAAACTCAAAAACAACTTAA
1 CAAAAACTCAAAAACAACTTAA
10325 CTCAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.59, C:0.24, G:0.02, T:0.15
Consensus pattern (24 bp):
CAAAAACTCAAAAACAACTTAATC
Found at i:10386 original size:31 final size:31
Alignment explanation
Indices: 10323--10386 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 31
10313 AAAACAACTT
*
10323 AACTCAAAATAACTTAATTCAAAAACCATAA
1 AACTCAAAATAACTTAACTCAAAAACCATAA
*
10354 AACTCAAAAATAATTTAACTCAAAAACC-TAA
1 AACTC-AAAATAACTTAACTCAAAAACCATAA
10385 AA
1 AA
10387 AAATAAAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 10 0.33
32 20 0.67
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (31 bp):
AACTCAAAATAACTTAACTCAAAAACCATAA
Found at i:10516 original size:24 final size:22
Alignment explanation
Indices: 10466--10525 Score: 75
Period size: 22 Copynumber: 2.6 Consensus size: 22
10456 AAATATATAA
* *
10466 AAAACCTTAAAAAAAAAACTTT
1 AAAATCTTAAAAAAAAAACATT
10488 AAAATCTTAAAAAAAAAGACATT
1 AAAATCTTAAAAAAAAA-ACATT
*
10511 ACAAATCTTTAAAAA
1 A-AAATCTTAAAAAA
10526 TCCATAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 16 0.48
23 5 0.15
24 12 0.36
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAATCTTAAAAAAAAAACATT
Found at i:10524 original size:21 final size:20
Alignment explanation
Indices: 10477--10562 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 20
10467 AAACCTTAAA
* *
10477 AAAAAAACTTTAAAATCTTAAA
1 AAAAAAACATTAAAATCTT--T
10499 AAAAAAGACATTACAAATCTTT
1 AAAAAA-ACATTA-AAATCTTT
** * * *
10521 AAAAATCCATAAAAAAACTAT
1 AAAAAAACAT-TAAAATCTTT
10542 AAAAAAACATTAAAATCTTT
1 AAAAAAACATTAAAATCTTT
10562 A
1 A
10563 CCTTAAAAAT
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
20 8 0.16
21 17 0.35
22 12 0.24
23 5 0.10
24 7 0.14
ACGTcount: A:0.62, C:0.12, G:0.01, T:0.26
Consensus pattern (20 bp):
AAAAAAACATTAAAATCTTT
Found at i:10524 original size:23 final size:23
Alignment explanation
Indices: 10466--10525 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
10456 AAATATATAA
* *
10466 AAAACCTT-AAAAAAAAAACTTT
1 AAAATCTTAAAAAAAAAAACATT
*
10488 AAAATCTTAAAAAAAAAGACATT
1 AAAATCTTAAAAAAAAAAACATT
*
10511 ACAAATCTTTAAAAA
1 A-AAATCTTAAAAAA
10526 TCCATAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 7 0.22
23 13 0.41
24 12 0.38
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.23
Consensus pattern (23 bp):
AAAATCTTAAAAAAAAAAACATT
Found at i:10624 original size:50 final size:49
Alignment explanation
Indices: 10562--11470 Score: 221
Period size: 50 Copynumber: 18.2 Consensus size: 49
10552 TAAAATCTTT
* * *
10562 ACCTTAAAAATCCTTAGCAATTTCTTAAAAATCCTTCAAAATACATAAAA
1 ACCTTAAAAATCCTTA-AAATTTCTTAAAAATCCTTAAAAATACTTAAAA
* *** * * *
10612 ACCTTAACAATCCTTAAAAAACCTTCAAAATCCTTGAAATTACCTTAAAA
1 ACCTTAAAAATCCTTAAAATTTCTTAAAAATCCTTAAAAATA-CTTAAAA
* *
10662 TCCTTAAAAATCCATAAAATTTCTTAAAAGA-CCTTAAAAATACTTAAAAA
1 ACCTTAAAAATCCTTAAAATTTCTTAAAA-ATCCTTAAAAATACTT-AAAA
** * * * *
10712 GACCTTAAAAATCAATAAAA-ATCTTTATACAA-CCTTAAAATTTCTTAAAA
1 -ACCTTAAAAATCCTTAAAATTTC-TTA-AAAATCCTTAAAAATACTTAAAA
* *** *
10762 ATCCTTAAAAAAT--ATAAAAAACCTT-AAAATCCTT---AAT-GTTAAAA
1 A-CCTT-AAAAATCCTTAAAATTTCTTAAAAATCCTTAAAAATACTTAAAA
* * * *
10806 ACCCTTATAAATCTTTCAAAA--TCGATAAAAATCCTTAAAAAAACCTTAAAA
1 A-CCTTAAAAATCCTT-AAAATTTC-TTAAAAATCCTTAAAAATA-CTTAAAA
* *
10857 ATCTTTAAAAATACTTTTAAAATATT-TT-AAAATACCTTAAAAA-ACCTTAAAA
1 A-CCTTAAAAAT-C-CTTAAAAT-TTCTTAAAAAT-CCTTAAAAATA-CTTAAAA
* * ** *
10909 ACCCTAAAAAAACCTATAGAAA-ACCTT-AAAATCCTTAACCTTAAAAACCTTAAAAA
1 A-CCTTAAAAATCCT-TA-AAATTTCTTAAAAATCCTTAA----AAATA-CTT-AAAA
* * * * *
10965 AACTTACAAAGCCTTAAAATCT-TTATAAAA-CCTTTAAAAT-CTTTAAAAA
1 ACCTTAAAAATCCTTAAAATTTCTTA-AAAATCCTTAAAAATAC-TT-AAAA
* * * * * ** * *
11014 ACCTTTACAAAT-CTTAAAAATCCTTAATAATCTTTTCAAATTCCTAAAA
1 ACC-TTAAAAATCCTTAAAATTTCTTAAAAATCCTTAAAAATACTTAAAA
* * * * * ** **
11063 ATCTTTTAAAAT-CTGCAAAAATCCTTAAGTATCCTT-AAAACCCTTGAAAA
1 A-CCTTAAAAATCCT-TAAAATTTCTTAAAAATCCTTAAAAATACTT-AAAA
* * * * * *
11113 ATGCTTAAACAT-CTTAAAAATGCTTAGAAAATCCTTAAAAATCCTTATATA
1 A-CCTTAAAAATCCTTAAAATTTCTTA-AAAATCCTTAAAAATACTTA-AAA
* * * * * *
11164 TCCGTT-AAAAT-CTTCAAAAATTCTTAAAAATCCTTAAAGATCCCTCAAA
1 ACC-TTAAAAATCCTT-AAAATTTCTTAAAAATCCTTAAAAATACTTAAAA
* * * * * *
11213 ACATTACAAATCTTTAAAA-TTCTTAAAAATCCCTAAAAAT-C--CATA
1 ACCTTAAAAATCCTTAAAATTTCTTAAAAATCCTTAAAAATACTTAAAA
* * * * * * *
11258 ATCTTAAAAATCTTTAAAAATACTTACAAACCCTTAAAAATCCTTAAAA
1 ACCTTAAAAATCCTTAAAATTTCTTAAAAATCCTTAAAAATACTTAAAA
* * * * * * *
11307 ATTCTAAAAAAAAACCTTTAAAA-TCCTTTAAAATCATTAAAAATCCCTTAAAA
1 A-CCT--TAAAAATCC-TTAAAATTTCTTAAAAATCCTTAAAAAT-ACTTAAAA
* * * ** * *
11360 ACCTCAAAAATCTTTCAAATCCCTTAAAAATTCATAAAAA-ACCTTAAAA
1 ACCTTAAAAATCCTTAAAATTTCTTAAAAATCCTTAAAAATA-CTTAAAA
* * * *
11409 ATCCTTAAAAATCCGTAGACAA-TT-TTAAAAAACCTTAAAACTCCTTAATAA
1 A-CCTTAAAAATCCTTA-A-AATTTCTTAAAAATCCTTAAAAATACTTAA-AA
*
11460 TCCTTAAAAAT
1 ACCTTAAAAAT
11471 TTATAAAAAA
Statistics
Matches: 651, Mismatches: 139, Indels: 138
0.70 0.15 0.15
Matches are distributed among these distances:
43 5 0.01
44 12 0.02
45 23 0.04
46 30 0.05
47 5 0.01
48 26 0.04
49 107 0.16
50 227 0.35
51 91 0.14
52 58 0.09
53 33 0.05
54 10 0.02
55 19 0.03
56 5 0.01
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (49 bp):
ACCTTAAAAATCCTTAAAATTTCTTAAAAATCCTTAAAAATACTTAAAA
Found at i:10643 original size:20 final size:20
Alignment explanation
Indices: 10585--11470 Score: 328
Period size: 20 Copynumber: 45.0 Consensus size: 20
10575 TTAGCAATTT
* * *
10585 CTTAAAAATCCTTCAAAATA
1 CTTAAAAAACCTTAAAAATC
* *
10605 CAT-AAAAACCTTAACAATC
1 CTTAAAAAACCTTAAAAATC
*
10624 CTTAAAAAACCTTCAAAATC
1 CTTAAAAAACCTTAAAAATC
**
10644 CTTGAAATTACCTT-AAAATC
1 CTT-AAAAAACCTTAAAAATC
* * * *
10664 CTTAAAAATCCATAAAATTT
1 CTTAAAAAACCTTAAAAATC
* *
10684 CTTAAAAGACCTTAAAAATA
1 CTTAAAAAACCTTAAAAATC
10704 CTTAAAAAGACCTTAAAAATC
1 CTTAAAAA-ACCTTAAAAATC
** * * *
10725 AATAAAAATCTTTATACAA-C
1 CTTAAAAAACCTTA-AAAATC
***
10745 CTTAAAATTTCTTAAAAATC
1 CTTAAAAAACCTTAAAAATC
*
10765 CTTAAAAAA--TATAAAAAAC
1 CTTAAAAAACCT-TAAAAATC
*
10784 CTT-AAAATCCTT---AAT-
1 CTTAAAAAACCTTAAAAATC
* * *
10799 GTTAAAAACCCTTATAAATC
1 CTTAAAAAACCTTAAAAATC
* * * **
10819 TTTCAAAATCGATAAAAATC
1 CTTAAAAAACCTTAAAAATC
10839 CTTAAAAAAACCTTAAAAATC
1 CTT-AAAAAACCTTAAAAATC
* *
10860 TTTAAAAATACTTTTAAAATAT-
1 CTTAAAAA-AC-CTTAAAA-ATC
* * *
10882 TTTAAAATACCTTAAAAAAC
1 CTTAAAAAACCTTAAAAATC
* * *
10902 CTTAAAAACCCTAAAAAAAC
1 CTTAAAAAACCTTAAAAATC
*
10922 CTATAGAAAACCTT-AAAATC
1 CT-TAAAAAACCTTAAAAATC
10942 CTT----AACCTTAAAAA-C
1 CTTAAAAAACCTTAAAAATC
* * *
10957 CTTAAAAAAACTTACAAAGC
1 CTTAAAAAACCTTAAAAATC
* *
10977 CTT-AAAATCTTTATAAAA-C
1 CTTAAAAAACCTTA-AAAATC
* * * *
10996 CTTTAAAATCTTTAAAAAAC
1 CTTAAAAAACCTTAAAAATC
* * *
11016 CTTTACAAATCTTAAAAATC
1 CTTAAAAAACCTTAAAAATC
* * * * *
11036 CTTAATAATCTTTTCAAATTC
1 CTTAAAAAAC-CTTAAAAATC
* * *
11057 C-TAAAAATCTTTTAAAAT-
1 CTTAAAAAACCTTAAAAATC
* * **
11075 CTGCAAAAATCCTTAAGTATC
1 CT-TAAAAAACCTTAAAAATC
* *
11096 CTT-AAAACCCTTGAAAAATG
1 CTTAAAAAACCTT-AAAAATC
* * *
11116 CTT-AAACATCTTAAAAATG
1 CTTAAAAAACCTTAAAAATC
*
11135 CTTAGAAAATCCTTAAAAATC
1 CTTA-AAAAACCTTAAAAATC
* * *
11156 CTTATATATCCGTT-AAAAT-
1 CTTAAAAAACC-TTAAAAATC
**
11175 CTTCAAAAATTCTTAAAAATC
1 CTT-AAAAAACCTTAAAAATC
* * * *
11196 CTTAAAGATCCCTCAAAA-C
1 CTTAAAAAACCTTAAAAATC
* * * * *
11215 ATT-ACAAATCTTTAAAATT
1 CTTAAAAAACCTTAAAAATC
* *
11234 CTTAAAAATCCCTAAAAATC
1 CTTAAAAAACCTTAAAAATC
* *
11254 C----ATAATCTTAAAAATC
1 CTTAAAAAACCTTAAAAATC
* * *
11270 TTTAAAAATA-CTTACAAACC
1 CTTAAAAA-ACCTTAAAAATC
* *
11290 CTTAAAAATCCTTAAAAATT
1 CTTAAAAAACCTTAAAAATC
* *
11310 CTAAAAAAAAACCTTTAAAATC
1 CT--TAAAAAACCTTAAAAATC
* * *
11332 CTTTAAAATCATTAAAAATCC
1 CTTAAAAAACCTTAAAAAT-C
*
11353 CTT-AAAAACCTCAAAAATC
1 CTTAAAAAACCTTAAAAATC
* * ** *
11372 TTTCAAATCCCTTAAAAATT
1 CTTAAAAAACCTTAAAAATC
*
11392 CATAAAAAACCTTAAAAATC
1 CTTAAAAAACCTTAAAAATC
* * *
11412 CTTAAAAATCCGTAGACAAT-
1 CTTAAAAAACCTTA-AAAATC
* *
11432 TTTAAAAAACCTTAAAACTC
1 CTTAAAAAACCTTAAAAATC
* *
11452 CTTAATAATCCTTAAAAAT
1 CTTAAAAAACCTTAAAAAT
11471 TTATAAAAAA
Statistics
Matches: 636, Mismatches: 176, Indels: 108
0.69 0.19 0.12
Matches are distributed among these distances:
15 12 0.02
16 25 0.04
18 14 0.02
19 104 0.16
20 355 0.56
21 95 0.15
22 29 0.05
23 2 0.00
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (20 bp):
CTTAAAAAACCTTAAAAATC
Found at i:10718 original size:11 final size:11
Alignment explanation
Indices: 10687--10722 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
10677 AAAATTTCTT
10687 AAAAGACCTTA
1 AAAAGACCTTA
*
10698 AAAATA-CTTA
1 AAAAGACCTTA
10708 AAAAGACCTTA
1 AAAAGACCTTA
10719 AAAA
1 AAAA
10723 TCAATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.61, C:0.14, G:0.06, T:0.19
Consensus pattern (11 bp):
AAAAGACCTTA
Found at i:10730 original size:21 final size:21
Alignment explanation
Indices: 10687--10732 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
10677 AAAATTTCTT
*
10687 AAAAGACCTTAAAAATACTTA
1 AAAAGACCTTAAAAATACATA
10708 AAAAGACCTTAAAAAT-CAATA
1 AAAAGACCTTAAAAATAC-ATA
10729 AAAA
1 AAAA
10733 TCTTTATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.63, C:0.13, G:0.04, T:0.20
Consensus pattern (21 bp):
AAAAGACCTTAAAAATACATA
Found at i:10773 original size:51 final size:50
Alignment explanation
Indices: 10584--10868 Score: 137
Period size: 51 Copynumber: 5.6 Consensus size: 50
10574 CTTAGCAATT
* * * * *
10584 TCTTAAAA-ATCCTTCAAAATACATAAAAA-CCTTAACAATCCTTAAAAAAC
1 TCTTAAAAGA-CCTTAAAAATACTTAAAAATCCTTAAAAAT-CATAAAAATC
* * * *
10634 -CTTCAAAA-TCCTTGAAATTACCTT-AAAATCCTTAAAAATCCAT-AAAATT
1 TCTT-AAAAGACCTTAAAAATA-CTTAAAAATCCTTAAAAAT-CATAAAAATC
*
10683 TCTTAAAAGACCTTAAAAATACTTAAAAAGACCTTAAAAATCAATAAAAATC
1 TCTTAAAAGACCTTAAAAATACTTAAAAA-TCCTTAAAAATC-ATAAAAATC
* * * *
10735 T-TTATACA-ACCTTAAAATTTCTTAAAAATCCTTAAAAAAT-ATAAAAAAC
1 TCTTA-AAAGACCTTAAAAATACTTAAAAATCCTT-AAAAATCATAAAAATC
* * * * *
10784 -CTTAAAA-TCCTTAATGTTAAAAACCCTTATAAATCTTTCAAAATCGATAAAAATC
1 TCTTAAAAGACCTTAA----AAATA--CTTAAAAATCCTTAAAAATC-ATAAAAATC
*
10839 -CTTAAAAAAACCTTAAAAAT-CTTTAAAAAT
1 TCTT-AAAAGACCTTAAAAATAC-TTAAAAAT
10869 ACTTTTAAAA
Statistics
Matches: 182, Mismatches: 30, Indels: 45
0.71 0.12 0.18
Matches are distributed among these distances:
48 8 0.04
49 38 0.21
50 40 0.22
51 46 0.25
52 10 0.05
53 8 0.04
54 11 0.06
55 11 0.06
56 4 0.02
57 6 0.03
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.30
Consensus pattern (50 bp):
