Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168337.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_56, whole genome shotgun sequence
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: 149304
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
File 1 of 4
Found at i:1440 original size:11 final size:11
Alignment explanation
Indices: 1424--1452 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
1414 AAATTCATTG
1424 AATGATGGTCA
1 AATGATGGTCA
1435 AATGATGGTCA
1 AATGATGGTCA
1446 AATGATG
1 AATGATG
1453 ATCGATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (11 bp):
AATGATGGTCA
Found at i:2013 original size:42 final size:39
Alignment explanation
Indices: 1936--2380 Score: 379
Period size: 41 Copynumber: 11.2 Consensus size: 39
1926 ATGATTGTCA
1936 AGGAGCAATTTATTTTCAAAAGT-CGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTC-AAAGTCCGT--TGCCTCTGTTTAG
1977 AGGAGCAATTTATTTTTTCAAAGTTCCGTTGCCTCTGTTTAG
1 AGGAGCAATTTA--TTTTCAAAG-TCCGTTGCCTCTGTTTAG
* **
2019 AGGAGCAATTTACTTTCCAAAGGTCCGTTGCCTCAATTT--
1 AGGAGCAATTTA-TTTTCAAA-GTCCGTTGCCTCTGTTTAG
* * *
2058 ---A-C------TTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCAAAGTC-CGTTGCCTCTGTTTAG
* *
2088 AGGAGCAATTTACTTTCAAAGTTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTATTTTCAAAG-TCCGTTGCCTCTGTTTAG
2128 AGGAGCAATTTACTTTTTCAAAGT-CGTGGTGCC-CTGTTTAG
1 AGGAGCAATTTA--TTTTCAAAGTCCGT--TGCCTCTGTTTAG
2169 AGGAGCAATTTACTTTTTCAAAGT-CGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA--TTTTCAAAGTCCGT--TGCCTCTGTTTAG
* * *
2211 AGGAGCAATTTACTTTCAAAGTTTCGTTACCTCTGTTTAG
1 AGGAGCAATTTATTTTCAAAG-TCCGTTGCCTCTGTTTAG
2251 AGGAGCAATTTACTTTTCAAAAGT-CGTGATGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTC-AAAGTCCGT--TGCCTCTGTTTAG
*
2293 AGGAGCAATTTACTTTCCAAAGT-CGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCAAAGTCCGT--TGCCTCTGTTTAG
*
2334 AGGAGCAATTTATTTTTCAAAGT-CATTGAGCCTCTGTTTAG
1 AGGAGCAATTTA-TTTTCAAAGTCCGTT--GCCTCTGTTTAG
2375 AGGAGC
1 AGGAGC
2381 TTTGGTCAAA
Statistics
Matches: 349, Mismatches: 23, Indels: 64
0.80 0.05 0.15
Matches are distributed among these distances:
27 3 0.01
28 18 0.05
33 1 0.00
34 1 0.00
35 1 0.00
36 1 0.00
39 1 0.00
40 71 0.20
41 145 0.42
42 98 0.28
43 6 0.02
44 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (39 bp):
AGGAGCAATTTATTTTCAAAGTCCGTTGCCTCTGTTTAG
Found at i:2274 original size:123 final size:123
Alignment explanation
Indices: 2052--2380 Score: 540
Period size: 123 Copynumber: 2.7 Consensus size: 123
2042 TCCGTTGCCT
*
2052 CAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAGTTTCGTTG
1 CAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAGTTTCGTTA
*
2117 CCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGGTGCC-CTGTTTAGAGGAG
66 CCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGATGCCTCTGTTTAGAGGAG
*
2174 CAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAGTTTCGTT
1 CAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAGTTTCGTT
2239 ACCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAAGTCGTGATGCCTCTGTTTAGAGGAG
65 ACCTCTGTTTAGAGGAGCAATTTACTTTTTC-AAAGTCGTGATGCCTCTGTTTAGAGGAG
* *
2298 CAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAG--TCATT
1 CAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTTTCAAAGTTTCGTT
2361 GAGCCTCTGTTTAGAGGAGC
65 -A-CCTCTGTTTAGAGGAGC
2381 TTTGGTCAAA
Statistics
Matches: 195, Mismatches: 6, Indels: 10
0.92 0.03 0.05
Matches are distributed among these distances:
122 17 0.09
123 132 0.68
124 46 0.24
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (123 bp):
CAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCAAAGTTTCGTTA
CCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTGATGCCTCTGTTTAGAGGAG
Found at i:2275 original size:82 final size:81
Alignment explanation
Indices: 2052--2380 Score: 463
Period size: 82 Copynumber: 4.0 Consensus size: 81
2042 TCCGTTGCCT
2052 CAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCAAAGTTTCGT-
1 CAATTTACTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAG--TCGTG
2115 -TGCCTCTGTTTAGAGGAG
63 GTGCCTCTGTTTAGAGGAG
*
2133 CAATTTACTTTTTCAAAGTCGTGGTGCC-CTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTG
1 CAATTTAC-TTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCAAAGTCGTG
2197 GTGCCTCTGTTTAGAGGAG
63 GTGCCTCTGTTTAGAGGAG
*
2216 CAATTTACTTT-CAAAGTTTCGT-TACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAAGTCGTG
1 CAATTTACTTTCCAAAG--TCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTG
*
2279 ATGCCTCTGTTTAGAGGAG
63 GTGCCTCTGTTTAGAGGAG
* * * *
2298 CAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTCATTGA
1 CAATTTACTTTCCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGT
2363 GCCTCTGTTTAGAGGAG
65 GCCTCTGTTTAGAGGAG
2380 C
1 C
2381 TTTGGTCAAA
Statistics
Matches: 227, Mismatches: 9, Indels: 23
0.88 0.03 0.09
Matches are distributed among these distances:
81 50 0.22
82 105 0.46
83 72 0.32
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (81 bp):
CAATTTACTTTCCAAAGTCGTGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTG
CCTCTGTTTAGAGGAG
Found at i:2408 original size:9 final size:8
Alignment explanation
Indices: 2387--2416 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
2377 GAGCTTTGGT
2387 CAAAAAAA
1 CAAAAAAA
*
2395 TAAAAAAA
1 CAAAAAAA
2403 CAAAAAAA
1 CAAAAAAA
2411 CAAAAA
1 CAAAAA
2417 GTGACAACGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.87, C:0.10, G:0.00, T:0.03
Consensus pattern (8 bp):
CAAAAAAA
Found at i:2650 original size:8 final size:7
Alignment explanation
Indices: 2620--2735 Score: 50
Period size: 6 Copynumber: 16.9 Consensus size: 7
2610 TTATGTATTT
*
2620 TATTATT
1 TATTATA
2627 TATTAT-
1 TATTATA
2633 TATTATA
1 TATTATA
2640 TATTAATA
1 TATT-ATA
2648 TATGTATA
1 TAT-TATA
*
2656 TCTT-TA
1 TATTATA
*
2662 T-TTATT
1 TATTATA
* *
2668 TATTTTC
1 TATTATA
*
2675 TGTTA-A
1 TATTATA
2681 TATT-TA
1 TATTATA
*
2687 TATGTATTG
1 TAT-TA-TA
2696 TATTTATA
1 TA-TTATA
*
2704 TAGT-TA