TCTTAAAAGACCTTAAAAATACTTAAAAATCCTTAAAAATCATAAAAATC
Found at i:10790 original size:8 final size:9
Alignment explanation
Indices: 10589--11468 Score: 147
Period size: 10 Copynumber: 89.4 Consensus size: 9
10579 CAATTTCTTA
10589 AAAATCCTT
1 AAAATCCTT
* *
10598 CAAAATACAT
1 -AAAATCCTT
*
10608 AAAAACCTT
1 AAAATCCTT
10617 AACAATCCTT
1 AA-AATCCTT
*
10627 AAAAAACCTT
1 -AAAATCCTT
10637 CAAAATCCTT
1 -AAAATCCTT
*
10647 GAAATTACCTT
1 -AAAAT-CCTT
10658 AAAATCCTT
1 AAAATCCTT
*
10667 AAAAATCCAT
1 -AAAATCCTT
*
10677 AAAATTTCTT
1 AAAA-TCCTT
*
10687 AAAAGACCTT
1 AAAA-TCCTT
*
10697 AAAAATACTT
1 -AAAATCCTT
*
10707 AAAAAGACCTT
1 -AAAA-TCCTT
* *
10718 AAAAATCAATA
1 -AAAATC-CTT
*
10729 AAAATCTTT
1 AAAATCCTT
10738 ATACAA-CCTT
1 A-A-AATCCTT
*
10748 AAAATTTCTT
1 AAAA-TCCTT
10758 AAAAATCCTT
1 -AAAATCCTT
* *
10768 AAAAAAT-ATA
1 --AAAATCCTT
*
10778 AAAAACCTT
1 AAAATCCTT
10787 AAAATCCTT
1 AAAATCCTT
*
10796 --AAT-GTT
1 AAAATCCTT
*
10802 AAAAACCCTT
1 -AAAATCCTT
*
10812 ATAAATCTTT
1 A-AAATCCTT
* *
10822 CAAAATCGATA
1 -AAAATC-CTT
10833 AAAATCCTT
1 AAAATCCTT
*
10842 AAAAAAACCTT
1 --AAAATCCTT
*
10853 AAAAATCTTT
1 -AAAATCCTT
*
10863 AAAAATACTTTT
1 -AAAAT-C-CTT
**
10875 AAAATATTTT
1 AAAAT-CCTT
10885 AAAATACCTT
1 AAAAT-CCTT
*
10895 AAAAAACCTT
1 -AAAATCCTT
* *
10905 AAAAACCCTAA
1 -AAAATCCT-T
*
10916 AAAAACCTAT
1 AAAATCCT-T
*
10926 AGAAAACCTT
1 A-AAATCCTT
10936 AAAATCCTT
1 AAAATCCTT
10945 --AA-CCTT
1 AAAATCCTT
*
10951 AAAAACCTT
1 AAAATCCTT
**
10960 AAAAAAACTT
1 -AAAATCCTT
*
10970 ACAAAGCCTT
1 A-AAATCCTT
*
10980 AAAATCTTT
1 AAAATCCTT
*
10989 ATAAAACCTTT
1 A-AAATCC-TT
*
11000 AAAATCTTT
1 AAAATCCTT
*
11009 AAAAAACCTTT
1 -AAAATCC-TT
11020 ACAAAT-CTT
1 A-AAATCCTT
11029 AAAAATCCTT
1 -AAAATCCTT
*
11039 AATAATCTTTT
1 AA-AATC-CTT
* *
11050 CAAATTCCTA
1 -AAAATCCTT
*
11060 AAAATCTTTT
1 AAAATC-CTT
*
11070 AAAAT-CTGCA
1 AAAATCCT--T
11080 AAAATCCTT
1 AAAATCCTT
*
11089 AAGTATCCTT
1 AA-AATCCTT
*
11099 AAAACCCTT
1 AAAATCCTT
*
11108 GAAAAATGCTT
1 --AAAATCCTT
11119 AAACAT-CTT
1 AAA-ATCCTT
*
11128 AAAAATGCTT
1 -AAAATCCTT
11138 AGAAAATCCTT
1 --AAAATCCTT
11149 AAAAATCCTT
1 -AAAATCCTT
*
11159 ATATATCCGTT
1 A-AAATCC-TT
11170 AAAAT-CTT
1 AAAATCCTT
*
11178 CAAAAATTCTT
1 --AAAATCCTT
11189 AAAAATCCTT
1 -AAAATCCTT
*
11199 AAAGATCCCTC
1 AAA-AT-CCTT
*
11210 AAAA-CATT
1 AAAATCCTT
*
11218 ACAAATCTTT
1 A-AAATCCTT
*
11228 AAAATTCTT
1 AAAATCCTT
*
11237 AAAAATCCCTA
1 -AAAAT-CCTT
11248 AAAATCC--
1 AAAATCCTT
*
11255 ATAAT-CTT
1 AAAATCCTT
*
11263 AAAAATCTTT
1 -AAAATCCTT
*
11273 AAAAATACTT
1 -AAAATCCTT
*
11283 ACAAACCCTT
1 A-AAATCCTT
11293 AAAAATCCTT
1 -AAAATCCTT
* *
11303 AAAAATTCTAAAA
1 -AAAATCCT---T
*
11316 AAAAACCTTT
1 AAAATCC-TT
11326 AAAATCCTTT
1 AAAATCC-TT
*
11336 AAAATCATT
1 AAAATCCTT
11345 AAAAATCCCTT
1 -AAAAT-CCTT
* *
11356 AAAAACCTCA
1 AAAATCCT-T
*
11366 AAAATCTTT
1 AAAATCCTT
*
11375 CAAATCCCTT
1 AAAAT-CCTT
* *
11385 AAAAATTCATA
1 -AAAA-TCCTT
*
11396 AAAAACCTT
1 AAAATCCTT
11405 AAAAATCCTT
1 -AAAATCCTT
*
11415 AAAAATCCGT
1 -AAAATCCTT
*
11425 AGACAAT-TTT
1 A-A-AATCCTT
*
11435 AAAAAACCTT
1 -AAAATCCTT
11445 AAAACTCCTT
1 AAAA-TCCTT
11455 AATAATCCTT
1 AA-AATCCTT
11465 AAAA
1 AAAA
11469 ATTTATAAAA
Statistics
Matches: 647, Mismatches: 134, Indels: 179
0.67 0.14 0.19
Matches are distributed among these distances:
6 7 0.01
7 9 0.01
8 14 0.02
9 122 0.19
10 365 0.56
11 118 0.18
12 11 0.02
13 1 0.00
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAATCCTT
Found at i:10855 original size:21 final size:21
Alignment explanation
Indices: 10831--10983 Score: 92
Period size: 21 Copynumber: 7.7 Consensus size: 21
10821 TCAAAATCGA
10831 TAAAAATCCTTAAAAAAACCT
1 TAAAAATCCTTAAAAAAACCT
* * *
10852 TAAAAATCTTTAAAAATACTT
1 TAAAAATCCTTAAAAAAACCT
* ** * *
10873 TTAAAATATTTTAAAATACCT
1 TAAAAATCCTTAAAAAAACCT
* *
10894 TAAAAAACCTT-AAAAACCCT
1 TAAAAATCCTTAAAAAAACCT
* * *
10914 AAAAAAACC-TATAGAAAACCT
1 TAAAAATCCTTA-AAAAAACCT
10935 T-AAAATCCTT-----AACCT
1 TAAAAATCCTTAAAAAAACCT
10950 TAAAAA-CCTTAAAAAAA-CT
1 TAAAAATCCTTAAAAAAACCT
* *
10969 TACAAAGCCTTAAAA
1 TAAAAATCCTTAAAA
10984 TCTTTATAAA
Statistics
Matches: 103, Mismatches: 19, Indels: 21
0.72 0.13 0.15
Matches are distributed among these distances:
15 10 0.10
16 4 0.04
19 8 0.08
20 31 0.30
21 50 0.49
ACGTcount: A:0.54, C:0.18, G:0.01, T:0.27
Consensus pattern (21 bp):
TAAAAATCCTTAAAAAAACCT
Found at i:10950 original size:15 final size:15
Alignment explanation
Indices: 10930--10961 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10920 ACCTATAGAA
*
10930 AACCTTAAAATCCTT
1 AACCTTAAAAACCTT
10945 AACCTTAAAAACCTT
1 AACCTTAAAAACCTT
10960 AA
1 AA
10962 AAAAACTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (15 bp):
AACCTTAAAAACCTT
Found at i:10966 original size:46 final size:44
Alignment explanation
Indices: 10899--10985 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 44
10889 TACCTTAAAA
*
10899 AACCTTAAAAACCCTAAAAAAACCTATAGAAAACCTTAAAATCCTT
1 AACCTTAAAAACCCTAAAAAAA-CT-TACAAAACCTTAAAATCCTT
* *
10945 AACCTTAAAAACCTTAAAAAAACTTACAAAGCCTTAAAATC
1 AACCTTAAAAACCCTAAAAAAACTTACAAAACCTTAAAATC
10986 TTTATAAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 15 0.39
45 2 0.05
46 21 0.55
ACGTcount: A:0.53, C:0.23, G:0.02, T:0.22
Consensus pattern (44 bp):
AACCTTAAAAACCCTAAAAAAACTTACAAAACCTTAAAATCCTT
Found at i:11122 original size:19 final size:19
Alignment explanation
Indices: 11100--11159 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
11090 AGTATCCTTA
11100 AAAC-CCTTGAAAAATGCTT
1 AAACACCTT-AAAAATGCTT
*
11119 AAACATCTTAAAAATGCTT
1 AAACACCTTAAAAATGCTT
* *
11138 AGAAAATCCTTAAAAATCCTT
1 A-AACA-CCTTAAAAATGCTT
11159 A
1 A
11160 TATATCCGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 15 0.44
20 6 0.18
21 13 0.38
ACGTcount: A:0.47, C:0.18, G:0.07, T:0.28
Consensus pattern (19 bp):
AAACACCTTAAAAATGCTT
Found at i:11174 original size:30 final size:30
Alignment explanation
Indices: 10563--11468 Score: 212
Period size: 30 Copynumber: 30.6 Consensus size: 30
10553 AAAATCTTTA
* *
10563 CCTTAAAAATCCTTAGCAATTTCTT-AAAAAT
1 CCTTAAAAATCCTTA--AAATCCTTCAAAAAT
* * * * *
10594 CCTTCAAAATACATAAAAACCTT-AACAAT
1 CCTTAAAAATCCTTAAAATCCTTCAAAAAT
* * *
10623 CCTTAAAAAACCTTCAAAATCCTT-GAAATT
1 CCTTAAAAATCCTT-AAAATCCTTCAAAAAT
* *
10653 ACCTT-AAAATCCTTAAAAATCCAT-AAAATT
1 -CCTTAAAAATCCTT-AAAATCCTTCAAAAAT
* * *
10683 TCTTAAAAGA-CCTTAAAAATACTT-AAAAAGA
1 CCTTAAAA-ATCCTT-AAAATCCTTCAAAAA-T
* * * *
10714 CCTTAAAAATCAATAAAAAT-CTTTATACAA-
1 CCTTAAAAATC-CTTAAAATCCTTCA-AAAAT
* * *
10744 CCTTAAAATTTCTTAAAAATCCTTAAAAAAT
1 CCTTAAAAATCCTT-AAAATCCTTCAAAAAT
* *
10775 --ATAAAAAACCTTAAAATCCTT----AAT
1 CCTTAAAAATCCTTAAAATCCTTCAAAAAT
* * *
10799 -GTTAAAAACCCTTATAAATCTTTC-AAAAT
1 CCTTAAAAATCCTTA-AAATCCTTCAAAAAT
** *
10828 CGATAAAAATCCTTAAAAAAACCTT-AAAAAT
1 CCTTAAAAATCCTT--AAAATCCTTCAAAAAT
* * * **
10859 CTTTAAAAATACTTTTAAAAT-ATTTTAAAAT
1 CCTTAAAAAT-C-CTTAAAATCCTTCAAAAAT
* * * * *
10890 ACCTTAAAAAACCTTAAAAACCCTAAAAAAA
1 -CCTTAAAAATCCTTAAAATCCTTCAAAAAT
10921 CCTATAGAAAA-CCTTAAAATCCTT----AA-
1 CCT-TA-AAAATCCTTAAAATCCTTCAAAAAT
** * *
10947 CCTTAAAAA-CCTTAAAAAAACTT-ACAAAG
1 CCTTAAAAATCCTT-AAAATCCTTCAAAAAT
* * *
10976 CCTT-AAAATCTTTATAAAACCTT-TAAAAT
1 CCTTAAAAATCCTTA-AAATCCTTCAAAAAT
* *
11005 CTTTAAAAAACCTTTACAAAT-CTT-AAAAAT
1 CCTTAAAAATCC-TTA-AAATCCTTCAAAAAT
* * *
11035 CCTTAATAATCTTTTCAAATTCC-T-AAAAAT
1 CCTTAAAAATC-CTT-AAAATCCTTCAAAAAT
* * * **
11065 CTTTTAAAAT-CTGCAAAAATCCTT-AAGTAT
1 CCTTAAAAATCCT--TAAAATCCTTCAAAAAT
* * *
11095 CCTT-AAAACCCTTGAAAAATGCTT-AAACAT
1 CCTTAAAAATCCTT--AAAATCCTTCAAAAAT
*
11125 -CTTAAAAATGCTTAGAAAATCCTT-AAAAAT
1 CCTTAAAAATCCTT--AAAATCCTTCAAAAAT
* *
11155 CCTTATATATCCGTTAAAAT-CTTCAAAAAT
1 CCTTAAAAATCC-TTAAAATCCTTCAAAAAT
* *
11185 TCTTAAAAATCCTTAAAGATCCCTC-AAAA-
1 CCTTAAAAATCCTTAAA-ATCCTTCAAAAAT
* * * *
11214 CATTACAAATCTTTAAAATTCTT-AAAAAT
1 CCTTAAAAATCCTTAAAATCCTTCAAAAAT
* *
11243 CCCTAAAAATCC--ATAAT-CTT-AAAAAT
1 CCTTAAAAATCCTTAAAATCCTTCAAAAAT
* * *
11269 CTTTAAAAATACTTACAAACCCTT-AAAAAT
1 CCTTAAAAATCCTTA-AAATCCTTCAAAAAT
* * * *
11299 CCTTAAAAATTCTAAAAAAAAACCTT-TAAAAT
1 CCTTAAAAATCCT---TAAAATCCTTCAAAAAT
* *
11331 CCTTTAAAATCATTAAAAATCCCTT-AAAAA-
1 CCTTAAAAATCCTT-AAAAT-CCTTCAAAAAT
* * *
11361 CCTCAAAAATCTTTCAAATCCCTT-AAAAAT
1 CCTTAAAAATCCTTAAAAT-CCTTCAAAAAT
* * *
11391 TCATAAAAAACCTTAAAAATCCTT-AAAAAT
1 CCTTAAAAATCCTT-AAAATCCTTCAAAAAT
* * * * *
11421 CCGTAGACAAT-TTTAAAAAACCTT-AAAACT
1 CCTTA-AAAATCCTT-AAAATCCTTCAAAAAT
*
11451 CCTTAATAATCCTTAAAA
1 CCTTAAAAATCCTTAAAA
11469 ATTTATAAAA
Statistics
Matches: 654, Mismatches: 154, Indels: 136
0.69 0.16 0.14
Matches are distributed among these distances:
24 11 0.02
25 20 0.03
26 28 0.04
27 6 0.01
28 26 0.04
29 121 0.19
30 281 0.43
31 116 0.18
32 42 0.06
33 3 0.00
ACGTcount: A:0.49, C:0.19, G:0.02, T:0.30
Consensus pattern (30 bp):
CCTTAAAAATCCTTAAAATCCTTCAAAAAT
Found at i:12226 original size:19 final size:19
Alignment explanation
Indices: 12199--12240 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
12189 AGTCTACTTA
*
12199 AAAATCCTTAAATAATTC-T
1 AAAACCCTTAAA-AATTCTT
*
12218 AAAACCCTTCAAAATTCTT
1 AAAACCCTTAAAAATTCTT
12237 AAAA
1 AAAA
12241 ATCACTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAACCCTTAAAAATTCTT
Found at i:12237 original size:29 final size:30
Alignment explanation
Indices: 12199--12261 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
12189 AGTCTACTTA
*
12199 AAAATCCTTAAATAAT-TCT-AAAACCCTTC
1 AAAATCCTTAAA-AATCACTAAAAACCCTTC
* *
12228 AAAATTCTTAAAAATCACTAAAAATCCTTC
1 AAAATCCTTAAAAATCACTAAAAACCCTTC
12258 AAAA
1 AAAA
12262 ACTATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 3 0.10
29 13 0.45
30 13 0.45
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.29
Consensus pattern (30 bp):
AAAATCCTTAAAAATCACTAAAAACCCTTC
Found at i:12629 original size:16 final size:16
Alignment explanation
Indices: 12608--12640 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12598 ATAAAAAACC
*
12608 TAAAAATCCTTACAAT
1 TAAAAATCCTTAAAAT
12624 TAAAAATCCTTAAAAT
1 TAAAAATCCTTAAAAT
12640 T
1 T
12641 TTTTTAAAAA
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:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAAATCCTTAAAAT
Found at i:12638 original size:10 final size:10
Alignment explanation
Indices: 12623--12843 Score: 70
Period size: 10 Copynumber: 22.4 Consensus size: 10
12613 ATCCTTACAA
12623 TTAAAAATCC
1 TTAAAAATCC
* **
12633 TTAAAATTTTT
1 TTAAAA-ATCC
12644 TTAAAAAT--
1 TTAAAAATCC
*
12652 TATAAAAATTC