1 TATTATA
2710 TA-TATA
1 TATTATA
2716 TATTATTA
1 TATTA-TA
2724 TATTAT-
1 TATTATA
2730 TATTAT
1 TATTAT
2736 TTTATTATTT
Statistics
Matches: 85, Mismatches: 11, Indels: 27
0.69 0.09 0.22
Matches are distributed among these distances:
5 3 0.04
6 32 0.38
7 22 0.26
8 21 0.25
9 6 0.07
10 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (7 bp):
TATTATA
Found at i:2724 original size:14 final size:14
Alignment explanation
Indices: 2680--2741 Score: 56
Period size: 14 Copynumber: 4.4 Consensus size: 14
2670 TTTTCTGTTA
2680 ATATTTATATGTATT
1 ATATTTATAT-TATT
*
2695 GTATTTATA-TAGTT
1 ATATTTATATTA-TT
*
2709 ATATATATATTATT
1 ATATTTATATTATT
2723 ATA-TTATTATTATT
1 ATATTTA-TATTATT
*
2737 TTATT
1 ATATT
2742 ATTTTTTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
13 4 0.11
14 23 0.61
15 11 0.29
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (14 bp):
ATATTTATATTATT
Found at i:2730 original size:11 final size:11
Alignment explanation
Indices: 2710--2744 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
2700 TATATAGTTA
2710 TATATATATTAT
1 TATAT-TATTAT
2722 TATATTATTAT
1 TATATTATTAT
*
2733 TATTTTATTAT
1 TATATTATTAT
2744 T
1 T
2745 TTTTTTTCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 17 0.77
12 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TATATTATTAT
Found at i:2749 original size:11 final size:11
Alignment explanation
Indices: 2716--2748 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2706 GTTATATATA
*
2716 TATTATTATAT
1 TATTATTATTT
2727 TATTATTATTT
1 TATTATTATTT
2738 TATTATT-TTT
1 TATTATTATTT
2748 T
1 T
2749 TTTCTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TATTATTATTT
Found at i:3251 original size:31 final size:31
Alignment explanation
Indices: 3216--3282 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
3206 TCCTGATTTT
* *
3216 GGCAAAAATTCCGACGAA-ATTTGAATTTTCC
1 GGCAAAAATTCCAACGAACA-TTGAAGTTTCC
* *
3247 GGCAACAATTCCAACTAACATTGAAGTTTCC
1 GGCAAAAATTCCAACGAACATTGAAGTTTCC
3278 GGCAA
1 GGCAA
3283 CCTACCCAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.25
Consensus pattern (31 bp):
GGCAAAAATTCCAACGAACATTGAAGTTTCC
Found at i:3359 original size:19 final size:20
Alignment explanation
Indices: 3335--3378 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3325 TCCGACCAAC
3335 TTCCGACGA-AATTTTCAGA
1 TTCCGACGACAATTTTCAGA
*
3354 TTCCGACGACATTTTTCAGA
1 TTCCGACGACAATTTTCAGA
*
3374 ATCCG
1 TTCCG
3379 GCACTGGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (20 bp):
TTCCGACGACAATTTTCAGA
Found at i:3716 original size:12 final size:12
Alignment explanation
Indices: 3699--3738 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
3689 TTTTTTTTTC
3699 ATTTATTTGTTT
1 ATTTATTTGTTT
3711 ATTTATTTGTTT
1 ATTTATTTGTTT
*
3723 ATTTTATTTATTT
1 A-TTTATTTGTTT
3736 ATT
1 ATT
3739 AAATTAGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (12 bp):
ATTTATTTGTTT
Found at i:3754 original size:4 final size:4
Alignment explanation
Indices: 3699--3738 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
3689 TTTTTTTTTC
* *
3699 ATTT ATTT GTTT ATTT ATTT GTTT ATTTT ATTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATT
3739 AAATTAGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
4 27 0.87
5 4 0.13
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:3782 original size:6 final size:6
Alignment explanation
Indices: 3761--3805 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
3751 TTTAATATTC
* *
3761 TTTTTA TCTTTA -TTTTA TTTTTA TTTTGTT TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA TTTTTA TTT
3806 ATTTTCACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 4 0.12
6 24 0.73
7 5 0.15
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:3783 original size:29 final size:29
Alignment explanation
Indices: 3751--3810 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
3741 ATTAGGTTTA
3751 TTTAATAT-TCTTTTTATCTTTATTTTATT
1 TTTAATATGTCTTTTTATCTTTA-TTTATT
* * * *
3780 TTTATTTTGTTTTTTTATTTTTATTTATT
1 TTTAATATGTCTTTTTATCTTTATTTATT
3809 TT
1 TT
3811 CACTTTCATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.17, C:0.03, G:0.02, T:0.78
Consensus pattern (29 bp):
TTTAATATGTCTTTTTATCTTTATTTATT
Found at i:3792 original size:11 final size:11
Alignment explanation
Indices: 3762--3840 Score: 60
Period size: 10 Copynumber: 7.4 Consensus size: 11
3752 TTAATATTCT
*
3762 TTTTATCTTTA
1 TTTTATTTTTA
3773 TTTTATTTTTA
1 TTTTATTTTTA
*
3784 -TTT-TGTTT-
1 TTTTATTTTTA
3792 TTTTATTTTTA
1 TTTTATTTTTA
*
3803 -TTTATTTTCA
1 TTTTATTTTTA
*
3813 CTTTCATTTTT-
1 -TTTTATTTTTA
3824 TTTTATTATTCTA
1 TTTTATT-TT-TA
3837 TTTT
1 TTTT
3841 CTTTAAATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
9 7 0.13
10 22 0.42
11 12 0.23
12 8 0.15
13 4 0.08
ACGTcount: A:0.15, C:0.06, G:0.01, T:0.77
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:3822 original size:29 final size:29
Alignment explanation
Indices: 3761--3841 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
3751 TTTAATATTC
* * * **
3761 TTTTTATCTTTATTTTATTTTTATTTTGTT
1 TTTTTATTTTTA-TTTATTTTCACTTTCAT
3791 TTTTTATTTTTATTTATTTTCACTTTCAT
1 TTTTTATTTTTATTTATTTTCACTTTCAT
3820 TTTTT-TTTATTATTCTATTTTC
1 TTTTTATTT-TTATT-TATTTTC
3842 TTTAAATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
28 3 0.07
29 23 0.52
30 18 0.41
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (29 bp):
TTTTTATTTTTATTTATTTTCACTTTCAT
Found at i:3823 original size:30 final size:29
Alignment explanation
Indices: 3761--3841 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 29
3751 TTTAATATTC
* * **
3761 TTTTTATCTTTATTTTATTTTTATTTTGTT
1 TTTTTATTTTTA-TTTATTTTCATTTCATT
3791 TTTTTATTTTTATTTATTTTCACTTTCATT
1 TTTTTATTTTTATTTATTTTCA-TTTCATT
*
3821 TTTTT-TTATTATTCTATTTTC
1 TTTTTATTTTTATT-TATTTTC
3842 TTTAAATAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
29 16 0.36
30 28 0.64
ACGTcount: A:0.15, C:0.07, G:0.01, T:0.77
Consensus pattern (29 bp):
TTTTTATTTTTATTTATTTTCATTTCATT
Found at i:3927 original size:56 final size:56