1 T-TAAAAATCC
*
12663 TTAAAAATAC
1 TTAAAAATCC
*
12673 AT-AAAATCC
1 TTAAAAATCC
* *
12682 TTGAAAATGC
1 TTAAAAATCC
* *
12692 TTCAAAATCT
1 TTAAAAATCC
12702 TTCAAAAA---
1 TT-AAAAATCC
* *
12710 -AAAAAAACC
1 TTAAAAATCC
12719 TTAAAAAT-C
1 TTAAAAATCC
12728 TATAAAAAAT-C
1 T-T-AAAAATCC
* *
12739 TGAAAAAGCC
1 TTAAAAATCC
12749 TTAAAAATCC
1 TTAAAAATCC
12759 TTCAAAAGAT-C
1 TT-AAAA-ATCC
*
12770 TT-GAAATCC
1 TTAAAAATCC
* *
12779 TTTAAAATTC
1 TTAAAAATCC
* *
12789 ATAAAACTCC
1 TTAAAAATCC
*
12799 TTCAAAAA-CT
1 TT-AAAAATCC
*
12809 TTAAATATCC
1 TTAAAAATCC
*
12819 TTAAAAAGGCC
1 TTAAAAA-TCC
*
12830 TTAAAAATTC
1 TTAAAAATCC
12840 TTAA
1 TTAA
12844 CAAACTATAC
Statistics
Matches: 155, Mismatches: 36, Indels: 40
0.67 0.16 0.17
Matches are distributed among these distances:
6 5 0.03
8 3 0.02
9 30 0.19
10 75 0.48
11 40 0.26
12 2 0.01
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (10 bp):
TTAAAAATCC
Found at i:12819 original size:40 final size:40
Alignment explanation
Indices: 12750--12825 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
12740 GAAAAAGCCT
* *
12750 TAAAAATCCTTCAAAAGATCTTGAAATCCTTTAAAATTCA
1 TAAAAATCCTTCAAAAGATCTTAAAATCCTTAAAAATTCA
*
12790 TAAAACTCCTTCAAAA-A-CTTTAAATATCCTTAAAAA
1 TAAAAATCCTTCAAAAGATC-TTAAA-ATCCTTAAAAA
12826 GGCCTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
38 1 0.03
39 5 0.16
40 25 0.81
ACGTcount: A:0.47, C:0.18, G:0.03, T:0.32
Consensus pattern (40 bp):
TAAAAATCCTTCAAAAGATCTTAAAATCCTTAAAAATTCA
Found at i:12902 original size:20 final size:20
Alignment explanation
Indices: 12871--12921 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
12861 TAAAATGCTT
* *
12871 AACTTTAAAAATCTTTTAAAA
1 AACTATAAAAAT-TCTTAAAA
*
12892 ACCTA-AAAAATTCTTAAAA
1 AACTATAAAAATTCTTAAAA
12911 AACTATAAAAA
1 AACTATAAAAA
12922 AGCCTTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 11 0.44
20 11 0.44
21 3 0.12
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (20 bp):
AACTATAAAAATTCTTAAAA
Found at i:12905 original size:65 final size:65
Alignment explanation
Indices: 12805--12956 Score: 193
Period size: 65 Copynumber: 2.3 Consensus size: 65
12795 CTCCTTCAAA
* * * * * *
12805 AACTTTAAATATCCTTAAAAAGGCCTTAAAAATTCTTAACAAACTATACAAAA-CCTTAAAATGC
1 AACTTTAAAAATCTTTAAAAA-GCCTAAAAAATTCTTAAAAAACTATAAAAAAGCCTT-AAATAC
12869 TT
64 TT
12871 AACTTTAAAAATCTTTTAAAAA-CCTAAAAAATTCTTAAAAAACTATAAAAAAGCCTTAAATACT
1 AACTTTAAAAATC-TTTAAAAAGCCTAAAAAATTCTTAAAAAACTATAAAAAAGCCTTAAATACT
12935 T
65 T
12936 AA-TCTTAAAAATCTTTAAAAA
1 AACT-TTAAAAATCTTTAAAAA
12957 TCCTTTAAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
64 9 0.12
65 45 0.58
66 16 0.21
67 7 0.09
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.31
Consensus pattern (65 bp):
AACTTTAAAAATCTTTAAAAAGCCTAAAAAATTCTTAAAAAACTATAAAAAAGCCTTAAATACTT
Found at i:12942 original size:35 final size:36
Alignment explanation
Indices: 12903--12973 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 36
12893 CCTAAAAAAT
12903 TCTTAAAAAACTATAAAAAAGCC-TTAAATA-CTTAA
1 TCTTAAAAAACT-TAAAAAAGCCTTTAAATACCTTAA
* * *
12938 TCTTAAAAATCTTTAAAAATCCTTTAAATACCTTAA
1 TCTTAAAAAACTTAAAAAAGCCTTTAAATACCTTAA
12974 AAATCATTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 8 0.26
35 18 0.58
36 5 0.16
ACGTcount: A:0.49, C:0.15, G:0.01, T:0.34
Consensus pattern (36 bp):
TCTTAAAAAACTTAAAAAAGCCTTTAAATACCTTAA
Found at i:13343 original size:2 final size:2
Alignment explanation
Indices: 13336--13360 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13326 TTATAATTAC
13336 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
13361 GAATTAGTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13627 original size:10 final size:10
Alignment explanation
Indices: 13612--15374 Score: 612
Period size: 10 Copynumber: 177.8 Consensus size: 10
13602 AATGTTTAAA
13612 CTTAAAAATC
1 CTTAAAAATC
13622 CTTAAAAATC
1 CTTAAAAATC
*
13632 TTTTAGAAAA-C
1 -CTTA-AAAATC
* *
13643 ATTAAAAATT
1 CTTAAAAATC
13653 CTTAAAAATC
1 CTTAAAAATC
* *
13663 CATAAAAAAC
1 CTTAAAAATC
*
13673 CATAAAAATC
1 CTTAAAAATC
*
13683 CTTTAAAAAAC
1 C-TTAAAAATC
13694 CTTAAAAATC
1 CTTAAAAATC
13704 CTTAATAAA-C
1 CTTAA-AAATC
* *
13714 TTTTAAAATC
1 CTTAAAAATC
*
13724 CTTAAATATC
1 CTTAAAAATC
* ****
13734 TTTAAGTCGC
1 CTTAAAAATC
**
13744 CTTAAAAAAA
1 CTTAAAAATC
*
13754 CTTAAAAA-A
1 CTTAAAAATC
13763 CTGTAAAAATGC
1 CT-TAAAAAT-C
*
13775 TTTAAAAA-C
1 CTTAAAAATC
*
13784 CTTAAAAATT
1 CTTAAAAATC
* *
13794 CTTCACAATC
1 CTTAAAAATC
* *
13804 CCTAAGAATC
1 CTTAAAAATC
** *
13814 AGTAAAAAAC
1 CTTAAAAATC
*
13824 CTTAAAACTC
1 CTTAAAAATC
* * *
13834 ATACAAAAAACC
1 CT--TAAAAATC
13846 CTT--AAAT-
1 CTTAAAAATC
*
13853 -TTAAAAAAC
1 CTTAAAAATC
13862 CTTTAAAAA-C
1 C-TTAAAAATC
*
13872 CATAAAAA-C
1 CTTAAAAATC
*
13881 CTTTAAAAATA
1 C-TTAAAAATC
*
13892 CATAAAAA-C
1 CTTAAAAATC
13901 CTTAAAAATC
1 CTTAAAAATC
*
13911 CTTAATAATC
1 CTTAAAAATC
*
13921 CTTAAGAAAAC
1 CTTAA-AAATC
*
13932 CTTGGAAAA-C
1 CTT-AAAAATC
*
13942 CTTAAAAACAC
1 CTTAAAAA-TC
13953 CTTAAAAATC
1 CTTAAAAATC
* *
13963 TTTAAATATC
1 CTTAAAAATC
*
13973 CCTAAAAAT-
1 CTTAAAAATC
*
13982 CTTTAAAATC
1 CTTAAAAATC
*
13992 CTTAAAAAAC
1 CTTAAAAATC
* *
14002 CTAAAAAATT
1 CTTAAAAATC
14012 CTTAAAAATC
1 CTTAAAAATC
* *
14022 CATAAAAA-A
1 CTTAAAAATC
*
14031 CTATAAAAAAAC
1 CT-T-AAAAATC
*
14043 C-CATAAAAT-
1 CTTA-AAAATC
*
14052 CTT--TAAT-
1 CTTAAAAATC
14059 CTTAAAAATC
1 CTTAAAAATC
* *
14069 CCTAAGAATC
1 CTTAAAAATC
14079 CTTTAAAAATC
1 C-TTAAAAATC
*
14090 CTT-AAAATT
1 CTTAAAAATC
* **
14099 CTAAAAAAAAAAA
1 CT---TAAAAATC
*
14112 CTATAAAAAAC
1 CT-TAAAAATC
14123 CTT-AAAATC
1 CTTAAAAATC
14132 CTT--AAA--
1 CTTAAAAATC
*
14138 CATAAAAATC
1 CTTAAAAATC
14148 CTTAAAAATC
1 CTTAAAAATC
* *
14158 GTTTCAAAA-C
1 -CTTAAAAATC
* *
14168 CATAAAAATT
1 CTTAAAAATC
*
14178 CTTTAAAAT-
1 CTTAAAAATC
14187 CTTCAAAAAT-
1 CTT-AAAAATC
*
14197 ATATAAAAA-C
1 CT-TAAAAATC
*
14207 CATAAAAATC
1 CTTAAAAATC
*
14217 CTTAAAGAAAC
1 CTTAAA-AATC
*
14228 ATTAAAAA-C
1 CTTAAAAATC
*
14237 ATTAAAAATC
1 CTTAAAAATC
*
14247 CTTAATAAA-A
1 CTTAA-AAATC
*
14257 CTTAAAAAGAC
1 CTTAAAAA-TC
*
14268 CTTCAAAATC
1 CTTAAAAATC
* *
14278 CTTACAAATT
1 CTTAAAAATC
14288 CTTAAAAATC
1 CTTAAAAATC
* **
14298 TTTATAAAAAAA
1 -CT-TAAAAATC
*
14310 ATTAAAAATC
1 CTTAAAAATC
**
14320 CTTAAAAAAA
1 CTTAAAAATC
*
14330 CTATAGAAAAAC
1 CT-TA-AAAATC
*
14342 CTT-AAAATA
1 CTTAAAAATC
14351 CTT---AA-C
1 CTTAAAAATC
*
14357 CTTAAAAAAC
1 CTTAAAAATC
*
14367 CCTAAAAATC
1 CTTAAAAATC
*
14377 TTTAAAAAGAT-
1 CTT-AAAA-ATC
14388 CTTAAAAATC
1 CTTAAAAATC
*
14398 CCTAAATAA--
1 CTTAAA-AATC
14407 CTATAAAAATC
1 CT-TAAAAATC
*
14418 CTTCAAAATC
1 CTTAAAAATC
* *
14428 CTTTAAAATT
1 CTTAAAAATC
14438 CTTAAAAAT-
1 CTTAAAAATC
* *
14447 GTTAACAAAAC
1 CTTAA-AAATC
*
14458 CTTAAAAATG
1 CTTAAAAATC
*
14468 ATTAAAAATC
1 CTTAAAAATC
* *
14478 TTTAAAAAAC
1 CTTAAAAATC
14488 CTT-AAAATC
1 CTTAAAAATC
* *
14497 ATTACAAATC
1 CTTAAAAATC
* *
14507 TTTTAAAATC
1 CTTAAAAATC
*
14517 CTTTAAAGA--
1 C-TTAAAAATC
*
14526 CTTTAAAATC
1 CTTAAAAATC
* *
14536 CTTCAAATTC
1 CTTAAAAATC
14546 CTTAAAAATC
1 CTTAAAAATC
*
14556 CATAAAAA-C
1 CTTAAAAATC
**
14565 CTTACTAATC
1 CTTAAAAATC
14575 CTTTAAAAAT-
1 C-TTAAAAATC
*
14585 GTTAAAAATC
1 CTTAAAAATC
14595 CTTAAAAATC
1 CTTAAAAATC
* * *
14605 CATGAAAACC
1 CTTAAAAATC
* *
14615 CTCAAAAACC
1 CTTAAAAATC
* *
14625 CATCAAAATC
1 CTTAAAAATC
14635 CTT-AAAATC
1 CTTAAAAATC
*
14644 CTTAAAAACC
1 CTTAAAAATC
*
14654 CTTAACAATC
1 CTTAAAAATC
*
14664 CTTTAAAATC
1 CTTAAAAATC
* *
14674 CTTCAGAATC
1 CTTAAAAATC
*
14684 TTTAAAAATC
1 CTTAAAAATC
**
14694 CTTAAGCATC
1 CTTAAAAATC
14704 CTTAAAAATC
1 CTTAAAAATC
* *
14714 CTTAAAAGTG
1 CTTAAAAATC
14724 CTTAAAAA-C
1 CTTAAAAATC
*
14733 CTTAAAAATG
1 CTTAAAAATC
*
14743 CTTATAAA-C
1 CTTAAAAATC
14752 CTTTAAAAA-C
1 C-TTAAAAATC
* *
14762 CTCTCAAATTC
1 CT-TAAAAATC
*
14773 CTTATAAATC
1 CTTAAAAATC
14783 CTT-AAAATC
1 CTTAAAAATC
*
14792 ATTAAAAAAT-
1 CTT-AAAAATC
* *
14802 CATGAAAATC
1 CTTAAAAATC
14812 CTTAAAAATC
1 CTTAAAAATC
* *
14822 CTTCAAAATT
1 CTTAAAAATC
* *
14832 CTTTAAAATT
1 CTTAAAAATC
** **
14842 AGTAAGTATC
1 CTTAAAAATC
14852 CTTAAAAATC
1 CTTAAAAATC
*
14862 C-TAAAAACC
1 CTTAAAAATC
*
14871 CATAAAAAAT-
1 C-TTAAAAATC
*
14881 CTTAAACCCTAAAC
1 CTTAAA----AATC
* * *
14895 CCTAAGCCCTAAGC
1 CTTAA----AAATC
* *
14909 CCT-AAAATG
1 CTTAAAAATC
14918 CTT---AAT-
1 CTTAAAAATC
*
14924 ATTAAAAATC
1 CTTAAAAATC
14934 CTTAAAAATC
1 CTTAAAAATC
*
14944 TTTTAAAAA-C
1 -CTTAAAAATC
** *
14954 CTTAAGGATT
1 CTTAAAAATC
14964 CTTAAAAATTC
1 CTTAAAAA-TC
* *
14975 ATAAAAAAT-
1 CTTAAAAATC
* *
14984 CTCAAAATTC
1 CTTAAAAATC
*
14994 CTTAAAAATT
1 CTTAAAAATC
*
15004 CTTAAAAACC
1 CTTAAAAATC
*
15014 CTT----ACC
1 CTTAAAAATC
15020 CTTAAAAATC
1 CTTAAAAATC
15030 CTTAAAAAGT-
1 CTTAAAAA-TC
*
15040 CTTTAAAATC
1 CTTAAAAATC
* *
15050 TTTCAAAATC
1 CTTAAAAATC
15060 CTTAAAAA-C
1 CTTAAAAATC
15069 CTT--AAA--
1 CTTAAAAATC
*
15075 CTCAAAAATC
1 CTTAAAAATC
* *
15085 TTTTAAAATC
1 CTTAAAAATC
15095 CTTTAAAAA-C
1 C-TTAAAAATC
*
15105 CATAAAAATC
1 CTTAAAAATC
*
15115 CTTAAAAATA
1 CTTAAAAATC
*
15125 CATAAAAA-C
1 CTTAAAAATC
*
15134 CTTCAAAATC
1 CTTAAAAATC
* *
15144 ATTTAAAAAAC
1 -CTTAAAAATC
15155 CATTAAAAA--
1 C-TTAAAAATC
*
15164 CTTAGAAATC
1 CTTAAAAATC
* *
15174 TTTAAAAAAAAAC
1 CTT---AAAAATC
15187 CTTAAAAATC
1 CTTAAAAATC
* * *
15197 TTTTAAAATA
1 CTTAAAAATC
* *
15207 CTTAAAATTT
1 CTTAAAAATC
*
15217 CTTGAAAATC
1 CTTAAAAATC
15227 CTTAAAAAT-
1 CTTAAAAATC
*
15236 CTTCCAAAA-C
1 CTT-AAAAATC
* *
15246 ATATAAAAA-A
1 CT-TAAAAATC
15256 CTATAAAAATAC
1 CT-TAAAAAT-C
15268 CTT-AAAATC
1 CTTAAAAATC
15277 CTTTAAAAA-C
1 C-TTAAAAATC
* *
15287 CATAAAAGTC
1 CTTAAAAATC
*
15297 CTTAAGAATC
1 CTTAAAAATC
*
15307 CTTAAAAATA
1 CTTAAAAATC
*
15317 CATAAAAA-C
1 CTTAAAAATC
15326 C-TACAAAATC
1 CTTA-AAAATC
*
15336 ATTAAAAATC
1 CTTAAAAATC
* *
15346 AATAAAAAAAT-
1 -CT-TAAAAATC
*
15357 ATTAAAAATC
1 CTTAAAAATC
15367 CTTAAAAA
1 CTTAAAAA
15375 GACCATAAAT
Statistics
Matches: 1283, Mismatches: 332, Indels: 276
0.68 0.18 0.15
Matches are distributed among these distances:
6 17 0.01
7 14 0.01
8 28 0.02
9 231 0.18
10 749 0.58
11 182 0.14
12 36 0.03
13 16 0.01
14 10 0.01
ACGTcount: A:0.51, C:0.18, G:0.02, T:0.29
Consensus pattern (10 bp):
CTTAAAAATC
Found at i:13670 original size:21 final size:21
Alignment explanation
Indices: 13612--13729 Score: 88
Period size: 21 Copynumber: 5.8 Consensus size: 21
13602 AATGTTTAAA
13612 CTTAAAAATCCTT-AAAAATCT
1 CTTAAAAATCCTTAAAAAAT-T
* *
13633 TTTAGAAAA-CATT-AAAAATT
1 CTTA-AAAATCCTTAAAAAATT
* *
13653 CTTAAAAATCCATAAAAAA-C