Alignment explanation
Indices: 3866--4134 Score: 380
Period size: 56 Copynumber: 4.7 Consensus size: 56
3856 AAAAATTCCA
3866 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
1 AAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
*** * *
3923 -AAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAA-AAATTTC
1 AAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
*
3978 CAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
1 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
*
4034 AAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGTAAATTTTC
1 AAAAAA-ATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAA-TTTC
*
4093 AAAAAAAATAATTTTTGGAAAAAAGTTGAAAGTATCAATTTT
1 -AAAAAAAT-ATTTTTGG-GAAAAGTTGAAAGTATCAATTTT
4135 TCCTACACAA
Statistics
Matches: 190, Mismatches: 13, Indels: 15
0.87 0.06 0.07
Matches are distributed among these distances:
55 39 0.21
56 64 0.34
57 8 0.04
58 37 0.19
59 8 0.04
60 34 0.18
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (56 bp):
AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC
Found at i:3927 original size:58 final size:58
Alignment explanation
Indices: 3858--4134 Score: 386
Period size: 58 Copynumber: 4.8 Consensus size: 58
3848 TAAAAATCAA
*
3858 AAATTCCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*** * * *
3916 AAATTTCAAAAAGGGT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTTCTTAGAAA-
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
3971 AAATTTC-CAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
* *
4027 AAATTTCAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGT
1 AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
*
4085 AAATTTTCAAAAAAAATAATTTTT-GGAAAAAAGTTGAAAGTATCAATTTT
1 AAA-TTTCAAAAAAAAT-ATTTTTAGG-GAAAAGTTGAAAGTATCAATTTT
4135 TCCTACACAA
Statistics
Matches: 192, Mismatches: 19, Indels: 14
0.85 0.08 0.06
Matches are distributed among these distances:
54 4 0.02
55 42 0.22
56 38 0.20
57 17 0.09
58 49 0.26
59 14 0.07
60 28 0.15
ACGTcount: A:0.46, C:0.07, G:0.12, T:0.35
Consensus pattern (58 bp):
AAATTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT
Found at i:3983 original size:111 final size:115
Alignment explanation
Indices: 3864--4134 Score: 399
Period size: 111 Copynumber: 2.4 Consensus size: 115
3854 TCAAAAATTC
*
3864 CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAG
1 CAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAA
* *
3929 GGT-TTTTGA-GGAAAAGTTGAAAGTATCAATTTTTCTTAGAAA-AAA-TTT
65 GATATTTTGAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AAAGAAATTTT
* *
3977 C-CAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAT
1 CAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAG
*
4041 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGTAAATTTT
66 ATATTTTGAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAG-AAATTTT
*
4092 CAAAAAAAATAATTTTTGGAAAAAAGTTGAAAGTATCAATTTT
1 CAAAAAAAAT-ATTTTTGG-GAAAAGTTGAAAGTATCAATTTT
4135 TCCTACACAA
Statistics
Matches: 142, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
111 48 0.34
112 21 0.15
113 29 0.20
114 3 0.02
115 4 0.03
116 7 0.05
117 8 0.06
118 22 0.15
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.35
Consensus pattern (115 bp):
CAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAAAG
ATATTTTGAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAATTTT
Found at i:4190 original size:13 final size:13
Alignment explanation
Indices: 4174--4199 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4164 CATTCCTTTC
4174 TATTTTGATTTTT
1 TATTTTGATTTTT
4187 TATTTTGATTTTT
1 TATTTTGATTTTT
4200 CTTTAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TATTTTGATTTTT
Found at i:4860 original size:18 final size:19
Alignment explanation
Indices: 4811--4847 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4801 AAGGTCAATG
4811 TCATAGAAAGTGATAAGTA
1 TCATAGAAAGTGATAAGTA
4830 TCATAGAAAGTGATAAGT
1 TCATAGAAAGTGATAAGT
4848 CTCTTACAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.22, T:0.27
Consensus pattern (19 bp):
TCATAGAAAGTGATAAGTA
Found at i:10682 original size:163 final size:162
Alignment explanation
Indices: 10407--10714 Score: 535
Period size: 163 Copynumber: 1.9 Consensus size: 162
10397 TGTTAAAACC
* * *
10407 TTCAACATTAAGGAACTAGTAGAATGAGAGAGAAAAAGGTTCTGTGGCGGTAGACCAGAAAGTAT
1 TTCAACATTAAGGAACTAGTAGAATGAGAGAGAAAAAGGATCTGTGGCGATAGACCAGAAACTAT
10472 CAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAATGAAAGGATCAAATCAGACTGGTTGCTT
66 CAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAATGAAAGGATCAAATCAGACTGGTTGCTT
10537 CTGATTATATTACTTGTCATTCTATAAACACT
131 CTGATTATATTACTTGTCATTCTATAAACACT
* *
10569 TTCAACCATTAAGGAACTAGTAGAATGAGAGATAAAAAGGATCTGTGGTGATAGACCAGAAACTA
1 TTCAA-CATTAAGGAACTAGTAGAATGAGAGAGAAAAAGGATCTGTGGCGATAGACCAGAAACTA
* * *
10634 TCAATTCAAGGTGGTTGCTTGTTACAGTATAATGAGAATGAAAGGATCAAATCAGACTGGTTGCT
65 TCAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAATGAAAGGATCAAATCAGACTGGTTGCT
10699 TCTGATTATATTACTT
130 TCTGATTATATTACTT
10715 ATGTTTTATT
Statistics
Matches: 137, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
162 5 0.04
163 132 0.96
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (162 bp):
TTCAACATTAAGGAACTAGTAGAATGAGAGAGAAAAAGGATCTGTGGCGATAGACCAGAAACTAT
CAATTCAAGGTGGTTGATTCTTACAGGATAATGAGAATGAAAGGATCAAATCAGACTGGTTGCTT
CTGATTATATTACTTGTCATTCTATAAACACT
Found at i:14814 original size:13 final size:13
Alignment explanation
Indices: 14798--14822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14788 GTTAAATTTT
14798 AAATTTAAAATTC
1 AAATTTAAAATTC
14811 AAATTTAAAATT
1 AAATTTAAAATT
14823 GATTTTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAATTTAAAATTC
Found at i:15137 original size:49 final size:50
Alignment explanation
Indices: 15080--15177 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
15070 ACTATCAAAA
* **
15080 TACCATCCAAA-CCATACTACCCAAATCGACTTTTAGGATGCCCTAATCT
1 TACCATCCAAATCCATACTACCCAAACCGACTTAGAGGATGCCCTAATCT
* *
15129 TACCATCCAAATTCATACTACCCAAACCGGCTTAGAGGATGCCCTAATC
1 TACCATCCAAATCCATACTACCCAAACCGACTTAGAGGATGCCCTAATC
15178 CAACTTGTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 11 0.26
50 32 0.74
ACGTcount: A:0.33, C:0.33, G:0.10, T:0.24
Consensus pattern (50 bp):
TACCATCCAAATCCATACTACCCAAACCGACTTAGAGGATGCCCTAATCT
Found at i:16164 original size:19 final size:18
Alignment explanation
Indices: 16140--16175 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
16130 TTTTTTTTGT
16140 TTATTTCTAATTACTTTTC
1 TTATTT-TAATTACTTTTC
*
16159 TTATTTTTATTACTTTT
1 TTATTTTAATTACTTTT
16176 TCGTTAGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTTAATTACTTTTC
Found at i:16647 original size:6 final size:7
Alignment explanation
Indices: 16629--16713 Score: 50
Period size: 7 Copynumber: 12.0 Consensus size: 7
16619 ATTGTTATTC
16629 ATTTTTT
1 ATTTTTT
16636 ATTTTTT
1 ATTTTTT
*
16643 ATTTTTG
1 ATTTTTT
* **
16650 AGTCATT
1 ATTTTTT
16657 ATTTTTT
1 ATTTTTT
* *
16664 CATTTCTC
1 -ATTTTTT
16672 ACTTTTTT
1 A-TTTTTT
16680 A-TTTTT
1 ATTTTTT
*
16686 A--TTAT
1 ATTTTTT
16691 ATTTTTGT
1 ATTTTT-T
16699 ATATTTTT
1 AT-TTTTT
16707 ATTTTTT
1 ATTTTTT
16714 TTCTTTTCTT
Statistics
Matches: 58, Mismatches: 14, Indels: 12
0.69 0.17 0.14
Matches are distributed among these distances:
5 4 0.07
6 6 0.10
7 28 0.48
8 16 0.28
9 4 0.07
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.73
Consensus pattern (7 bp):
ATTTTTT
Found at i:16836 original size:22 final size:21
Alignment explanation
Indices: 16795--16842 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
16785 TTTTTTCTTA
*
16795 TTTTTATTTTTTTCAGTTTAT
1 TTTTTATTTTTTTCAATTTAT
*
16816 TTTTTATTTCTTTTTAATTTAT
1 TTTTTATTT-TTTTCAATTTAT
*
16838 ATTTT
1 TTTTT
16843 CATAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (21 bp):
TTTTTATTTTTTTCAATTTAT
Found at i:17551 original size:19 final size:19
Alignment explanation
Indices: 17514--17552 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
17504 TTTTTTTCTA
* * *
17514 TTGACATTTTTGTTTATTT
1 TTGAAATTTTTATTCATTT
17533 TTGAAATTTTTATTCATTT
1 TTGAAATTTTTATTCATTT
17552 T
1 T
17553 CTTTTTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.05, G:0.08, T:0.67
Consensus pattern (19 bp):
TTGAAATTTTTATTCATTT
Found at i:17726 original size:9 final size:9
Alignment explanation
Indices: 17709--17789 Score: 69
Period size: 9 Copynumber: 9.1 Consensus size: 9
17699 TTTTATAAAG
*
17709 TTTTGATTT
1 TTTTTATTT
17718 TTTTTA--T
1 TTTTTATTT
17725 TTTTTATTT
1 TTTTTATTT
**
17734 TTTGAATCTT
1 TTTTTAT-TT
*
17744 TTTTTCTTT
1 TTTTTATTT
**
17753 TTTTTGGTT
1 TTTTTATTT
17762 TTTTTAGTTT
1 TTTTTA-TTT
17772 TTTTTA-TT
1 TTTTTATTT
17780 TTTTTATTT
1 TTTTTATTT
17789 T
1 T
17790 CTCATTTCTT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
7 7 0.12
8 8 0.14
9 28 0.49
10 14 0.25
ACGTcount: A:0.10, C:0.02, G:0.06, T:0.81
Consensus pattern (9 bp):
TTTTTATTT
Found at i:17727 original size:8 final size:8
Alignment explanation
Indices: 17716--17789 Score: 51
Period size: 8 Copynumber: 8.5 Consensus size: 8
17706 AAGTTTTGAT
17716 TTTTTTTA
1 TTTTTTTA
17724 -TTTTTTA
1 TTTTTTTA
*
17731 TTTTTTGAATC
1 TTTTTT---TA
*
17742 TTTTTTTCT
1 TTTTTTT-A
*
17751 TTTTTTTGG
1 TTTTTTT-A
17760 TTTTTTTA
1 TTTTTTTA
17768 GTTTTTTTTA
1 --TTTTTTTA
17778 TTTTTTTA
1 TTTTTTTA
17786 TTTT
1 TTTT
17790 CTCATTTCTT
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
7 7 0.13
8 18 0.33
9 14 0.26
10 8 0.15
11 7 0.13
ACGTcount: A:0.09, C:0.03, G:0.05, T:0.82
Consensus pattern (8 bp):
TTTTTTTA
Found at i:18060 original size:31 final size:32
Alignment explanation
Indices: 18025--18092 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 32
18015 TTTGTCTTTG
* *
18025 ATTTTTATACTA-TTTTCTTA-TTATTTTTTTC
1 ATTTTT-TACTATTTTTCATACTAATTTTTTTC
**
18056 ATTTTTTTGTATTTTTCATACTAATTTTTTTC
1 ATTTTTTACTATTTTTCATACTAATTTTTTTC
18088 ATTTT
1 ATTTT
18093 GTCATTCATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 3 0.10
31 13 0.42
32 15 0.48
ACGTcount: A:0.19, C:0.09, G:0.01, T:0.71
Consensus pattern (32 bp):
ATTTTTTACTATTTTTCATACTAATTTTTTTC
Found at i:18126 original size:41 final size:41
Alignment explanation
Indices: 18081--18167 Score: 92
Period size: 41 Copynumber: 2.1 Consensus size: 41
18071 TCATACTAAT
*
18081 TTTTTTCA-TTTT-GTCATTCATTTTCCTTTTCTT-TTTTTTTA
1 TTTTTT-ATTTTTAGTCATT-ATTTTCCTTTT-TTCATTTTTTA
*
18122 -TTTTTATTTTTGAGTCATTATTTTTCTTTTTTCATTTTTTA
1 TTTTTTATTTTT-AGTCATTATTTTCCTTTTTTCATTTTTTA
18163 TTTTT
1 TTTTT
18168 ATTGTATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
39 1 0.03
40 11 0.28
41 17 0.44
42 10 0.26
ACGTcount: A:0.11, C:0.10, G:0.03, T:0.75
Consensus pattern (41 bp):
TTTTTTATTTTTAGTCATTATTTTCCTTTTTTCATTTTTTA
Found at i:18217 original size:21 final size:20
Alignment explanation
Indices: 18192--18267 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 20
18182 TATTTTAAAA
18192 TTTTTTCTTATTGGTATTAT
1 TTTTTTCTTATTGGTATTAT
* * *
18212 GTTTTTCTTTTTTTGTACTTTAT
1 TTTTTTC-TTATTGGTA--TTAT
*
18235 TTTTTTCTT-TTGCTATAATAT
1 TTTTTTCTTATTGGTAT--TAT
18256 TTTTTTCTTATT
1 TTTTTTCTTATT
18268 TTATTTTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 1 0.02
20 6 0.14
21 23 0.52
22 4 0.09
23 10 0.23
ACGTcount: A:0.13, C:0.08, G:0.07, T:0.72
Consensus pattern (20 bp):
TTTTTTCTTATTGGTATTAT
Found at i:18730 original size:19 final size:18
Alignment explanation
Indices: 18708--18750 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
18698 GTCATCCCTT
18708 TTCATTTTTGAAATTTTTA
1 TTCATTTTT-AAATTTTTA
**
18727 TTCATTTTTTTATTTTTA
1 TTCATTTTTAAATTTTTA
18745 TTCATT
1 TTCATT
18751 ATTTTTTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (18 bp):
TTCATTTTTAAATTTTTA
Found at i:18755 original size:18 final size:18
Alignment explanation
Indices: 18720--18755 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
18710 CATTTTTGAA
*
18720 ATTTTTATTCATTTTTTT
1 ATTTTTATTCATTATTTT
18738 ATTTTTATTCATTATTTT
1 ATTTTTATTCATTATTTT