1 CTTAAAAATCCTTAAAAAATT
* *
13673 CATAAAAATCCTTTAAAAAA-C
1 CTTAAAAATCC-TTAAAAAATT
*
13694 CTTAAAAATCCTTAATAAACTT
1 CTTAAAAATCCTTAA-AAAATT
13716 -TT-AAAATCCTTAAA
1 CTTAAAAATCCTTAAA
13730 TATCTTTAAG
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
19 5 0.06
20 31 0.39
21 40 0.50
22 4 0.05
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.31
Consensus pattern (21 bp):
CTTAAAAATCCTTAAAAAATT
Found at i:13722 original size:41 final size:40
Alignment explanation
Indices: 13612--13726 Score: 115
Period size: 41 Copynumber: 2.8 Consensus size: 40
13602 AATGTTTAAA
* * **
13612 CTTAAAAATCCTTAAAAATCTTTTAGAAA-ACATTAAAAATT
1 CTTAAAAATCCTTAAAAA-CTTTTA-AAATCCTTTAAAAAAC
* ** *
13653 CTTAAAAATCCATAAAAAACCATAAAAATCCTTTAAAAAAC
1 CTTAAAAATCC-TTAAAAACTTTTAAAATCCTTTAAAAAAC
13694 CTTAAAAATCCTTAATAAACTTTTAAAATCCTT
1 CTTAAAAATCCTTAA-AAACTTTTAAAATCCTT
13727 AAATATCTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
40 6 0.10
41 47 0.80
42 6 0.10
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (40 bp):
CTTAAAAATCCTTAAAAACTTTTAAAATCCTTTAAAAAAC
Found at i:14131 original size:79 final size:81
Alignment explanation
Indices: 14025--14179 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 81
14015 AAAAATCCAT
* * * *
14025 AAAAAACTATAAAAAAACCCATAAAATCTTTAATCTTAAAAATCCCTAAGAATCCTTTAAAAATC
1 AAAAAACTATAAAAAAACCCATAAAATCCTTAAACATAAAAATCCCTAAAAATCCTTTAAAAA-C
*
14090 C-TTAAAATTCTAAAAA
65 CATAAAAATTCTAAAAA
* * * *
14106 AAAAAACTAT-AAAAAA-CCTTAAAATCCTTAAACATAAAAATCCTTAAAAATCGTTTCAAAACC
1 AAAAAACTATAAAAAAACCCATAAAATCCTTAAACATAAAAATCCCTAAAAATCCTTTAAAAACC
14169 ATAAAAATTCT
66 ATAAAAATTCT
14180 TTAAAATCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
78 2 0.03
79 46 0.72
80 6 0.09
81 10 0.16
ACGTcount: A:0.55, C:0.17, G:0.01, T:0.26
Consensus pattern (81 bp):
AAAAAACTATAAAAAAACCCATAAAATCCTTAAACATAAAAATCCCTAAAAATCCTTTAAAAACC
ATAAAAATTCTAAAAA
Found at i:14243 original size:39 final size:39
Alignment explanation
Indices: 14163--14275 Score: 97
Period size: 39 Copynumber: 2.8 Consensus size: 39
14153 AAATCGTTTC
* * * *
14163 AAAACCATAAAAATTCTTTAAAATCTTCAAAAATATATA
1 AAAACCATAAAAATCCTTAAAAAACTTCAAAAACATATA
14202 AAAACCATAAAAATCCTTAAAGAAACATT-AAAAACAT-TA
1 AAAACCATAAAAATCCTTAAA-AAAC-TTCAAAAACATATA
* *
14241 AAAATCCTTAATAAA-ACTTAAAAAGACCTTCAAAA
1 AAAA-CCATAA-AAATCCTTAAAAA-A-CTTCAAAA
14276 TCCTTACAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
39 27 0.44
40 24 0.39
41 10 0.16
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (39 bp):
AAAACCATAAAAATCCTTAAAAAACTTCAAAAACATATA
Found at i:14315 original size:22 final size:21
Alignment explanation
Indices: 14289--14329 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
14279 TTACAAATTC
*
14289 TTAAAAATCTTTATAAAAAAAA
1 TTAAAAATCCTTA-AAAAAAAA
14311 TTAAAAATCCTTAAAAAAA
1 TTAAAAATCCTTAAAAAAA
14330 CTATAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (21 bp):
TTAAAAATCCTTAAAAAAAAA
Found at i:14339 original size:22 final size:20
Alignment explanation
Indices: 14302--14348 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 20
14292 AAAATCTTTA
*
14302 TAAAAAAAATTAAAAATCCT
1 TAAAAAAAATTAAAAAACCT
*
14322 TAAAAAAACTATAGAAAAACCT
1 TAAAAAAAAT-TA-AAAAACCT
14344 TAAAA
1 TAAAA
14349 TACTTAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.39
21 2 0.09
22 12 0.52
ACGTcount: A:0.66, C:0.11, G:0.02, T:0.21
Consensus pattern (20 bp):
TAAAAAAAATTAAAAAACCT
Found at i:15084 original size:55 final size:56
Alignment explanation
Indices: 14996--15122 Score: 141
Period size: 55 Copynumber: 2.3 Consensus size: 56
14986 CAAAATTCCT
* ** * * **
14996 TAAAAATTCTTAAAAACCCTTACCCTTAAAAATCCTTAAAAAGT-CTTTAAAATCTT
1 TAAAAATCCTTAAAAACCCTTAAACTCAAAAATCCTTAAAAA-TCCTTTAAAAACCA
* * *
15052 TCAAAATCCTTAAAAA-CCTTAAACTCAAAAATCTTTTAAAATCCTTTAAAAACCA
1 TAAAAATCCTTAAAAACCCTTAAACTCAAAAATCCTTAAAAATCCTTTAAAAACCA
15107 TAAAAATCCTTAAAAA
1 TAAAAATCCTTAAAAA
15123 TACATAAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.75
56 14 0.24
ACGTcount: A:0.49, C:0.20, G:0.01, T:0.31
Consensus pattern (56 bp):
TAAAAATCCTTAAAAACCCTTAAACTCAAAAATCCTTAAAAATCCTTTAAAAACCA
Found at i:15090 original size:45 final size:46
Alignment explanation
Indices: 15033--15120 Score: 119
Period size: 45 Copynumber: 1.9 Consensus size: 46
15023 AAAAATCCTT
* *
15033 AAAAAGTCTTTAAAAT-CTTTCAAAATCCTTAAAAA-CCTTAAACTC
1 AAAAAGTCTTTAAAATCCTTT-AAAAACCATAAAAATCCTTAAACTC
15078 AAAAA-TCTTTTAAAATCCTTTAAAAACCATAAAAATCCTTAAA
1 AAAAAGTC-TTTAAAATCCTTTAAAAACCATAAAAATCCTTAAA
15121 AATACATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
44 2 0.05
45 25 0.66
46 11 0.29
ACGTcount: A:0.50, C:0.18, G:0.01, T:0.31
Consensus pattern (46 bp):
AAAAAGTCTTTAAAATCCTTTAAAAACCATAAAAATCCTTAAACTC
Found at i:15183 original size:30 final size:29
Alignment explanation
Indices: 15098--15183 Score: 86
Period size: 29 Copynumber: 2.9 Consensus size: 29
15088 TAAAATCCTT
* * * *
15098 TAAAAACCATAAAAATCCTTAAAAATACA
1 TAAAAACCTTCAAAATCTTTAAAAAAACA
*
15127 TAAAAACCTTCAAAATCATTTAAAAAACCA
1 TAAAAACCTTCAAAATC-TTTAAAAAAACA
15157 TTAAAAA-CTT-AGAAATCTTTAAAAAAA
1 -TAAAAACCTTCA-AAATCTTTAAAAAAA
15184 AACCTTAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 25 0.52
30 17 0.35
31 6 0.12
ACGTcount: A:0.59, C:0.15, G:0.01, T:0.24
Consensus pattern (29 bp):
TAAAAACCTTCAAAATCTTTAAAAAAACA
Found at i:15190 original size:23 final size:22
Alignment explanation
Indices: 15159--15204 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
15149 AAAAACCATT
*
15159 AAAAACTTAGAAATCTTTAAAA
1 AAAAACTTAAAAATCTTTAAAA
*
15181 AAAAACCTTAAAAATCTTTTAAA
1 AAAAA-CTTAAAAATCTTTAAAA
15204 A
1 A
15205 TACTTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.28
Consensus pattern (22 bp):
AAAAACTTAAAAATCTTTAAAA
Found at i:16133 original size:20 final size:20
Alignment explanation
Indices: 16091--16133 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
16081 GATAGAGAAC
**
16091 TCTTAGTTGACTAACTTTCT
1 TCTTAGTTGACTAACTTGAT
*
16111 TCTTAGTTGACTAAGTTGAT
1 TCTTAGTTGACTAACTTGAT
16131 TCT
1 TCT
16134 ATCTTCTGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (20 bp):
TCTTAGTTGACTAACTTGAT
Found at i:16252 original size:72 final size:72
Alignment explanation
Indices: 16166--16352 Score: 320
Period size: 72 Copynumber: 2.6 Consensus size: 72
16156 TAGAGAACAT
** * *
16166 TTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTTTGTCTTGAAGTCCATATTTTGGCAA
1 TTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTTCTGTCTTGAAGTCCAGATTTTGGCAA
16231 TAGCTTC
66 TAGCTTC
*
16238 TTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTTCTGTCTTGAAGTCCAGATTTTGGCAG
1 TTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTTCTGTCTTGAAGTCCAGATTTTGGCAA
16303 TAGCTTC
66 TAGCTTC
*
16310 TTAGTCAACTAACTCACATCTTGGTCGACTAAGTTGGTTCTGT
1 TTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTTCTGT
16353 TTCTCAATAT
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 109 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (72 bp):
TTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTTCTGTCTTGAAGTCCAGATTTTGGCAA
TAGCTTC
Found at i:24802 original size:72 final size:71
Alignment explanation
Indices: 24668--24928 Score: 299
Period size: 72 Copynumber: 3.6 Consensus size: 71
24658 TGCAGACAGA
** * * ***
24668 GAGCTTTTAGTCGACTAACTTTCTTCTTGGTCAACT-AGTTGGTTTTGTCTTTTTGTCGCAGATT
1 GAGCTTTTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTTTTGTCTTGAAGTC-CAGATT
*
24732 CTGGCAG
65 TTGGCAG
* **
24739 AGAGCATTTAGTCGACTAACTCATTTCTTGGTCGACTAAGTTGGTTTTGTCTTGAAGTCCAGATT
1 -GAGCTTTTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTTTTGTCTTGAAGTCCAGATT
*
24804 TTGGTAG
65 TTGGCAG
* * ** * * *
24811 TAGCTTCTTGGTCGACTAACTCACATCTCAGTCGACTAAGTTGGTTCTGTCTTGAAGTCTAAATT
1 GAGCTT-TTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTTTTGTCTTGAAGTCCAGATT
24876 TTGGCAG
65 TTGGCAG
*
24883 TAGCTTTTTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTT
1 GAGC-TTTTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTT
24929 CTATTTCTCA
Statistics
Matches: 162, Mismatches: 24, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
71 4 0.02
72 138 0.85
73 20 0.12
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (71 bp):
GAGCTTTTAGTCGACTAACTCACATCTTGGTCGACTAAGTTGGTTTTGTCTTGAAGTCCAGATTT
TGGCAG
Found at i:25206 original size:10 final size:10
Alignment explanation
Indices: 25193--25240 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
25183 ATAAATATCT
*
25193 TTAAAAATTC
1 TTAAAAATAC
25203 TTAAAAAT-C
1 TTAAAAATAC
*
25212 ATTAGAAATAC
1 -TTAAAAATAC
*
25223 TTAAAAAGAC
1 TTAAAAATAC
25233 TTAAAAAT
1 TTAAAAAT
25241 CTTTAAAGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 1 0.03
10 30 0.94
11 1 0.03
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.31
Consensus pattern (10 bp):
TTAAAAATAC
Found at i:25284 original size:10 final size:10
Alignment explanation
Indices: 25269--25435 Score: 84
Period size: 10 Copynumber: 17.2 Consensus size: 10
25259 AAAAAACCTT
*
25269 AATCTTTAAA
1 AATCCTTAAA
*
25279 AATCTTTAAA
1 AATCCTTAAA
25289 AA-CCTTAAA
1 AATCCTTAAA
*
25298 AATTCTTAAA
1 AATCCTTAAA
*
25308 AATCCATAGAA
1 AATCCTTA-AA
25319 AA-CCTTAAA
1 AATCCTTAAA
*
25328 AATCATTAAA
1 AATCCTTAAA
*
25338 AA-ACTACTAAA
1 AATCCT--TAAA
*
25349 AAACCTT--A
1 AATCCTTAAA
*
25357 ATTCCTT---
1 AATCCTTAAA
25364 AAT-CTTAAA
1 AATCCTTAAA
*
25373 AATCCTCAAA
1 AATCCTTAAA
25383 AATTCCTATAAA
1 AA-TCCT-TAAA
*
25395 AA-CATTAAA
1 AATCCTTAAA
*
25404 AATCCATAAA
1 AATCCTTAAA
** *
25414 AAAACTCAAA
1 AATCCTTAAA
*
25424 CATCCTTAAA
1 AATCCTTAAA
25434 AA
1 AA
25436 AGTCTTAAAC
Statistics
Matches: 118, Mismatches: 26, Indels: 26
0.69 0.15 0.15
Matches are distributed among these distances:
6 3 0.03
7 2 0.02
8 6 0.05
9 22 0.19
10 64 0.54
11 14 0.12
12 7 0.06
ACGTcount: A:0.54, C:0.18, G:0.01, T:0.28
Consensus pattern (10 bp):
AATCCTTAAA
Found at i:25669 original size:20 final size:19
Alignment explanation
Indices: 25645--25701 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
25635 AAAATTTCTT
*
25645 TAAAAACCATAAAAATCCA
1 TAAAAACCTTAAAAATCCA
* * *
25664 TGAAAATCTTTAAAAATTCA
1 T-AAAAACCTTAAAAATCCA
*
25684 TATAAACCTTAAAAATCC
1 TAAAAACCTTAAAAATCC
25702 TTTTAAAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.54, C:0.18, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAAACCTTAAAAATCCA
Found at i:25716 original size:13 final size:12
Alignment explanation
Indices: 25692--25732 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