18756 TTCATTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTTTATTCATTATTTT
Found at i:18774 original size:31 final size:30
Alignment explanation
Indices: 18722--18817 Score: 79
Period size: 31 Copynumber: 3.1 Consensus size: 30
18712 TTTTTGAAAT
*
18722 TTTTATTCATTTTTTTATTTTTATTCATTA
1 TTTTATTCATTTTCTTATTTTTATTCATTA
*
18752 TTTT-TTCATTTTCTTACCTTTTTTTTCATT-
1 TTTTATTCATTTTCTTA--TTTTTATTCATTA
* * * *
18782 CTTAATTTCTTTTTCCTTATTTTTATTTATTTA
1 TTTTA-TTCATTTT-CTTATTTTTATTCA-TTA
18815 TTT
1 TTT
18818 CTTATTTTAG
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
29 11 0.22
30 6 0.12
31 19 0.37
32 9 0.18
33 6 0.12
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTTATTCATTTTCTTATTTTTATTCATTA
Found at i:18851 original size:18 final size:18
Alignment explanation
Indices: 18830--18896 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 18
18820 TATTTTAGTA
18830 CTTTATTTTATCTTTTTT
1 CTTTATTTTATCTTTTTT
*
18848 CTTTCATTTTAATATTTTTTT
1 CTTT-ATTTT-AT-CTTTTTT
* *
18869 ATGTTATTTTACCTTTTATT
1 CT-TTATTTTATCTTTT-TT
18889 -TTTATTTT
1 CTTTATTTT
18897 TAATATGGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 11 0.28
19 10 0.25
20 5 0.12
21 12 0.30
22 2 0.05
ACGTcount: A:0.16, C:0.09, G:0.01, T:0.73
Consensus pattern (18 bp):
CTTTATTTTATCTTTTTT
Found at i:20776 original size:33 final size:34
Alignment explanation
Indices: 20704--20779 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 34
20694 ATTTTCTATC
*
20704 TAATTTTTGTGTTTTATTTTGCATTTATTTCTTT
1 TAATTTTTATGTTTTATTTTGCATTTATTTCTTT
*
20738 T-ATTTTTAT-TTTTATTTTGTA-TTACCTTT-TTT
1 TAATTTTTATGTTTTATTTTGCATTTA--TTTCTTT
20770 TAATTTTTAT
1 TAATTTTTAT
20780 CTTCGGTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
31 3 0.08
32 15 0.41
33 18 0.49
34 1 0.03
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.72
Consensus pattern (34 bp):
TAATTTTTATGTTTTATTTTGCATTTATTTCTTT
Found at i:21023 original size:5 final size:5
Alignment explanation
Indices: 21013--21075 Score: 51
Period size: 5 Copynumber: 12.6 Consensus size: 5
21003 TTTGCTTTTA
** *
21013 TATTT TATTT TATTT TATTT T-TCC TATTT T-TTA T-TTT TATTT TAATTGTT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT TATTT T-A-T-TT
21063 TATTT TATTT TAT
1 TATTT TATTT TAT
21076 AAATTTTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
4 8 0.17
5 32 0.68
6 2 0.04
7 2 0.04
8 3 0.06
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:21055 original size:13 final size:13
Alignment explanation
Indices: 20988--21068 Score: 51
Period size: 13 Copynumber: 6.2 Consensus size: 13
20978 TAATACTTTA
*
20988 TTTTATCTTTTATC
1 TTTTAT-TTTTATT
** *
21002 TTTTGCTTTTATA
1 TTTTATTTTTATT
21015 TTTTA-TTTTATT
1 TTTTATTTTTATT
*
21027 TTATT-TTTCCTATT
1 TT-TTATTT-TTATT
21041 TTTTATTTTTA-T
1 TTTTATTTTTATT
*
21053 TTTAATTGTTTATT
1 TTTTATT-TTTATT
21067 TT
1 TT
21069 ATTTTATAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
12 15 0.28
13 22 0.42
14 16 0.30
ACGTcount: A:0.16, C:0.06, G:0.02, T:0.75
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:21066 original size:26 final size:24
Alignment explanation
Indices: 21009--21075 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 24
20999 ATCTTTTGCT
* *
21009 TTTATATTTTATTTTATTTTATTT
1 TTTATTTTTTATTTTATTTTATTG
21033 TTCCTATTTTTTATTTTTATTTTAATTG
1 TT--TATTTTTTA-TTTTATTTT-ATTG
21061 TTTA--TTTTATTTTAT
1 TTTATTTTTTATTTTAT
21076 AAATTTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
23 6 0.16
24 7 0.19
26 10 0.27
27 9 0.24
28 5 0.14
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (24 bp):
TTTATTTTTTATTTTATTTTATTG
Found at i:21538 original size:19 final size:17
Alignment explanation
Indices: 21507--21555 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 17
21497 TAAACTAAAT
21507 TTTTTTATA-TTTTGTCA
1 TTTTTTATATTTTTGT-A
21524 TTTTTTATTAGTTTTTGTA
1 TTTTTTA-TA-TTTTTGTA
21543 TTTTTTA-ATTTTT
1 TTTTTTATATTTTT
21556 TCTTGACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.17
17 8 0.28
18 2 0.07
19 8 0.28
20 6 0.21
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTTTATATTTTTGTA
Found at i:21669 original size:13 final size:13
Alignment explanation
Indices: 21611--21674 Score: 56
Period size: 13 Copynumber: 4.7 Consensus size: 13
21601 TTTTTAGTAG
*
21611 TTATTTTATCTTT
1 TTATTTTTTCTTT
* *
21624 TTCTTTTTGCTTT
1 TTATTTTTTCTTT
* *
21637 AATATTTTCTCTTATT
1 -TTATTTTTTC-T-TT
21653 TTATTTTTTCTTT
1 TTATTTTTTCTTT
21666 TTATTTTTT
1 TTATTTTTT
21675 ATTGTTAATT
Statistics
Matches: 39, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
13 21 0.54
14 7 0.18
15 9 0.23
16 2 0.05
ACGTcount: A:0.12, C:0.09, G:0.02, T:0.77
Consensus pattern (13 bp):
TTATTTTTTCTTT
Found at i:22244 original size:8 final size:8
Alignment explanation
Indices: 22233--22324 Score: 53
Period size: 8 Copynumber: 11.0 Consensus size: 8
22223 ACTTTCTCAC
22233 TTTTTTAT
1 TTTTTTAT
22241 TTTTTGT-T
1 TTTTT-TAT
22249 TTTGTTTAT
1 TTT-TTTAT
*
22258 TTTTAATTGT
1 TTTT--TTAT
22268 TTTGTTTAT
1 TTT-TTTAT
*
22277 TTTATTAT
1 TTTTTTAT
*
22285 TTTATTAT
1 TTTTTTAT
**
22293 TTTAGTAT
1 TTTTTTAT
*
22301 TTTATTAT
1 TTTTTTAT
22309 TTATTTT-T
1 TT-TTTTAT
*
22317 TCTTTTAT
1 TTTTTTAT
22325 ATGAATATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
7 4 0.06
8 42 0.61
9 16 0.23
10 6 0.09
11 1 0.01
ACGTcount: A:0.16, C:0.01, G:0.05, T:0.77
Consensus pattern (8 bp):
TTTTTTAT
Found at i:22294 original size:16 final size:16
Alignment explanation
Indices: 22273--22310 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
22263 ATTGTTTTGT
*
22273 TTATTTTATTATTTTA
1 TTATTTTAGTATTTTA
22289 TTATTTTAGTATTTTA
1 TTATTTTAGTATTTTA
22305 TTATTT
1 TTATTT
22311 ATTTTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTATTTTAGTATTTTA
Found at i:22301 original size:24 final size:22
Alignment explanation
Indices: 22274--22317 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
22264 TTGTTTTGTT
22274 TATTTTATTATTTTATTATTTTAG
1 TATTTTATTA-TTTATT-TTTTAG
22298 TATTTTATTATTTATTTTTT
1 TATTTTATTATTTATTTTTT
22318 CTTTTATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.20
23 6 0.30
24 10 0.50
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.75
Consensus pattern (22 bp):
TATTTTATTATTTATTTTTTAG
Found at i:22377 original size:13 final size:12
Alignment explanation
Indices: 22346--22376 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
22336 CTCTTAATTG
22346 ATTTTTTCATTT
1 ATTTTTTCATTT
22358 ATTTTTTCATTT
1 ATTTTTTCATTT
22370 ATTTTTT
1 ATTTTTT
22377 TAAAAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTTTTCATTT
Found at i:22543 original size:28 final size:28
Alignment explanation
Indices: 22506--22577 Score: 78
Period size: 28 Copynumber: 2.5 Consensus size: 28
22496 TTTCATATGC
*
22506 TTTCATTTTTTATTTGTTTT-TA-A-TTT
1 TTTCTTTTTTTATTT-TTTTATATATTTT
22532 TTTCATTGTTTTTAATTTTTTTATATATTTT
1 TTTC-TT-TTTTT-ATTTTTTTATATATTTT
22563 TTTCTTTTTTTATTT
1 TTTCTTTTTTTATTT
22578 CAAATCTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
26 4 0.10
27 1 0.03
28 13 0.33
29 11 0.28
30 3 0.08
31 7 0.18
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.78
Consensus pattern (28 bp):
TTTCTTTTTTTATTTTTTTATATATTTT
Found at i:22564 original size:20 final size:18
Alignment explanation
Indices: 22511--22555 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
22501 TATGCTTTCA
22511 TTTTTTATTTGTTTTTAAT
1 TTTTTTA-TTGTTTTTAAT
*
22530 TTTTTCATTGTTTTTAAT
1 TTTTTTATTGTTTTTAAT
22548 TTTTTTAT
1 TTTTTTAT
22556 ATATTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.16, C:0.02, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTTTATTGTTTTTAAT
Found at i:22775 original size:22 final size:23
Alignment explanation
Indices: 22735--22794 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
22725 AACTTTTATC
*
22735 TTTTTTA-ATTTTTTGTCTT-TGA
1 TTTTTTATATTGTTT-TCTTATGA
*
22757 TTTTTTATATTGTTTTCTTATTA
1 TTTTTTATATTGTTTTCTTATGA
*
22780 TTTCTTAT-TTGTTTT
1 TTTTTTATATTGTTTT
22795 TGAATTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 18 0.55
23 15 0.45
ACGTcount: A:0.13, C:0.05, G:0.07, T:0.75
Consensus pattern (23 bp):
TTTTTTATATTGTTTTCTTATGA
Found at i:22909 original size:41 final size:37
Alignment explanation
Indices: 22861--22965 Score: 104
Period size: 41 Copynumber: 2.7 Consensus size: 37
22851 CATTTTTGAA
*
22861 ATTTTTATTCAATTTTTGTCTTTTTTTTTTCTTACTTTTAT
1 ATTTTTATT-AATTTTTGTCTTTTTTTTTTCTT--TTCT-T
* *
22902 ATTTTTATTGTATTTTTGT-TTATTTTTTTCTTTTCTT
1 ATTTTTATT-AATTTTTGTCTTTTTTTTTTCTTTTCTT
** *
22939 ATTGGTATTAATTTTTTTCTTTTTTTT
1 ATTTTTATTAATTTTTGTCTTTTTTTT
22966 ACTTTATTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
36 7 0.13
37 15 0.28
38 3 0.06
40 12 0.22
41 17 0.31
ACGTcount: A:0.13, C:0.07, G:0.05, T:0.75
Consensus pattern (37 bp):
ATTTTTATTAATTTTTGTCTTTTTTTTTTCTTTTCTT
Found at i:22973 original size:26 final size:26
Alignment explanation
Indices: 22923--22988 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 26
22913 ATTTTTGTTT
22923 ATTTTTTTC-TTTTCTTATTGGTATTA
1 ATTTTTTTCTTTTTCTTATT-GTATTA
* *
22949 ATTTTTTTCTTTTTTTTACTT-TATTT
1 ATTTTTTTCTTTTTCTTA-TTGTATTA
22975 ATCTTTTTTCTTTT
1 AT-TTTTTTCTTTT
22989 GCTTTAATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 15 0.43
27 18 0.51
28 2 0.06
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (26 bp):
ATTTTTTTCTTTTTCTTATTGTATTA
Found at i:22993 original size:23 final size:21
Alignment explanation
Indices: 22958--23042 Score: 72
Period size: 19 Copynumber: 4.2 Consensus size: 21
22948 AATTTTTTTC
*
22958 TTTTT-TTTACTTTATTTATCT
1 TTTTTCTTTTCTTTATTTAT-T
*
22979 TTTTTCTTTTGCTTTA-ATATT
1 TTTTTCTTTT-CTTTATTTATT
*
23000 TTTTTCTTAT-TTTATTT-TT
1 TTTTTCTTTTCTTTATTTATT
* *
23019 TATTTC-TTTCTTTATTTATA
1 TTTTTCTTTTCTTTATTTATT
23039 TTTT
1 TTTT
23043 CATAAATTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
18 2 0.04
19 18 0.35
20 5 0.10
21 15 0.29
22 6 0.12
23 5 0.10
ACGTcount: A:0.14, C:0.08, G:0.01, T:0.76
Consensus pattern (21 bp):
TTTTTCTTTTCTTTATTTATT
Found at i:23007 original size:28 final size:27
Alignment explanation
Indices: 22920--22996 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 27
22910 TGTATTTTTG
22920 TTTAT-TTTTTTCTTTTC-TT-ATTGGTA
1 TTTATCTTTTTTCTTTTCTTTAATT--TA
* * *
22946 TTAAT-TTTTTTCTTTTTTTTACTTTA
1 TTTATCTTTTTTCTTTTCTTTAATTTA
22972 TTTATCTTTTTTCTTTTGCTTTAAT
1 TTTATCTTTTTTCTTTT-CTTTAAT
22997 ATTTTTTTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
26 21 0.51
27 13 0.32
28 7 0.17
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.74
Consensus pattern (27 bp):
TTTATCTTTTTTCTTTTCTTTAATTTA
Found at i:23276 original size:27 final size:27
Alignment explanation
Indices: 23237--23289 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
23227 GTTTTAAAAT
**
23237 TTTCTATAATTTTTTTCTTTTTATTTTA
1 TTTCTAT-ATTTTTGCCTTTTTATTTTA
23265 TTTC-ATATTTTTGCCTTTTTATTTT
1 TTTCTATATTTTTGCCTTTTTATTTT
23290 TTATTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 17 0.74
27 2 0.09
28 4 0.17
ACGTcount: A:0.15, C:0.09, G:0.02, T:0.74
Consensus pattern (27 bp):
TTTCTATATTTTTGCCTTTTTATTTTA
Found at i:23696 original size:9 final size:9
Alignment explanation
Indices: 23682--23738 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 9
23672 ATTACCTTAC
23682 TTTTTTTTA
1 TTTTTTTTA
23691 TTTTTTTCTA
1 TTTTTTT-TA
23701 TTTTGTGCTTTTA
1 -TTT-T--TTTTA
*
23714 TTTTTTTAA
1 TTTTTTTTA
*
23723 TTTTTTTTC
1 TTTTTTTTA
23732 TTTTTTT
1 TTTTTTT
23739 AGTACTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
9 25 0.62
10 2 0.05
11 4 0.10
12 4 0.10
13 2 0.05
14 3 0.08
ACGTcount: A:0.09, C:0.05, G:0.04, T:0.82
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:24066 original size:17 final size:17
Alignment explanation
Indices: 24046--24110 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
24036 AATTGGACTA
*
24046 TTTTATTTATTGCTTAT
1 TTTTATTTATTACTTAT
*
24063 TTTTATTTATTTATTTA-
1 TTTTATTTA-TTACTTAT
*
24080 TTTTATTGATTACTTAT
1 TTTTATTTATTACTTAT
24097 TAGTTTATTTATTA
1 T--TTTATTTATTA