25682 CATATAAACC
* *
25692 TTAAAAATCCTT
1 TTAAAAAACCCT
25704 TTAAAAAACCCT
1 TTAAAAAACCCT
25716 TT-AAAAA-CCT
1 TTAAAAAACCCT
25726 TTAAAAA
1 TTAAAAA
25733 CTTTTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
10 5 0.19
11 9 0.35
12 12 0.46
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (12 bp):
TTAAAAAACCCT
Found at i:25736 original size:9 final size:10
Alignment explanation
Indices: 25687--25741 Score: 58
Period size: 10 Copynumber: 5.2 Consensus size: 10
25677 AAATTCATAT
25687 AAACC-TTAA
1 AAACCTTTAA
25696 AAATCCTTTTAAA
1 AAA-CC-TTT-AA
25709 AAACCCTTTAA
1 AAA-CCTTTAA
25720 AAACCTTTAA
1 AAACCTTTAA
*
25730 AAACTTTTAA
1 AAACCTTTAA
25740 AA
1 AA
25742 TTTTTTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 3 0.08
10 20 0.50
11 5 0.12
12 5 0.12
13 7 0.17
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (10 bp):
AAACCTTTAA
Found at i:25801 original size:20 final size:20
Alignment explanation
Indices: 25646--25791 Score: 57
Period size: 20 Copynumber: 7.2 Consensus size: 20
25636 AAATTTCTTT
* * *
25646 AAAAACCATAAAAATCCATG
1 AAAAACCTTAAAAATCCTTA
* * * *
25666 AAAATCTTTAAAAATTCAT-
1 AAAAACCTTAAAAATCCTTA
*
25685 ATAAACCTTAAAAATCCTTTTA
1 AAAAACCTTAAAAATCC--TTA
*
25707 AAAAACCCTTTAAAAA-CCTTT
1 AAAAA-CC-TTAAAAATCCTTA
* * **
25728 AAAAACTTTTAAAATTTTTTTA
1 AAAAAC-CTTAAAA-ATCCTTA
*
25750 AAAAA--TTAAACATCCTTA
1 AAAAACCTTAAAAATCCTTA
** *
25768 AAACTCCTTAAAAAACCTTA
1 AAAAACCTTAAAAATCCTTA
25788 AAAA
1 AAAA
25792 TTCTTTAAAA
Statistics
Matches: 91, Mismatches: 25, Indels: 20
0.67 0.18 0.15
Matches are distributed among these distances:
18 7 0.08
19 18 0.20
20 36 0.40
21 8 0.09
22 11 0.12
23 4 0.04
24 7 0.08
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (20 bp):
AAAAACCTTAAAAATCCTTA
Found at i:25902 original size:10 final size:10
Alignment explanation
Indices: 25845--30490 Score: 910
Period size: 10 Copynumber: 472.9 Consensus size: 10
25835 TCTTTAACCG
25845 TAAAAAT-CT
1 TAAAAATCCT
*
25854 TAAAAATCCC
1 TAAAAATCCT
*
25864 TAAGAATCCT
1 TAAAAATCCT
*
25874 TAAAAAAAACCT
1 T--AAAAATCCT
25886 TAAAAATCCT
1 TAAAAATCCT
* **
25896 TCAAAATTGT
1 TAAAAATCCT
*
25906 AAAAAAT-CT
1 TAAAAATCCT
*
25915 T-AAATTCCT
1 TAAAAATCCT
*
25924 T--AAA--CA
1 TAAAAATCCT
25930 TAAAAATCCTT
1 TAAAAATCC-T
* **
25941 TAAAATTATT
1 TAAAAATCCT
* *
25951 TAAAAA-GCA
1 TAAAAATCCT
*
25960 TAAAAATCAT
1 TAAAAATCCT
* * *
25970 CAAAAATACA
1 TAAAAATCCT
25980 TAAAAA-CCT
1 TAAAAATCCT
*
25989 TAAAAA-ACT
1 TAAAAATCCT
**
25998 TAAAAAGACT
1 TAAAAATCCT
* *
26008 TCCAAAATCTT
1 T-AAAAATCCT
* *
26019 TAAAAATTCA
1 TAAAAATCCT
* *
26029 TAAATATACT
1 TAAAAATCCT
*
26039 T-AAAATACGT
1 TAAAAAT-CCT
26049 TAAAAATCCT
1 TAAAAATCCT
* *
26059 GAAAAA-ACT
1 TAAAAATCCT
*
26068 ATAAAAAACCT
1 -TAAAAATCCT
*
26079 T-AAAATACT
1 TAAAAATCCT
26088 T---AA-CCT
1 TAAAAATCCT
26094 TAACAAATCC-
1 TAA-AAATCCT
26104 TAAAAATCCT
1 TAAAAATCCT
*
26114 TAAAAAGAT-AT
1 T-AAAA-ATCCT
**
26125 TAAAAATCAG
1 TAAAAATCCT
*
26135 TAACAA-CCT
1 TAAAAATCCT
26144 ATAAAAAT-CT
1 -TAAAAATCCT
26154 TAAAAAATCCT
1 T-AAAAATCCT
*
26165 TAAAAATGCT
1 TAAAAATCCT
**
26175 TAAAAATGAT
1 TAAAAATCCT
26185 T-AAAATCCT
1 TAAAAATCCT
* *
26194 TAGAAATGCT
1 TAAAAATCCT
*
26204 AAAAAAGT--T
1 TAAAAA-TCCT
* *
26213 AAAAAATACT
1 TAAAAATCCT
**
26223 TAAAAATGGT
1 TAAAAATCCT
26233 TAAAGAA-CCT
1 TAAA-AATCCT
26243 TAAAAATCCT
1 TAAAAATCCT
*
26253 TAAAAAACCT
1 TAAAAATCCT
*
26263 CAAAAAT-CT
1 TAAAAATCCT
* *
26272 TGACAAATCTT
1 T-AAAAATCCT
*
26283 TTAAAATCCTT
1 TAAAAATCC-T
*
26294 TAAAGA-CCT
1 TAAAAATCCT
**
26303 TAGGTATGGAT-CT
1 TA---A-AAATCCT
**
26316 TATATTTAAATATT
1 TA-A---AAATCCT
** ** *
26330 TTCATTTTCT
1 TAAAAATCCT
*
26340 TAAAAATCCC
1 TAAAAATCCT
* *
26350 TAAGAATCTT
1 TAAAAATCCT
26360 TATAAAA-CCT
1 TA-AAAATCCT
26370 TAAAAAT-CT
1 TAAAAATCCT
* **
26379 TTAAAAGGCT
1 TAAAAATCCT
* * *
26389 ATCAAAAGCAT
1 -TAAAAATCCT
26400 T-AAAATCCT
1 TAAAAATCCT
*
26409 T--AAA--CA
1 TAAAAATCCT
26415 TAAAAATCCT
1 TAAAAATCCT
**
26425 TAAAAATTGTT
1 TAAAAA-TCCT
*
26436 TAAGAA--CT
1 TAAAAATCCT
*
26444 ATAAAAATTCT
1 -TAAAAATCCT
*
26455 TTAAAATCCT
1 TAAAAATCCT
* *
26465 CAAAAATACAT
1 TAAAAAT-CCT
26476 T-AAAA-CCT
1 TAAAAATCCT
*
26484 TAAAAAACCT
1 TAAAAATCCT
*
26494 TAAAAA-ACT
1 TAAAAATCCT
**
26503 TAAAAAGAACT
1 TAAAAA-TCCT
* *
26514 TCAAAATCTT
1 TAAAAATCCT
26524 TAAAAAAT-CT
1 T-AAAAATCCT
* *
26534 TAAATAT-AT
1 TAAAAATCCT
* *
26543 TTAAAATACGT
1 TAAAAAT-CCT
*
26554 TAAAAATGCT
1 TAAAAATCCT
**
26564 TAAAAAATTAT
1 T-AAAAATCCT
* *
26575 AAAAAAGCCT
1 TAAAAATCCT
* *
26585 GAAAAATACT
1 TAAAAATCCT
26595 T---AA-CCT
1 TAAAAATCCT
26601 TAAAAAATCC-
1 T-AAAAATCCT
*
26611 TAAAAATCTTT
1 TAAAAATC-CT
*
26622 TAAAAAGACCT
1 TAAAAA-TCCT
26633 TAAAAATCACT
1 TAAAAATC-CT
* *
26644 AAAAAAT-GT
1 TAAAAATCCT
26653 TAAAAATCCTT
1 TAAAAATCC-T
*
26664 TAAAAAT-GT
1 TAAAAATCCT
*
26673 TAAAAAT-CG
1 TAAAAATCCT
26682 TAAAAGAT-CT
1 TAAAA-ATCCT
*
26692 ATAAAAA-ACT
1 -TAAAAATCCT
*
26702 GTAAAAA-CTCA
1 -TAAAAATC-CT
*
26713 TAAAAATCTT
1 TAAAAATCCT
*
26723 TCAAAATCCT
1 TAAAAATCCT
*
26733 TAAAAAAACCT
1 T-AAAAATCCT
*
26744 TGAAAATCCT
1 TAAAAATCCT
* **
26754 TAATAA-GAT
1 TAAAAATCCT
*
26763 TAAAATTCCT
1 TAAAAATCCT
*
26773 TAACAATCCT
1 TAAAAATCCT
* *
26783 TTAAAGTCCT
1 TAAAAATCCT
*
26793 TCAAAATCCT
1 TAAAAATCCT
*
26803 TAAAAATCTT
1 TAAAAATCCT
* **
26813 TAAACATATT
1 TAAAAATCCT
***
26823 TAAGTTTCCT
1 TAAAAATCCT
26833 TAAATTGTTTAAT-CT
1 TAAA------AATCCT
26848 TAAAAATCCT
1 TAAAAATCCT
26858 TAAAAAT--T
1 TAAAAATCCT
*
26866 TTAAAAT-CT
1 TAAAAATCCT
*
26875 ATGAAAAAACCT
1 -T-AAAAATCCT
26887 T-AAAAT-CT
1 TAAAAATCCT
*
26895 T--TAA-CCT
1 TAAAAATCCT
26902 TAAAAATCCT
1 TAAAAATCCT
*
26912 TAAAAATCTAT
1 TAAAAATC-CT
26923 TAAAAA-CCT
1 TAAAAATCCT
** *
26932 TAAGGATTCT
1 TAAAAATCCT
* *
26942 TAAAACTTCAT
1 TAAAA-ATCCT
*
26953 GAAAAA-CCT
1 TAAAAATCCT
26962 TAAAAATCCT
1 TAAAAATCCT
**
26972 TAAAAATTAT
1 TAAAAATCCT
* *
26982 GAAAAA-ACT
1 TAAAAATCCT
* *
26991 ATAAAAAACCA
1 -TAAAAATCCT
27002 T-AAAA-CCT
1 TAAAAATCCT
* *
27010 T--TAA-CCC
1 TAAAAATCCT
27017 TAAAAATCCT
1 TAAAAATCCT
**
27027 TAAAAGCCCT
1 TAAAAATCCT
* *
27037 TAATAATCGT
1 TAAAAATCCT
*
27047 TGAAAATCCT
1 TAAAAATCCT
*
27057 TCAAAATCCT
1 TAAAAATCCT
*
27067 TAAATATCCT
1 TAAAAATCCT
* **
27077 TAAAGATTTT
1 TAAAAATCCT
27087 TAAAAA-CCT
1 TAAAAATCCT
*
27096 T-AAAATACT
1 TAAAAATCCT
*
27105 T--GAA--CT
1 TAAAAATCCT
27111 TAAAAATCCT
1 TAAAAATCCT
*
27121 TTAAAATCCTT
1 TAAAAATCC-T
*
27132 TAAAAAT-CA
1 TAAAAATCCT
27141 TAAAAATCCT
1 TAAAAATCCT
***
27151 TAAAAATAAA
1 TAAAAATCCT
*
27161 T-AAAAGCCT
1 TAAAAATCCT
*
27170 TAAAAACCCTT
1 TAAAAATCC-T
*
27181 TAAAAA--GT
1 TAAAAATCCT
**
27189 TAAAAATTTT
1 TAAAAATCCT
*
27199 TAAAAAGCCT
1 TAAAAATCCT
*
27209 TAAAAAACCT
1 TAAAAATCCT
27219 TAAAAATCCCT
1 TAAAAAT-CCT
*
27230 CAAAAATCCT
1 TAAAAATCCT
*
27240 TAAAAATTCT
1 TAAAAATCCT
* *
27250 TAAAATTTCT
1 TAAAAATCCT
* *
27260 TGAAAATACT
1 TAAAAATCCT
*
27270 TAAAAAT-AT
1 TAAAAATCCT
*
27279 TCCAAAATCCAT
1 T-AAAAATCC-T
* ** *
27291 AAAAAAAACA
1 TAAAAATCCT
* *
27301 AAAAAAACCT
1 TAAAAATCCT
*
27311 T-GAAATCCT
1 TAAAAATCCT
27320 T--AAA--CT
1 TAAAAATCCT
*
27326 TAAAAAACCTT
1 TAAAAATCC-T
27337 TAAAAA--CT
1 TAAAAATCCT
27345 ATAAAAAT-CT
1 -TAAAAATCCT
27355 TGAAAAATCCT
1 T-AAAAATCCT
**
27366 TAAAAAT-AA
1 TAAAAATCCT
*
27375 TAAAAA-ACT
1 TAAAAATCCT
*
27384 TGAAAATCCT
1 TAAAAATCCT
*
27394 AAAAAATCCAT
1 TAAAAATCC-T
* *
27405 AAAAAAT-GT
1 TAAAAATCCT
*
27414 T-AAAATACT
1 TAAAAATCCT
* *
27423 TAAAAAGACAT
1 TAAAAA-TCCT
**
27434 TAAAAATATT
1 TAAAAATCCT
**
27444 TAAAAATTGT
1 TAAAAATCCT
*
27454 TAAAAATACT
1 TAAAAATCCT
27464 TAAAAA-CCT
1 TAAAAATCCT
27473 TAAAAATCCT
1 TAAAAATCCT
**
27483 TAAAAAAACT
1 TAAAAATCCT
27493 ATAAAAA-CCT
1 -TAAAAATCCT
27503 T---AATCCT
1 TAAAAATCCT
*
27510 TAAAATTCCT
1 TAAAAATCCT
*
27520 TAAAAAT-AT
1 TAAAAATCCT
*
27529 TATAAAAACCT
1 TA-AAAATCCT
* *
27540 TAACAATTCT
1 TAAAAATCCT
27550 TAAAAAT-CT
1 TAAAAATCCT
* **
27559 ACAAAAAAACT
1 -TAAAAATCCT
27570 TAAAAATCCTT
1 TAAAAATCC-T
**
27581 TAAAAAT-AA
1 TAAAAATCCT
*
27590 TAAAAAACCT
1 TAAAAATCCT
27600 T--AAATCCT
1 TAAAAATCCT
27608 T---AAT-CT
1 TAAAAATCCT
*
27614 TAAAAATCCA
1 TAAAAATCCT
*
27624 TAAAAATCTT
1 TAAAAATCCT
**
27634 TAAAAA-AAT
1 TAAAAATCCT
*
27643 TAAAAATCCA
1 TAAAAATCCT
*
27653 TAAAAAACCT
1 TAAAAATCCT
*
27663 TAAAAATCGT
1 TAAAAATCCT
* *
27673 TAAACATTCT
1 TAAAAATCCT
* *
27683 TAAAAAACTT
1 TAAAAATCCT
*
27693 TAAAAATTCT
1 TAAAAATCCT
*
27703 TAATAATCCT
1 TAAAAATCCT
27713 T-AAAATCCTT
1 TAAAAATCC-T
*
27723 TTAAAA-CCT
1 TAAAAATCCT
27732 T-AAAATCCT
1 TAAAAATCCT
*
27741 TAAAAATCTTT
1 TAAAAATC-CT
* *
27752 TAAACA-CTT
1 TAAAAATCCT
** **
27761 TAAATTTTTT
1 TAAAAATCCT
*
27771 TTAAAAT-CT
1 TAAAAATCCT
27780 GTAAAAA----
1 -TAAAAATCCT
27787 -AAAAA-CCT
1 TAAAAATCCT
27795 TAAAAATCCT
1 TAAAAATCCT
27805 TAACAAA--CT
1 TAA-AAATCCT
*
27814 CTAAAAGTCCT
1 -TAAAAATCCT
27825 TAAACTGTAAATCC-
1 T-AA----AAATCCT
27839 TAAAAA----
1 TAAAAATCCT
*
27845 AAAAAATTCCT
1 TAAAAA-TCCT
27856 T---AA-CCT
1 TAAAAATCCT
* **
27862 TAAAATTTTTT
1 TAAAA-ATCCT
27873 TAAAAAT-CT
1 TAAAAATCCT
27882 TAAAAATCCT
1 TAAAAATCCT
*
27892 TAAGAATTCCT
1 TAA-AAATCCT
*
27903 AAAAAAATCCT
1 -TAAAAATCCT
*
27914 TAAAAATCTT
1 TAAAAATCCT
*
27924 TAAAAA-ACT
1 TAAAAATCCT
*
27933 ATAAAAAAAAACCT
1 -T---AAAAATCCT
*
27947 T-AAAATACT
1 TAAAAATCCT
27956 T--AAA--CT
1 TAAAAATCCT
27962 TAAAAATCCT
1 TAAAAATCCT
*
27972 TAAAAATCTTTT
1 TAAAAATC--CT
27984 TAAAAA-CCT
1 TAAAAATCCT
27993 TAAAAATCCT
1 TAAAAATCCT
*
28003 TAATAAAAT-AT
1 T-A-AAAATCCT
*
28014 TAAAAAACCT
1 TAAAAATCCT
28024 TAACAAGA-CCT
1 TAA-AA-ATCCT
* *
28035 TCAAAATCAT
1 TAAAAATCCT
* * *
28045 TAAAATTTCA
1 TAAAAATCCT
*
28055 TAAAAATTCT
1 TAAAAATCCT
28065 TAGAAAA--CT
1 TA-AAAATCCT
***
28074 ATAAAAAAAAGT
1 -T-AAAAATCCT
*
28086 TTAAAAT--T
1 TAAAAATCCT
**
28094 T-TTAAT--T
1 TAAAAATCCT
*
28101 GTAAATATCCT
1 -TAAAAATCCT
* *
28112 TAAAAATTCA
1 TAAAAATCCT
* *
28122 TCAAATTCCT
1 TAAAAATCCT
*
28132 TAAAAAT-AT
1 TAAAAATCCT
*
28141 ATAAAAAACCTT
1 -TAAAAATCC-T
* *
28153 TAAAAAAACCC
1 T-AAAAATCCT
28164 TAAAAATCCT
1 TAAAAATCCT
28174 TATAAAGA-CCT
1 TA-AAA-ATCCT
28185 TAAAAATCCT
1 TAAAAATCCT
* *
28195 TTAAAATCCC
1 TAAAAATCCT
**
28205 TAAAAATATT
1 TAAAAATCCT
28215 TAAAAAT-CT
1 TAAAAATCCT
*
28224 TAAAAATCAT
1 TAAAAATCCT
*
28234 TAAAAATCTT
1 TAAAAATCCT
*
28244 TCAAAATGCC-
1 TAAAAAT-CCT
*
28254 TAAAAATCGT
1 TAAAAATCCT
** *
28264 TAAATTTGCT
1 TAAAAATCCT
*
28274 TGAAAA-CCT
1 TAAAAATCCT
* *
28283 TTAAAATGCT
1 TAAAAATCCT
*
28293 TATAAAA-CAT
1 TA-AAAATCCT
*
28303 TAGAAATCCT
1 TAAAAATCCT
* *
28313 TGAAGATCCT
1 TAAAAATCCT
* *
28323 TAAAAGTTCT
1 TAAAAATCCT
28333 TAAAAAT-CT
1 TAAAAATCCT
28342 ATAGAAAA-CCT
1 -TA-AAAATCCT
28353 TAAAAATCCT
1 TAAAAATCCT
**
28363 TAAAAATTAT
1 TAAAAATCCT
* *
28373 AAAAAAACCT
1 TAAAAATCCT
28383 T-AAAAT--T
1 TAAAAATCCT
** *
28390 T-ATGAT-GT
1 TAAAAATCCT
* *
28398 TTAAAACCCT
1 TAAAAATCCT
* *
28408 TTAAAATCTT
1 TAAAAATCCT
*
28418 TCAAAATCCT
1 TAAAAATCCT
28428 TAAAAAT-CT
1 TAAAAATCCT
*
28437 GTAGGAAAA-GCT
1 -TA--AAAATCCT
*
28449 TAAAAATCTT
1 TAAAAATCCT
***
28459 TAAAAAAAAT
1 TAAAAATCCT
*
28469 TAAAGAAATCTT
1 T-AA-AAATCCT
28481 TAAAAA-CTCT
1 TAAAAATC-CT
*
28491 TAAATATCCT
1 TAAAAATCCT
* *
28501 TAGAAATACT
1 TAAAAATCCT
*
28511 TAAAAAAACCT
1 T-AAAAATCCT
*
28522 TAAAAATCCG
1 TAAAAATCCT
28532 T---AA--CT
1 TAAAAATCCT
28537 TCAAAAATCCT
1 T-AAAAATCCT
* *
28548 TAAAATTGCT
1 TAAAAATCCT
*
28558 TACAAAA-CAT
1 TA-AAAATCCT
*
28568 TAAATATCCT
1 TAAAAATCCT
*
28578 TCAAAAAT-TT
1 T-AAAAATCCT
*
28588 TAAAAATGCT
1 TAAAAATCCT
* *
28598 TACATAT-CT
1 TAAAAATCCT
28607 TAAAAAATCCT
1 T-AAAAATCCT
28618 TAAAAATCCT
1 TAAAAATCCT
**
28628 TAACCATCCTT
1 TAAAAATCC-T
28639 TAAAAA-CCT
1 TAAAAATCCT
**
28648 T-AAAATTAT
1 TAAAAATCCT
* * *
28657 TCAAATTACT
1 TAAAAATCCT
* * *
28667 TAATAATACA
1 TAAAAATCCT
*
28677 TAAAAAT-GT
1 TAAAAATCCT
*
28686 TAAAAATCTCA
1 TAAAAATC-CT
* *
28697 AAAAAAGACCT
1 TAAAAA-TCCT
*
28708 TAAAAATCTT
1 TAAAAATCCT
*
28718 TTAAAATCCT
1 TAAAAATCCT
*
28728 GAAGAAA-CCT
1 TAA-AAATCCT
* *
28738 GAAAAATTCTT
1 TAAAAA-TCCT
*
28749 TAAAAAT-GT
1 TAAAAATCCT
28758 TAAAAATCCT
1 TAAAAATCCT
* **
28768 CAAAAATCAA
1 TAAAAATCCT
* *
28778 GAAAAAGCCT
1 TAAAAATCCT
*
28788 TAAAAACCCT
1 TAAAAATCCT
* *
28798 TACAAAT-TT
1 TAAAAATCCT
* *
28807 TTAATATCCT
1 TAAAAATCCT
* *
28817 TAAAAAGCAT
1 TAAAAATCCT
*
28827 AAAAAATCCT
1 TAAAAATCCT
28837 TAAAAAT-CT
1 TAAAAATCCT
* *
28846 TAAAAATTCA
1 TAAAAATCCT
*
28856 TAATAATCCT
1 TAAAAATCCT
*
28866 TTAAAATCCT
1 TAAAAATCCT
* *
28876 TAAAAGTCCA
1 TAAAAATCCT
* *
28886 CAATAATCCT
1 TAAAAATCCT
*
28896 TTAAAA-CCT
1 TAAAAATCCT
* *
28905 TACAAATGCT
1 TAAAAATCCT
* *
28915 AAAAAAAACCT
1 -TAAAAATCCT
*
28926 TAAAAATTCT
1 TAAAAATCCT
*
28936 TGCAAAA--CT
1 T-AAAAATCCT
*
28945 ATAAAAAACCT
1 -TAAAAATCCT
28956 T-AAAATCCT
1 TAAAAATCCT
28965 T--AAA--CT
1 TAAAAATCCT
*
28971 TAAAAATCTT
1 TAAAAATCCT
*
28981 TAAACATATACT
1 TAAA-A-ATCCT
*
28993 TAAGAAAT-CA
1 TAA-AAATCCT
29003 TAAAAATCCT
1 TAAAAATCCT
* *
29013 TAAAGATGCT
1 TAAAAATCCT
* * *
29023 AAAAAATACA
1 TAAAAATCCT
*
29033 GAAAAA-CCT
1 TAAAAATCCT
* *
29042 TAATAATACGT
1 TAAAAAT-CCT
* * *
29053 AAAAAAAACTT
1 -TAAAAATCCT
*
29064 TAAAAATTCT
1 TAAAAATCCT
29074 TAAAAAT-CT
1 TAAAAATCCT
*
29083 ATAAAAAAAAACCT
1 -T---AAAAATCCT
*
29097 TCAAAA--CT
1 TAAAAATCCT
* *
29105 CTATAAATCTT
1 -TAAAAATCCT
*
29116 TAAAAGAT-GT
1 TAAAA-ATCCT
* *
29126 TAAAAACCCA
1 TAAAAATCCT
* *
29136 TAAGAATCCA
1 TAAAAATCCT
*
29146 TAAAAA-CAT
1 TAAAAATCCT
* *
29155 TTAAAATCGT
1 TAAAAATCCT
*
29165 TAAAAAATCAT
1 T-AAAAATCCT
29176 TAAAAATCCT
1 TAAAAATCCT
* *
29186 TCAAAATTCT
1 TAAAAATCCT
*
29196 TAAAAATACT
1 TAAAAATCCT
29206 TAAAAA--CT
1 TAAAAATCCT
*
29214 TGAAAAATGCT
1 T-AAAAATCCT
29225 TAATAAA-CCT
1 TAA-AAATCCT
29235 TAAAAAT-CT
1 TAAAAATCCT
** **
29244 TTCAAATTGT
1 TAAAAATCCT
*
29254 TAAAAATTCT
1 TAAAAATCCT
* *
29264 TAAAAACCCA
1 TAAAAATCCT
*
29274 TAAAAAACCT
1 TAAAAATCCT
*
29284 CAAAAATCC-
1 TAAAAATCCT
* * *
29293 AAAAAAACCG
1 TAAAAATCCT
29303 T-AAAAT-CT
1 TAAAAATCCT
*
29311 T--TAA-CCT
1 TAAAAATCCT
*
29318 TATAAA-CACT
1 TAAAAATC-CT
29328 TAAAAATCCT
1 TAAAAATCCT
*
29338 T-TAAATCCTT
1 TAAAAATCC-T
*
29348 ATAAAAAAAACCT
1 -T--AAAAATCCT
*
29361 TAAAAATCCC
1 TAAAAATCCT
29371 TAAGAAAT-CT
1 TAA-AAATCCT
*
29381 TAAAAAACCT
1 TAAAAATCCT
*
29391 TAAAAATCTT
1 TAAAAATCCT
*
29401 TCAAAATCCT
1 TAAAAATCCT
**
29411 TAAAAATGTTT
1 TAAAAAT-CCT
29422 TAAAAA--CT
1 TAAAAATCCT
*
29430 ATAAAAATGCT
1 -TAAAAATCCT
**
29441 TAAAAATTTT
1 TAAAAATCCT
*
29451 TAAAAAACCT
1 TAAAAATCCT
*
29461 T-GAAATCCT
1 TAAAAATCCT
29470 TAAAAATCCT
1 TAAAAATCCT
*
29480 TAGAAAAACCT
1 TA-AAAATCCT
29491 TAAAAATCCTT
1 TAAAAATCC-T
*
29502 TATAAAA-CTT
1 TA-AAAATCCT
29512 TAAAAATCCT
1 TAAAAATCCT
* **
29522 GAAGTATCCT
1 TAAAAATCCT
29532 TAAAAAAT-CT
1 T-AAAAATCCT
* *
29542 TTAAAATGCT
1 TAAAAATCCT
29552 TAAAAATCCT
1 TAAAAATCCT
*
29562 TACAAAGT-CT
1 TA-AAAATCCT
* *
29572 TCAAAATTCT
1 TAAAAATCCT
* *
29582 TAGAAATTCT
1 TAAAAATCCT
*
29592 TAAAAAGCCT
1 TAAAAATCCT
29602 TAAAAATCCT
1 TAAAAATCCT
* **
29612 TTAAAATAAT
1 TAAAAATCCT
29622 CT-AAAATCCTT
1 -TAAAAATCC-T
29633 TAAAAA-CCT
1 TAAAAATCCT
29642 TAAAAATCCT
1 TAAAAATCCT
*
29652 TAAAAAACC-
1 TAAAAATCCT
*
29661 TAAAAATACT
1 TAAAAATCCT
* *
29671 AAAAAAAATCTT
1 --TAAAAATCCT
**
29683 TAATCATCCT
1 TAAAAATCCT
* **
29693 TTAAAATGTT
1 TAAAAATCCT
29703 TAAAAATCCT
1 TAAAAATCCT
* *
29713 TCAAAATTCT
1 TAAAAATCCT
*
29723 TGAAAATCGC-
1 TAAAAATC-CT
*
29733 TAAAAATCGT
1 TAAAAATCCT
* *
29743 TTAAAATGCT
1 TAAAAATCCT
* *
29753 AAAAAAACCT
1 TAAAAATCCT
*
29763 TCAAAATCCT
1 TAAAAATCCT
* *
29773 TCAAAATCCC
1 TAAAAATCCT
* *
29783 TAAAGATACT
1 TAAAAATCCT
*
29793 TAAAAAACCT
1 TAAAAATCCT
*
29803 TAAAATTCCT
1 TAAAAATCCT
* *
29813 TAACATTCCT
1 TAAAAATCCT
*
29823 TAAAAA-ACT
1 TAAAAATCCT
*
29832 ATAAAAAAAACCT
1 -T--AAAAATCCT
*
29845 T-AAAATCAT
1 TAAAAATCCT
29854 T--AAA--CT
1 TAAAAATCCT
*
29860 T-AAAAGCCTT
1 TAAAAATCC-T
*
29870 TTAAAA-CCTTT
1 TAAAAATCC--T
*
29881 TAAAAA-CCA
1 TAAAAATCCT
*
29890 TAAAAATCCG
1 TAAAAATCCT
* *
29900 TAAAAATGCA
1 TAAAAATCCT
* *
29910 TAACAA-CTT
1 TAAAAATCCT
29919 TAAAAAT-CT
1 TAAAAATCCT
* *
29928 TGAAAAAACTTT
1 T-AAAAATC-CT
*
29940 TTAAAA-CCT
1 TAAAAATCCT
*
29949 TAAAAATCTT
1 TAAAAATCCT
* *
29959 TAAAAAAACAT
1 T-AAAAATCCT
29970 TAAAAAAT-CT
1 T-AAAAATCCT
*** *
29980 TTTGAATCCA
1 TAAAAATCCT
* *
29990 TAAAAAGACTT
1 TAAAAA-TCCT
**
30001 TAAAAATATT
1 TAAAAATCCT
30011 TAAAAATCCT
1 TAAAAATCCT
30021 TAAACTAA-CCT
1 TAAA--AATCCT
*
30032 T-AAAATACT
1 TAAAAATCCT
**
30041 TAAAGGT-CT
1 TAAAAATCCT
** *
30050 AGGGTTCAAACCCT
1 ----TAAAAATCCT
**** **
30064 GT-GCTTTTTT
1 -TAAAAATCCT
*
30074 TAAAAA---A
1 TAAAAATCCT
* *
30081 AAAAAACCCT
1 TAAAAATCCT
30091 T-AAAATCCT
1 TAAAAATCCT
**
30100 TAAAAATTATT
1 TAAAAA-TCCT
*
30111 TAAAAAT-TT
1 TAAAAATCCT
* *
30120 TTAAAATCTT
1 TAAAAATCCT
30130 TAAAAATCCT
1 TAAAAATCCT
*
30140 TAAAAAT--A
1 TAAAAATCCT
* * *
30148 AAAAAAACTT
1 TAAAAATCCT
*
30158 TGAAAATCCT
1 TAAAAATCCT
*
30168 TAAAAA-ACT
1 TAAAAATCCT
*
30177 GGAAAAA-CC-
1 -TAAAAATCCT
*
30186 TAAAAA--AT
1 TAAAAATCCT
30194 TAAAAATCCT
1 TAAAAATCCT
**
30204 TAAAAAGACT
1 TAAAAATCCT
30214 TAAAAATCCT
1 TAAAAATCCT
30224 TCAAAAA-CCT
1 T-AAAAATCCT
30234 TAAAAATCCT
1 TAAAAATCCT
*
30244 TAAAAA-ACT
1 TAAAAATCCT
*
30253 ATAAAAAACCT
1 -TAAAAATCCT
*
30264 TAAAAA-GCT
1 TAAAAATCCT
30273 T---AA-CCT
1 TAAAAATCCT
*
30279 TAGAAATCCT
1 TAAAAATCCT
*
30289 TAAAAATCTTT
1 TAAAAATC-CT
*
30300 TAAAAA-CAT
1 TAAAAATCCT
* *
30309 TATAAATTCT
1 TAAAAATCCT
* *
30319 TGAAAATCCA
1 TAAAAATCCT
* *
30329 TAAAAAACTT
1 TAAAAATCCT
30339 TAAAAATCCT
1 TAAAAATCCT
*
30349 TAAAAA-CTT
1 TAAAAATCCT
*
30358 ATAAAAAACCT
1 -TAAAAATCCT
30369 T--AAATCCT
1 TAAAAATCCT
30377 T---AAT-CT
1 TAAAAATCCT
*
30383 TAAAAATCCA
1 TAAAAATCCT
*
30393 TAAAAATTCTT
1 TAAAAA-TCCT
*
30404 TCAAAA-CCT
1 TAAAAATCCT
30413 TAAAAATCCT
1 TAAAAATCCT
30423 TAATAAA-CCT
1 TAA-AAATCCT
* *
30433 TTAAAATGCT
1 TAAAAATCCT
* *
30443 TAAAAAACCA
1 TAAAAATCCT
**
30453 TAAAAATGTT
1 TAAAAATCCT
*
30463 TAAAAA-ACT
1 TAAAAATCCT
30472 TAAAAATCCT
1 TAAAAATCCT
30482 TAAAAATCC
1 TAAAAATCC
30491 CCAAGAATCT
Statistics
Matches: 3328, Mismatches: 906, Indels: 805
0.66 0.18 0.16
Matches are distributed among these distances:
5 7 0.00
6 46 0.01
7 48 0.01
8 130 0.04
9 632 0.19
10 1812 0.54
11 512 0.15
12 86 0.03
13 29 0.01
14 14 0.00
15 11 0.00
16 1 0.00
ACGTcount: A:0.51, C:0.15, G:0.03, T:0.30
Consensus pattern (10 bp):
TAAAAATCCT
Found at i:26469 original size:20 final size:19
Alignment explanation
Indices: 26455--26498 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
26445 TAAAAATTCT
26455 TTAAAATCCTCAAAAATACA
1 TTAAAA-CCTCAAAAATACA
* *
26475 TTAAAACCTTAAAAA-ACC
1 TTAAAACCTCAAAAATACA
26493 TTAAAA
1 TTAAAA
26499 AACTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 8 0.36
20 6 0.27
ACGTcount: A:0.57, C:0.18, G:0.00, T:0.25
Consensus pattern (19 bp):
TTAAAACCTCAAAAATACA
Found at i:26488 original size:19 final size:19
Alignment explanation
Indices: 26445--26508 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
26435 TTAAGAACTA
* *
26445 TAAAAATTCTTTAAAATCCT
1 TAAAAATACATTAAAA-CCT
*
26465 CAAAAATACATTAAAACCT
1 TAAAAATACATTAAAACCT
* *
26484 TAAAAA-ACCTTAAAAAACT
1 TAAAAATACATT-AAAACCT
26503 TAAAAA
1 TAAAAA
26509 GAACTTCAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 4 0.11
19 20 0.54
20 13 0.35
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAAATACATTAAAACCT
Found at i:26857 original size:25 final size:24
Alignment explanation
Indices: 26829--26915 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 24
26819 TATTTAAGTT
26829 TCCTTAAATTGTTTAATCTTAAAAA
1 TCCTTAAATT-TTTAATCTTAAAAA
*
26854 TCCTTAAAAATTTTAAAATCTATGAAAAA
1 TCCTT--AAATTTT-TAATCT-T-AAAAA
* * *
26883 ACCTTAAAATCTTTAACCTTAAAAA
1 TCCTT-AAATTTTTAATCTTAAAAA
26908 TCCTTAAA
1 TCCTTAAA
26916 AATCTATTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
24 3 0.06
25 14 0.27
26 3 0.06
27 14 0.27
28 8 0.16
29 9 0.18
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (24 bp):
TCCTTAAATTTTTAATCTTAAAAA
Found at i:26859 original size:55 final size:55
Alignment explanation
Indices: 26790--27031 Score: 154
Period size: 55 Copynumber: 4.3 Consensus size: 55
26780 CCTTTAAAGT
* * **** * *
26790 CCTTCAAAATCCTTAAAAATCTTTAAACATAT-TTAAGTTTCCTTAAATTGTTTAA
1 CCTTAAAAATCCTTAAAAATCTTTAAA-ATATATGAAAAAACCTTAAAATCTTTAA
* *
26845 TCTTAAAAATCCTTAAAAAT-TTTAAAATCTATGAAAAAACCTTAAAATCTTTAA
1 CCTTAAAAATCCTTAAAAATCTTTAAAATATATGAAAAAACCTTAAAATCTTTAA
** * ** **
26899 CCTTAAAAATCCTTAAAAATCTATTAAAA-ACCTTAAGGATTCTTAAAA-CTTCATGAAAAA
1 CCTTAAAAATCCTTAAAAATCT-TTAAAATATATGAAAAAACCTTAAAATCTT--T----AA
* * * *
26959 CCTTAAAAATCCTTAAAAAT-TATGAAAAAACTAT-AAAAAACCATAAAACCTTTAA
1 CCTTAAAAATCCTTAAAAATCT-TTAAAATA-TATGAAAAAACCTTAAAATCTTTAA
*
27014 CCCTAAAAATCCTTAAAA
1 CCTTAAAAATCCTTAAAA
27032 GCCCTTAATA
Statistics
Matches: 147, Mismatches: 28, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
53 3 0.02
54 44 0.30
55 49 0.33
56 7 0.05
59 8 0.05
60 32 0.22
61 4 0.03