24111 TTTTGGATTG
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 6 0.15
17 18 0.46
18 5 0.13
19 10 0.26
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (17 bp):
TTTTATTTATTACTTAT
Found at i:24081 original size:12 final size:11
Alignment explanation
Indices: 24047--24113 Score: 52
Period size: 11 Copynumber: 6.3 Consensus size: 11
24037 ATTGGACTAT
*
24047 TTTATTTATTG
1 TTTATTTATTA
*
24058 CTTATTT-TTA
1 TTTATTTATTA
24068 TTTATTTATT-
1 TTTATTTATTA
*
24078 TAT-TTTATTGA
1 TTTATTTATT-A
*
24089 -TTACTTATTA
1 TTTATTTATTA
24099 GTTTATTTATTA
1 -TTTATTTATTA
24111 TTT
1 TTT
24114 TGGATTGTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
9 6 0.14
10 12 0.28
11 16 0.37
12 9 0.21
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.70
Consensus pattern (11 bp):
TTTATTTATTA
Found at i:24082 original size:34 final size:34
Alignment explanation
Indices: 24044--24113 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 34
24034 ACAATTGGAC
* *
24044 TATTTTATTTATTGCTTATT-TTTATTTATTTATT
1 TATTTTATTGATTACTTATTATTTATTTA-TTATT
24078 TATTTTATTGATTACTTATTAGTTTATTTATTATT
1 TATTTTATTGATTACTTATTA-TTTATTTATTATT
24113 T
1 T
24114 TGGATTGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
34 18 0.56
35 6 0.19
36 8 0.25
ACGTcount: A:0.23, C:0.03, G:0.04, T:0.70
Consensus pattern (34 bp):
TATTTTATTGATTACTTATTATTTATTTATTATT
Found at i:24490 original size:16 final size:16
Alignment explanation
Indices: 24471--24501 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24461 TTCTTTTCCT
24471 TTTTTTTAGCTTTTTG
1 TTTTTTTAGCTTTTTG
*
24487 TTTTTTTTGCTTTTT
1 TTTTTTTAGCTTTTT
24502 ATGCATTTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.06, G:0.10, T:0.81
Consensus pattern (16 bp):
TTTTTTTAGCTTTTTG
Found at i:24490 original size:17 final size:16
Alignment explanation
Indices: 24470--24501 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
24460 TTTCTTTTCC
24470 TTTTTTTTAGCTTTTTG
1 TTTTTTTT-GCTTTTTG
24487 TTTTTTTTGCTTTTT
1 TTTTTTTTGCTTTTT
24502 ATGCATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.03, C:0.06, G:0.09, T:0.81
Consensus pattern (16 bp):
TTTTTTTTGCTTTTTG
Found at i:24870 original size:42 final size:39
Alignment explanation
Indices: 24822--24921 Score: 94
Period size: 42 Copynumber: 2.4 Consensus size: 39
24812 TCTTTTTTTG
*
24822 TTTTTATTTTTTATTTTGTATTAACATTTTTCTTCTT-TTAAT
1 TTTTTATTTTTTATTTTGTA-TAAC-TTTAT-TTCTTATT-AT
* * * *
24864 TTTTTATCTTTGATTTTTTATATCTTTATTTCTTATTAT
1 TTTTTATTTTTTATTTTGTATAACTTTATTTCTTATTAT
24903 TTCTTATATTTTTTATTTT
1 TT-TT-TATTTTTTATTTT
24922 TTGTTTGTAT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
39 9 0.19
40 8 0.17
41 14 0.29
42 17 0.35
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (39 bp):
TTTTTATTTTTTATTTTGTATAACTTTATTTCTTATTAT
Found at i:24882 original size:16 final size:15
Alignment explanation
Indices: 24858--24918 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 15
24848 TTTTTCTTCT
*
24858 TTTAATTTTT-TATC
1 TTTATTTTTTATATC
24872 TTTGATTTTTTATATC
1 TTT-ATTTTTTATATC
*
24888 TTTATTTCTTATTATTTC
1 TTTA-TT-TT-TTATATC
24906 TTATATTTTTTAT
1 TT-TATTTTTTAT
24919 TTTTTGTTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 3 0.08
15 7 0.18
16 13 0.33
17 4 0.10
18 10 0.26
19 2 0.05
ACGTcount: A:0.20, C:0.07, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTATTTTTTATATC
Found at i:25011 original size:18 final size:18
Alignment explanation
Indices: 24964--25011 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
24954 ATTTTGTCAT
* *
24964 TTTTTTCATTTTTATTAG
1 TTTTTTCTTTTTTATTAA
* *
24982 TTTTTGTATTTTTTTTTAA
1 TTTTT-TCTTTTTTATTAA
25001 TTTTTTCTTTT
1 TTTTTTCTTTT
25012 GGCTCATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.12, C:0.04, G:0.04, T:0.79
Consensus pattern (18 bp):
TTTTTTCTTTTTTATTAA
Found at i:25167 original size:17 final size:18
Alignment explanation
Indices: 25133--25174 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
25123 TTTTCTCATA
*
25133 TTTTATTTTTCCTTTTATT
1 TTTTATTTTT-CTGTTATT
25152 TTTTATTTTT-TGTTATT
1 TTTTATTTTTCTGTTATT
25169 TTTTAT
1 TTTTAT
25175 AAAAATTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.55
19 10 0.45
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.81
Consensus pattern (18 bp):
TTTTATTTTTCTGTTATT
Found at i:25701 original size:20 final size:19
Alignment explanation
Indices: 25660--25724 Score: 53
Period size: 21 Copynumber: 3.3 Consensus size: 19
25650 TTTGATAATT
*
25660 TTTTATTTTTT-TACTTTT-
1 TTTTCTTTTTTATA-TTTTA
25678 TTTTCTTTTTTAGTATTTTA
1 TTTTCTTTTTTA-TATTTTA
* *
25698 TTTTAGTTTTTTATATTAATA
1 TTTT-CTTTTTTATATT-TTA
25719 TTTTCT
1 TTTTCT
25725 CTTAATTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 10 0.26
19 4 0.11
20 11 0.29
21 13 0.34
ACGTcount: A:0.17, C:0.05, G:0.03, T:0.75
Consensus pattern (19 bp):
TTTTCTTTTTTATATTTTA
Found at i:25720 original size:21 final size:21
Alignment explanation
Indices: 25683--25722 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25673 CTTTTTTTTC
*
25683 TTTTTTAGTATTTTATTTTAG
1 TTTTTTAGTATTATATTTTAG
25704 TTTTTTA-TATTAATATTTT
1 TTTTTTAGTATT-ATATTTT
25723 CTCTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTTTAGTATTATATTTTAG
Found at i:26375 original size:19 final size:18
Alignment explanation
Indices: 26340--26388 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
26330 TCTATTTTGT
* *
26340 TTTTTTGTTTTTTTTTTA
1 TTTTTTGTCTTTATTTTA
26358 TTTTTTGTACTTTATTTTA
1 TTTTTTGT-CTTTATTTTA
* *
26377 TCTTTTATCTTT
1 TTTTTTGTCTTT
26389 TGCTATTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.10, C:0.06, G:0.04, T:0.80
Consensus pattern (18 bp):
TTTTTTGTCTTTATTTTA
Found at i:26499 original size:23 final size:23
Alignment explanation
Indices: 26454--26497 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
26444 AATACAAACA
* *
26454 AATAATAAAAAAATATAATAAAG
1 AATAAGAAAAAAAGATAATAAAG
26477 AATAAGAAAAAAAGAT-ATAAA
1 AATAAGAAAAAAAGATAATAAA
26498 AGTTGAACGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (23 bp):