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (55 bp):
CCTTAAAAATCCTTAAAAATCTTTAAAATATATGAAAAAACCTTAAAATCTTTAA
Found at i:27153 original size:19 final size:19
Alignment explanation
Indices: 27109--27175 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
27099 AATACTTGAA
* *
27109 CTTAAAAATCCTTTAAAATC
1 CTTAAAAAT-CATAAAAATC
27129 CTTTAAAAATCATAAAAATC
1 C-TTAAAAATCATAAAAATC
* *
27149 CTTAAAAAT-AAATAAAAGC
1 CTTAAAAATCATA-AAAATC
27168 CTTAAAAA
1 CTTAAAAA
27176 CCCTTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
18 2 0.05
19 21 0.51
20 10 0.24
21 8 0.20
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.28
Consensus pattern (19 bp):
CTTAAAAATCATAAAAATC
Found at i:27370 original size:28 final size:28
Alignment explanation
Indices: 27337--27410 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
27327 AAAAAACCTT
* *
27337 TAAAAACT-ATAAAAATCTTGAAAAATCC
1 TAAAAAATAATAAAAAACTTG-AAAATCC
*
27365 TTAAAAATAATAAAAAACTTGAAAATCC
1 TAAAAAATAATAAAAAACTTGAAAATCC
*
27393 TAAAAAATCCATAAAAAA
1 TAAAAAAT-AATAAAAAA
27411 TGTTAAAATA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
28 20 0.51
29 19 0.49
ACGTcount: A:0.62, C:0.12, G:0.03, T:0.23
Consensus pattern (28 bp):
TAAAAAATAATAAAAAACTTGAAAATCC
Found at i:27381 original size:39 final size:37
Alignment explanation
Indices: 27338--27557 Score: 149
Period size: 39 Copynumber: 5.6 Consensus size: 37
27328 AAAAACCTTT
**
27338 AAAAACTATAAAAATCTTGAAAAATCCTTAAAAATAATA
1 AAAAACT-TAAAAATCTT-AAAAATCCTTAAAAATGTTA
* * *
27377 AAAAACTTGAAAATCCTAAAAAATCCATAAAAAATGTTA
1 AAAAACTTAAAAAT-CTTAAAAATCC-TTAAAAATGTTA
* * **
27416 AAATACTTAAAAAGACATTAAAAATATTTAAAAATTGTTA
1 AAAAACTTAAAAA-TC-TTAAAAATCCTTAAAAA-TGTTA
* **
27456 AAAATACTTAAAAACCTTAAAAATCCTTAAAAAAACTATA
1 AAAA-ACTTAAAAATCTTAAAAATCCTT-AAAAATGT-TA
* * *
27496 AAAACCTT---AATCCTTAAAATTCCTTAAAAATATTA
1 AAAAACTTAAAAAT-CTTAAAAATCCTTAAAAATGTTA
*
27531 TAAAAACCTTAACAATTCTTAAAAATC
1 -AAAAA-CTTAA-AAATCTTAAAAATC
27558 TACAAAAAAA
Statistics
Matches: 140, Mismatches: 26, Indels: 29
0.72 0.13 0.15
Matches are distributed among these distances:
35 2 0.01
36 12 0.09
37 15 0.11
38 14 0.10
39 50 0.36
40 36 0.26
41 11 0.08
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (37 bp):
AAAAACTTAAAAATCTTAAAAATCCTTAAAAATGTTA
Found at i:27520 original size:37 final size:37
Alignment explanation
Indices: 27470--27542 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
27460 TACTTAAAAA
27470 CCTTAAAAATCCTTAAAAAAACTATAAAAACCTTAAT
1 CCTTAAAAATCCTTAAAAAAACTATAAAAACCTTAAT
* * *
27507 CCTTAAAATTCCTTAAAAATATTATAAAAACCTTAA
1 CCTTAAAAATCCTTAAAAAAACTATAAAAACCTTAA
27543 CAATTCTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (37 bp):
CCTTAAAAATCCTTAAAAAAACTATAAAAACCTTAAT
Found at i:27765 original size:28 final size:28
Alignment explanation
Indices: 27701--27764 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 28
27691 TTTAAAAATT
27701 CTTAATAATCCTTAAAATCCTTTTAAAAC
1 CTTAA-AATCCTTAAAATCCTTTTAAAAC
27730 CTTAAAATCCTTAAAAAT-CTTTTAAACAC
1 CTTAAAATCCTT-AAAATCCTTTTAAA-AC
*
27759 TTTAAA
1 CTTAAA
27765 TTTTTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (28 bp):
CTTAAAATCCTTAAAATCCTTTTAAAAC
Found at i:27927 original size:22 final size:22
Alignment explanation
Indices: 27872--27930 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
27862 TAAAATTTTT
27872 TTAAAAATC-TT--AAAAATCC
1 TTAAAAATCTTTAAAAAAATCC
* *
27891 TTAAGAAT-TCCTAAAAAAATCC
1 TTAAAAATCT-TTAAAAAAATCC
27913 TTAAAAATCTTTAAAAAA
1 TTAAAAATCTTTAAAAAA
27931 CTATAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
19 7 0.23
20 1 0.03
22 22 0.71
23 1 0.03
ACGTcount: A:0.54, C:0.14, G:0.02, T:0.31
Consensus pattern (22 bp):
TTAAAAATCTTTAAAAAAATCC
Found at i:27939 original size:31 final size:29
Alignment explanation
Indices: 27905--28049 Score: 88
Period size: 31 Copynumber: 4.8 Consensus size: 29
27895 GAATTCCTAA
27905 AAAAATCCTTAAAAATCTTTAAAAAACTAT
1 AAAAATCCTTAAAAATCTTTAAAAAACT-T
*
27935 AAAAAAAAACCTT-AAAATAC-TT---AAACTT
1 ---AAAAATCCTTAAAAAT-CTTTAAAAAACTT
*
27963 AAAAATCCTTAAAAATCTTTTTAAAAACCTT
1 AAAAATCCTTAAAAATC--TTTAAAAAACTT
*
27994 AAAAATCCTTAATAAAAT-ATTAAAAAACCTT
1 AAAAATCCTT-A-AAAATCTTTAAAAAA-CTT
* *
28025 AACAAGA-CCTTCAAAATCATTAAAA
1 AA-AA-ATCCTTAAAAATCTTTAAAA
28050 TTTCATAAAA
Statistics
Matches: 92, Mismatches: 6, Indels: 30
0.72 0.05 0.23
Matches are distributed among these distances:
25 10 0.11
26 5 0.05
28 3 0.03
29 5 0.05
30 12 0.13
31 27 0.29
32 14 0.15
33 16 0.17
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.28
Consensus pattern (29 bp):
AAAAATCCTTAAAAATCTTTAAAAAACTT
Found at i:28010 original size:21 final size:21
Alignment explanation
Indices: 27960--28047 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 21
27950 AATACTTAAA
*
27960 CTTAA-AAATCCTTAAAAAT-
1 CTTAATAAAACCTTAAAAATC
**
27979 CTTTTTAAAAACCTTAAAAATC
1 CTTAAT-AAAACCTTAAAAATC
** *
28001 CTTAATAAAATATTAAAAAAC
1 CTTAATAAAACCTTAAAAATC
* * *
28022 CTTAACAAGACCTTCAAAATC
1 CTTAATAAAACCTTAAAAATC
*
28043 ATTAA
1 CTTAA
28048 AATTTCATAA
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
19 3 0.06
21 44 0.86
22 4 0.08
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (21 bp):
CTTAATAAAACCTTAAAAATC
Found at i:28168 original size:21 final size:22
Alignment explanation
Indices: 28142--28220 Score: 76
Period size: 21 Copynumber: 3.8 Consensus size: 22
28132 TAAAAATATA
*
28142 TAAAAAACCTTTAAAAAAACCC
1 TAAAAATCCTTTAAAAAAACCC
* * *
28164 TAAAAATCC-TTATAAAGACCT
1 TAAAAATCCTTTAAAAAAACCC
*
28185 TAAAAATCCTTT--AAAATCCC
1 TAAAAATCCTTTAAAAAAACCC
*
28205 TAAAAAT-ATTTAAAAA
1 TAAAAATCCTTTAAAAA
28221 TCTTAAAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
19 3 0.07
20 12 0.26
21 21 0.46
22 10 0.22
ACGTcount: A:0.54, C:0.18, G:0.01, T:0.27
Consensus pattern (22 bp):
TAAAAATCCTTTAAAAAAACCC
Found at i:28242 original size:19 final size:19
Alignment explanation
Indices: 28164--28243 Score: 72
Period size: 19 Copynumber: 4.1 Consensus size: 19
28154 AAAAAAACCC
* *
28164 TAAAAATCCTTATAAAGACCT
1 TAAAAATCATTA-AAA-ATCT
* * *
28185 TAAAAATCCTTTAAAATCCC
1 TAAAAATCATTAAAAAT-CT
28205 TAAAAAT-ATTTAAAAATCT
1 TAAAAATCA-TTAAAAATCT
28224 TAAAAATCATTAAAAATCT
1 TAAAAATCATTAAAAATCT
28243 T
1 T
28244 TCAAAATGCC
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
19 20 0.40
20 19 0.38
21 11 0.22
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (19 bp):
TAAAAATCATTAAAAATCT
Found at i:29077 original size:22 final size:22
Alignment explanation
Indices: 29034--29079 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
29024 AAAAATACAG
*
29034 AAAAACCTTAATAATACGTAAA
1 AAAAACCTTAAAAATACGTAAA
* * *
29056 AAAAACTTTAAAAATTCTTAAA
1 AAAAACCTTAAAAATACGTAAA
29078 AA
1 AA
29080 TCTATAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.61, C:0.11, G:0.02, T:0.26
Consensus pattern (22 bp):
AAAAACCTTAAAAATACGTAAA
Found at i:29113 original size:32 final size:33
Alignment explanation
Indices: 29053--29120 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
29043 AATAATACGT
* *
29053 AAAAAAAACTTTAAAAATTCTTAAAAATCTATA
1 AAAAAAAACCTTAAAAACTCTTAAAAATCTATA
* * *
29086 AAAAAAAACCTTCAAAACTC-TATAAATCTTTA
1 AAAAAAAACCTTAAAAACTCTTAAAAATCTATA
29118 AAA
1 AAA
29121 GATGTTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.59, C:0.13, G:0.00, T:0.28
Consensus pattern (33 bp):
AAAAAAAACCTTAAAAACTCTTAAAAATCTATA
Found at i:30325 original size:105 final size:105
Alignment explanation
Indices: 30216--30409 Score: 275
Period size: 105 Copynumber: 1.8 Consensus size: 105
30206 AAAAGACTTA
* * *
30216 AAAATCCTTCAAAAACCTTAAAAATCCTTAAAAAAC-TATAAAAAACCTTAAAAAGCTTAACCTT
1 AAAATCCATAAAAAACCTTAAAAATCCTT-AAAAACTTATAAAAAACCTT-AAAACCTTAACCTT
* * *
30280 AGAAATCCTTAAAAA-TCTTTTAAAAACATTATAAATTCTTG
64 AAAAATCCATAAAAATTCTTTCAAAAACATTATAAATTCTTG
* * *
30321 AAAATCCATAAAAAACTTTAAAAATCCTTAAAAACTTATAAAAAACCTTAAATCCTTAATCTTAA
1 AAAATCCATAAAAAACCTTAAAAATCCTTAAAAACTTATAAAAAACCTTAAAACCTTAACCTTAA
30386 AAATCCATAAAAATTCTTTCAAAA
66 AAATCCATAAAAATTCTTTCAAAA
30410 CCTTAAAAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
104 30 0.38
105 48 0.62
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.29
Consensus pattern (105 bp):
AAAATCCATAAAAAACCTTAAAAATCCTTAAAAACTTATAAAAAACCTTAAAACCTTAACCTTAA
AAATCCATAAAAATTCTTTCAAAAACATTATAAATTCTTG
Found at i:34890 original size:252 final size:249
Alignment explanation
Indices: 34446--35683 Score: 1271
Period size: 251 Copynumber: 5.0 Consensus size: 249
34436 ATAGTTTTAC
* * * * * * * * *
34446 GTTAAATCTCATATATTTACGTTAATATTTTAACAATACATGTTCAACCTTTATAATTTTTTAGT
1 GTTAAATCTCACACATTTACATCAATATTTTGACAATGCTTATTCAACCTTTATAATTTTTTCGT
* * * * * *
34511 TAATTCTTATAAGTTTACGTCAAGGTTTTTCAATTACTAATTTTGACTATAATTATTTTTATACT
66 TAATTCTTATAGGTTTACATCAAGATTTTTTAACTACTAATTTTCACTATAATTATTTTTATACT
* * * *
34576 TACTATTATTAATTTATAAATTAAAATTTATAAACGGTTAAATACTTTAAACTCGAGAATATAAA
131 TATTATTATTCATTTATAAATTAACATTTATAAACCGTTAAATACTTT-AACTCGAGAATATAAA
* * *
34641 TTTAAATATTTAATATTTCAAAAAATTATGTTTATTTAATATAATTGA-TCTATTAT
195 TTTAAATATTTAATTTTTAAAAAAATTAT-TTTATTTGATATAATTGACT-TATTAT
* * *
34697 GTTAAATTTGACACATTTACATCAATATTTTGACAATGTTTATTTC-ACCTTTATAATTTTTTCT
1 GTTAAATCTCACACATTTACATCAATATTTTGACAATGCTTA-TTCAACCTTTATAATTTTTTC-
** *
34761 GTTAATTCTTATAGGTTTATGTCAAGATTTTTTAGCTACTAATTTTCACTATAATTATTTTTATA
64 GTTAATTCTTATAGGTTTACATCAAGATTTTTTAACTACTAATTTTCACTATAATTATTTTTATA
* * *
34826 TTTATTATTATTCATTTATAAATTAACATTTATAAACCTTTAAATACTCTAACTTCGAGAATATA
129 CTTATTATTATTCATTTATAAATTAACATTTATAAACCGTTAAATACTTTAAC-TCGAGAATATA
* * * * *
34891 AAATTAAATATTTAATTTTCAAAACAATTATTATTATTTGATAT-AGTGACTTATTAC
193 AATTTAAATATTTAATTTTTAAAAAAATTATT-TTATTTGATATAATTGACTTATTAT
* * * * * * *
34948 GTTAAATGTCACATATTTACGTCAATATTTAGACAATTCTTATTCAATCTTTATAATTTTTTACA
1 GTTAAATCTCACACATTTACATCAATATTTTGACAATGCTTATTCAACCTTTATAATTTTTT-CG
* * * * *
35013 TTAATTCTTATAGGTTTACATTAAGGTTTTTTAAATACTAATTTGCACTATAATTATTTTTATCC
65 TTAATTCTTATAGGTTTACATCAAGATTTTTTAACTACTAATTTTCACTATAATTATTTTTATAC
* * * * * *
35078 TTACTATTGTTCATTTATAAATTAAGATTTATAAACCGTTAAATACTTTAAAGTCAAGAACATAA
130 TTATTATTATTCATTTATAAATTAACATTTATAAACCGTTAAATACTTT-AACTCGAGAATATAA
* * * * * *
35143 ATTTAAATGTTTGATTTTTTAAAAAATTATGATTATTTGATGTAATTAACTTATTAT
194 ATTTAAATATTTAATTTTTAAAAAAATTAT-TTTATTTGATATAATTGACTTATTAT
* * * * *
35200 GTTAAATCTCATACATTTACCTCAATA-TTT-ACAATGCATATTCGACCTTTATAAGTTTTTACG
1 GTTAAATCTCACACATTTACATCAATATTTTGACAATGCTTATTCAACCTTTATAA-TTTTTTCG
* * * * * *
35263 TTAATTCTTACATGTTTATATCAA-AGCTTTTCAACTACTAATTTTGACTATAATTA---TT-T-
65 TTAATTCTTATAGGTTTACATCAAGA-TTTTTTAACTACTAATTTTCACTATAATTATTTTTATA
* * * *
35322 -GTATTCTTA--C-TGT-T--ATT-A-ATTTATAAATCGTTAAATACTTTAAACTCGAGAATATA
129 CTTATTATTATTCATTTATAAATTAACATTTATAAACCGTTAAATACTTT-AACTCGAGAATATA
* * *
35378 AATTTAAATATTTAATTTTATAAAAAAAATTATATTTATTTAACATAATTGACCTATTAT
193 AATTTAAATATTTAATTTT-T-AAAAAAATTAT-TTTATTTGATATAATTGACTTATTAT
* * * * * * *
35438 GTTAAATCTGACACATTTACATTAATATTTCGATAATGCTTGTTGC-ACTTTTATAATTGTTTAC
1 GTTAAATCTCACACATTTACATCAATATTTTGACAATGCTTATT-CAACCTTTATAATT-TTTTC
* * * * * *
35502 ATTAATTCTTACAGATTTACATCAA-ATTTTTTTAACTACGAATTTT-ATTATAATCATTTTTAT
64 GTTAATTCTTATAGGTTTACATCAAGA-TTTTTTAACTACTAATTTTCACTATAATTATTTTTAT
* *
35565 CCTTATTATTATTCATTTATAAATTAACATTTATAAACCGTTAAATACTTTAACTTTGAGAATAT
128 ACTTATTATTATTCATTTATAAATTAACATTTATAAACCGTTAAATACTTTAAC-TCGAGAATAT
* *
35630 ATATTTAAATATTTAATTTTTAAAAAAATTATTATTATTTGATATAATTAACTT
192 AAATTTAAATATTTAATTTTTAAAAAAATTATT-TTATTTGATATAATTGACTT
35684 GTTACATTAA
Statistics
Matches: 813, Mismatches: 140, Indels: 68
0.80 0.14 0.07
Matches are distributed among these distances:
236 51 0.06
237 2 0.00
238 56 0.07
239 12 0.01
240 62 0.08
241 3 0.00
242 3 0.00
243 1 0.00
244 5 0.01
245 7 0.01
246 1 0.00
247 3 0.00
248 2 0.00
249 1 0.00
250 70 0.09
251 291 0.36
252 193 0.24
253 50 0.06
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (249 bp):
GTTAAATCTCACACATTTACATCAATATTTTGACAATGCTTATTCAACCTTTATAATTTTTTCGT
TAATTCTTATAGGTTTACATCAAGATTTTTTAACTACTAATTTTCACTATAATTATTTTTATACT
TATTATTATTCATTTATAAATTAACATTTATAAACCGTTAAATACTTTAACTCGAGAATATAAAT
TTAAATATTTAATTTTTAAAAAAATTATTTTATTTGATATAATTGACTTATTAT
Found at i:35598 original size:503 final size:498
Alignment explanation
Indices: 34442--35680 Score: 1284
Period size: 503 Copynumber: 2.5 Consensus size: 498
34432 AGATATAGTT
* * * * * * * * *
34442 TTACGTTAAATCTCATATATTTACGTTAATATTTTA-ACAATACATGTTCAACCTTTATAATTTT
1 TTACGTTAAATCTCACACATTTACATCAATA-TTTAGACAATGCTTATTCAATCTTTATAATTGT
* * * * * * * *
34506 TTA-GTTAATTCTTATA-AGTTTACGTCAAGGTTTTTCAATTACTAATTTTG-ACTATAATTATT
65 TTACATTAATTCTTACAGA-TTTACATCAAAGTTTTTTAAATACGAA-TTTGCACTATAATCATT
* * * * *
34568 TTTATACTTACTATTATTAATTTATAAATTAAAATTTATAAACGGTTAAATACTTTAAACTCGAG
128 TTTATCCTTACTATAATTCATTTATAAATTAAAATTTATAAACCGTTAAATACTTTAAACTCAAG
* * *
34633 AATATAAATTTAAATATTTAATATTTCAAAAAATTATGTTTATTTAATATAATTGATCTATTATG
193 AACATAAATTTAAATATTTAATATTTCAAAAAATTATGATTATTTAATATAATTAATCTATTATG
* * ** *
34698 TTAAATTTGACACATTTACATCAATATTTTGACAATGTTTATTTCACCTTTATAATTTTTTCTGT
258 TTAAATCTCACACATTTACATCAATATTTTGACAATGCATATTTCACCTTTATAATTTTTACTGT
* * * * * *
34763 TAATTCTTATAGGTTTATGTCAAGATTTTTTAGCTACTAATTTTCACTATAATTATTTTTATATT
323 TAATTCTTACAGGTTTATATCAAGACTTTTCAACTACTAATTTTCACTATAATTA---TTATATG
* *
34828 TATTATTATTCATTTATAAATTAACATTTATAAACCTTTAAATACTCTAACTTCGAGAATATAAA
385 TATTATTA-TCATGTAT-AATTAACATTTATAAACCGTTAAATACTCTAACTTCGAGAATATAAA
* * * * *
34893 ATTAAATATTTAATTTTCAAAACAATTATTATTATTTGATATAGTGACTTA
448 ATTAAATATTTAATTTTAAAAAAAATTATTATTATTTAACATAGTGACCTA
* * * * *
34944 TTACGTTAAATGTCACATATTTACGTCAATATTTAGACAATTCTTATTCAATCTTTATAATTTTT
1 TTACGTTAAATCTCACACATTTACATCAATATTTAGACAATGCTTATTCAATCTTTATAATTGTT
* * * * * *
35009 TACATTAATTCTTATAGGTTTACATTAAGGTTTTTTAAATACTAATTTGCACTATAATTATTTTT
66 TACATTAATTCTTACAGATTTACATCAAAGTTTTTTAAATACGAATTTGCACTATAATCATTTTT
** * *
35074 ATCCTTACTATTGTTCATTTATAAATTAAGATTTATAAACCGTTAAATACTTTAAAGTCAAGAAC
131 ATCCTTACTATAATTCATTTATAAATTAAAATTTATAAACCGTTAAATACTTTAAACTCAAGAAC
* * * * * *
35139 ATAAATTTAAATGTTTGATTTTTTAAAAAATTATGATTATTTGATGTAATTAA-CTTATTATGTT
196 ATAAATTTAAATATTTAATATTTCAAAAAATTATGATTATTTAATATAATTAATC-TATTATGTT
* *
35203 AAATCTCATACATTTACCTCAATA-TTT-ACAATGCATA-TTCGACCTTTATAAGTTTTTAC-GT
260 AAATCTCACACATTTACATCAATATTTTGACAATGCATATTTC-ACCTTTATAA-TTTTTACTGT
* *
35264 TAATTCTTACATGTTTATATCAA-AGCTTTTCAACTACTAATTTTGACTATAATTA-T-T-TGTA
323 TAATTCTTACAGGTTTATATCAAGA-CTTTTCAACTACTAATTTTCACTATAATTATTATATGTA
* * * *
35325 TTCTTA-C-TGT-T-ATT-A-ATTTATAAATCGTTAAATACTTTAAAC-TCGAGAATATAAATTT
387 TTATTATCATGTATAATTAACATTTATAAACCGTTAAATACTCT-AACTTCGAGAATATAAAATT
*
35383 AAATATTTAATTTTATAAAAAAAATTA-TATTTATTTAACATAATTGACCTA
451 AAATATTTAA-TTT-TAAAAAAAATTATTA-TTATTTAACAT-AGTGACCTA
* * * * * * *
35434 TTATGTTAAATCTGACACATTTACATTAATATTTCGATAATGCTTGTTGCACT-TTTATAATTGT
1 TTACGTTAAATCTCACACATTTACATCAATATTTAGACAATGCTTATT-CAATCTTTATAATTGT
* * * *
35498 TTACATTAATTCTTACAGATTTACATCAAATTTTTTTAACTACGAATTT-TATTATAATCATTTT
65 TTACATTAATTCTTACAGATTTACATCAAAGTTTTTTAAATACGAATTTGCACTATAATCATTTT
* * * **
35562 TATCCTTATTATTATTCATTTATAAATTAACATTTATAAACCGTTAAATACTTT-AACTTTGAGA
130 TATCCTTACTATAATTCATTTATAAATTAAAATTTATAAACCGTTAAATACTTTAAAC-TCAAGA
* * * * * *
35626 ATATATATTTAAATATTTAATTTTTAAAAAAATTATTATTATTTGATATAATTAA
194 ACATAAATTTAAATATTTAATATTTCAAAAAATTATGATTATTTAATATAATTAA
35681 CTTGTTACAT
Statistics
Matches: 631, Mismatches: 91, Indels: 43
0.82 0.12 0.06
Matches are distributed among these distances:
487 45 0.07
488 11 0.02
489 137 0.22
490 97 0.15
491 4 0.01
492 2 0.00
493 1 0.00
495 8 0.01
496 1 0.00
497 1 0.00
500 4 0.01
501 70 0.11
502 69 0.11
503 181 0.29
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (498 bp):
TTACGTTAAATCTCACACATTTACATCAATATTTAGACAATGCTTATTCAATCTTTATAATTGTT
TACATTAATTCTTACAGATTTACATCAAAGTTTTTTAAATACGAATTTGCACTATAATCATTTTT
ATCCTTACTATAATTCATTTATAAATTAAAATTTATAAACCGTTAAATACTTTAAACTCAAGAAC
ATAAATTTAAATATTTAATATTTCAAAAAATTATGATTATTTAATATAATTAATCTATTATGTTA
AATCTCACACATTTACATCAATATTTTGACAATGCATATTTCACCTTTATAATTTTTACTGTTAA
TTCTTACAGGTTTATATCAAGACTTTTCAACTACTAATTTTCACTATAATTATTATATGTATTAT
TATCATGTATAATTAACATTTATAAACCGTTAAATACTCTAACTTCGAGAATATAAAATTAAATA
TTTAATTTTAAAAAAAATTATTATTATTTAACATAGTGACCTA
Found at i:51297 original size:27 final size:26
Alignment explanation
Indices: 51259--51323 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
51249 CAATTTATTT
51259 ATTTTTTAAAAAAATAAATAAAAAATA
1 ATTTTTTAAAAAAAT-AATAAAAAATA
* **
51286 ATTTTTTAAAAAACTCTTAAAAAATA
1 ATTTTTTAAAAAAATAATAAAAAATA
*
51312 ATTTTTTTAAAA
1 ATTTTTTAAAAA
51324 TAAAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 20 0.59
27 14 0.41
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (26 bp):
ATTTTTTAAAAAAATAATAAAAAATA
Found at i:51335 original size:27 final size:25
Alignment explanation
Indices: 51259--51336 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 25
51249 CAATTTATTT
* *
51259 ATTTTTTAAAAAAATAAATAAAAAATA
1 ATTTTTT-AAAAAA-AATTTAAAAATA
*
51286 ATTTTTT-AAAAAACTCTTAAAAAATA
1 ATTTTTTAAAAAAAAT-TT-AAAAATA
51312 ATTTTTTTAAAATAAAATTTAAAAA
1 A-TTTTTTAAAA-AAAATTTAAAAA
51337 AAAAGCTTAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
24 1 0.02
25 6 0.14
26 8 0.19
27 18 0.43
28 5 0.12
29 4 0.10
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTTTTTAAAAAAAATTTAAAAATA
Found at i:56648 original size:31 final size:31
Alignment explanation
Indices: 56579--56651 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
56569 ATGACATCTT
*
56579 GTGGTGACACGCTGAGTGGAAGCAGATACTTG
1 GTGGTGACACGCTGAGTGCAAGCAGATA-TTG
* *
56611 G-CGTGACACGCTGAGTGCATGCAGAT-TTCG
1 GTGGTGACACGCTGAGTGCAAGCAGATATT-G
56641 GTGGTGACACG
1 GTGGTGACACG
56652 TTAACTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 2 0.06
30 2 0.06
31 30 0.86
32 1 0.03
ACGTcount: A:0.22, C:0.19, G:0.37, T:0.22
Consensus pattern (31 bp):
GTGGTGACACGCTGAGTGCAAGCAGATATTG
Found at i:56899 original size:118 final size:118
Alignment explanation
Indices: 56580--57011 Score: 578
Period size: 118 Copynumber: 3.7 Consensus size: 118
56570 TGACATCTTG
56580 TGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCGGTGG
1 TGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCGGTGG
* * * * *
56645 TGACACGTTAACTTTTTACAGTATTGTGGGGTGACACGGCACGCCCCATCTTG
66 TGACACGCTGACTTTTTGCAGTATTGTGGGGTGACACGGCACGCCCCATTTTA
*
56698 TGGTGACACGCTGAGTGGAAGCAG-TACTTGGCGTGACACGCTGAGTGCATGCAGATTTTGGTGG
1 TGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCGGTGG
* * * * * *
56762 TGACATGCTGAATTCTTGCAGTATTGTGAGGTGACACGGCATGCCCCATTTTT
66 TGACACGCTGACTTTTTGCAGTATTGTGGGGTGACACGGCACGCCCCATTTTA
** * * ** *
56815 TAATGACACGTTGAGTGGTAGCAGATACTTACCGTGACACGCTGAGTGCATGTAGATTTCGGTGG
1 TGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCGGTGG
* * * * *
56880 TGACATGCTGACTTTTTGCAATATTGTGGGGTGACATGGCACACCCCAATTTA
66 TGACACGCTGACTTTTTGCAGTATTGTGGGGTGACACGGCACGCCCCATTTTA
* * * * **
56933 TGGTGACACGTTGAGTGGAACCAGATACTTGGCTTGACACGTTGAGTGCATGCAGATTTCTATGG
1 TGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCGGTGG
*
56998 TAACACGCTGACTT
66 TGACACGCTGACTT
57012 CTTATAGTAC
Statistics
Matches: 272, Mismatches: 41, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
117 102 0.38
118 170 0.62
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (118 bp):
TGGTGACACGCTGAGTGGAAGCAGATACTTGGCGTGACACGCTGAGTGCATGCAGATTTCGGTGG
TGACACGCTGACTTTTTGCAGTATTGTGGGGTGACACGGCACGCCCCATTTTA
Found at i:57384 original size:19 final size:19
Alignment explanation
Indices: 57357--57394 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
57347 CCATTTAACT
*
57357 TATTAGAGTATGATTTGAG
1 TATTAGAGTATAATTTGAG
*
57376 TATTGGAGTATAATTTGAG
1 TATTAGAGTATAATTTGAG
57395 GGTTTGATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATAATTTGAG
Found at i:63746 original size:31 final size:31
Alignment explanation
Indices: 63707--63972 Score: 388
Period size: 31 Copynumber: 8.6 Consensus size: 31
63697 GTTAACCCAT
* *
63707 AATGTTGTAACACACCATGCATATAACATAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
* *
63738 AATATTGTAACACGCCATGCATATAACGTAT
1 AATGTTGTAACACGCCATGCATATAACGTAA
63769 AATGTTGTAACACGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
* * * *
63800 AATTTTGTAGCACACAATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
63831 AATGTTGTAACACGCCATGCATATAATGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
* ** * *
63862 AATATTGTAACATACCATGCGTATAACATAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
63893 AATGTTGTAACACGCCATGCATATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
63924 AATGTTGTAACACGCCATGCGTATAACGTAA
1 AATGTTGTAACACGCCATGCATATAACGTAA
*
63955 AATGTTGTAACATGCCAT
1 AATGTTGTAACACGCCAT
63973 CGCTGACACG
Statistics
Matches: 207, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 207 1.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (31 bp):
AATGTTGTAACACGCCATGCATATAACGTAA
Done.