AATAAGAAAAAAAGATAATAAAG
Found at i:27488 original size:16 final size:16
Alignment explanation
Indices: 27444--27508 Score: 55
Period size: 16 Copynumber: 4.0 Consensus size: 16
27434 AAGCAAAAGG
27444 AAAAA-GAAAAAATAA
1 AAAAATGAAAAAATAA
*
27459 ACAAAA-GCACAAAATAGA
1 A-AAAATG-AAAAAATA-A
27477 AAAAAT-AAAAAAGTAA
1 AAAAATGAAAAAA-TAA
*
27493 GAAAATGAAAAAATAA
1 AAAAATGAAAAAATAA
27509 CGAGTCAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
15 1 0.02
16 19 0.46
17 19 0.46
18 2 0.05
ACGTcount: A:0.77, C:0.05, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAATGAAAAAATAA
Found at i:27488 original size:24 final size:26
Alignment explanation
Indices: 27444--27509 Score: 77
Period size: 24 Copynumber: 2.7 Consensus size: 26
27434 AAGCAAAAGG
*
27444 AAAA-AGAAAAAATAAACAAAAG-CAC
1 AAAATAGAAAAAAT-AACAAAAGTAAC
*
27469 AAAATAGAAAAAATAA-AAAAGTAAG
1 AAAATAGAAAAAATAACAAAAGTAAC
27494 AAAAT-GAAAAAATAAC
1 AAAATAGAAAAAATAAC
27510 GAGTCAAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
24 15 0.42
25 12 0.33
26 9 0.25
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (26 bp):
AAAATAGAAAAAATAACAAAAGTAAC
Found at i:27595 original size:19 final size:20
Alignment explanation
Indices: 27565--27609 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
27555 ATTAGTTTAT
27565 AAAATATGAACAAAAAATAA
1 AAAATATGAACAAAAAATAA
*
27585 AAAATAT-AACAAATAATAA
1 AAAATATGAACAAAAAATAA
*
27604 GAAATA
1 AAAATA
27610 AAGGTATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.18
Consensus pattern (20 bp):
AAAATATGAACAAAAAATAA
Found at i:27661 original size:19 final size:19
Alignment explanation
Indices: 27625--27684 Score: 68
Period size: 18 Copynumber: 3.1 Consensus size: 19
27615 ATAAAAAATC
*
27625 AAAGATAAAAAAT-TAAAA
1 AAAGATAAAAAATGAAAAA
*
27643 GAAGATAAAAAATGAAAAA
1 AAAGATAAAAAATGAAAAA
*
27662 AAAGATGACAAAATAGAAAAA
1 AAAGAT-AAAAAAT-GAAAAA
27683 AA
1 AA
27685 TTTAGTTTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 12 0.34
19 9 0.26
20 6 0.17
21 8 0.23
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.12
Consensus pattern (19 bp):
AAAGATAAAAAATGAAAAA
Found at i:27674 original size:22 final size:21
Alignment explanation
Indices: 27639--27684 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
27629 ATAAAAAATT
*
27639 AAAAGAAGATAAAAAATGAAAA
1 AAAAGAAGACAAAAAA-GAAAA
* *
27661 AAAAGATGACAAAATAGAAAA
1 AAAAGAAGACAAAAAAGAAAA
27682 AAA
1 AAA
27685 TTTAGTTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.76, C:0.02, G:0.13, T:0.09
Consensus pattern (21 bp):
AAAAGAAGACAAAAAAGAAAA
Found at i:28560 original size:17 final size:17
Alignment explanation
Indices: 28520--28560 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
28510 AAAAAGAAAT
28520 ATAAAAAATTTAAAACA
1 ATAAAAAATTTAAAACA
28537 ATGAAAAAA-TTAAAACAA
1 AT-AAAAAATTTAAAAC-A
28555 ATAAAA
1 ATAAAA
28561 TGAAAGCATG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (17 bp):
ATAAAAAATTTAAAACA
Found at i:28773 original size:18 final size:16
Alignment explanation
Indices: 28725--28783 Score: 55
Period size: 18 Copynumber: 3.4 Consensus size: 16
28715 AATTTTGTTA
* *
28725 AAATATAAATAAAAAAT
1 AAATA-AAAGAAAAATT
*
28742 AAACTAAGAGAAAATATT
1 AAA-TAAAAGAAAA-ATT
28760 AATATAAAAGAAAAATT
1 AA-ATAAAAGAAAAATT
28777 AAATAAA
1 AAATAAA
28784 CAAAAACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 5 0.14
17 14 0.40
18 15 0.43
19 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (16 bp):
AAATAAAAGAAAAATT
Found at i:28804 original size:24 final size:25
Alignment explanation
Indices: 28777--28828 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
28767 AAGAAAAATT
28777 AAATAAAC-AAAAACAAAAAATA-AA
1 AAATAAACGAAAAA-AAAAAATATAA
* *
28801 AAATTAACGAATAAAAAAAATATAA
1 AAATAAACGAAAAAAAAAAATATAA
28826 AAA
1 AAA
28829 GACAAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.79, C:0.06, G:0.02, T:0.13
Consensus pattern (25 bp):
AAATAAACGAAAAAAAAAAATATAA
Found at i:28836 original size:32 final size:29
Alignment explanation
Indices: 28760--28836 Score: 70
Period size: 32 Copynumber: 2.6 Consensus size: 29
28750 AGAAAATATT
28760 AATAT-AAAAGAAAAATTAAATAAACAAA
1 AATATAAAAAGAAAAATTAAATAAACAAA
* *
28788 AACA-AAAAATAAAAAATTAACGAATAAA-AAA
1 AATATAAAAA-GAAAAATT-A--AATAAACAAA
28819 AATATAAAAAGACAAAAT
1 AATATAAAAAGA-AAAAT
28837 GAATAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
28 7 0.18
29 7 0.18
30 1 0.03
31 7 0.18
32 16 0.42
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (29 bp):
AATATAAAAAGAAAAATTAAATAAACAAA
Found at i:28956 original size:12 final size:12
Alignment explanation
Indices: 28928--28987 Score: 54
Period size: 11 Copynumber: 5.0 Consensus size: 12
28918 GAAAAAGATG
28928 TAAAAAATCAAAGA
1 TAAAAAAT-AAA-A
28942 TAAAAAATAAAA
1 TAAAAAATAAAA
* *
28954 T-AAAAGT-TAA
1 TAAAAAATAAAA
28964 TAAAAAATATAAA
1 TAAAAAATA-AAA
28977 T-AAAAATAAAA
1 TAAAAAATAAAA
28988 GGAAGTGCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
10 3 0.08
11 13 0.33
12 9 0.23
13 6 0.15
14 8 0.21
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:28959 original size:19 final size:19
Alignment explanation
Indices: 28931--28987 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 19
28921 AAAGATGTAA
*
28931 AAAATCAAAGATAAAAAAT
1 AAAATAAAAGATAAAAAAT
28950 AAAATAAAAGTTAATAAAAAAT
1 AAAATAAAAG---ATAAAAAAT
28972 ATAAATAAAA-ATAAAA
1 A-AAATAAAAGATAAAA
28988 GGAAGTGCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 15 0.45
22 10 0.30
23 8 0.24
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.19
Consensus pattern (19 bp):
AAAATAAAAGATAAAAAAT
Found at i:29377 original size:12 final size:12
Alignment explanation
Indices: 29356--29386 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
29346 AAAAATATCA
29356 AAAATAAAAAAT
1 AAAATAAAAAAT
*
29368 AAAATGAAAAAT
1 AAAATAAAAAAT
29380 AAAATAA
1 AAAATAA
29387 GAGAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:29539 original size:18 final size:17
Alignment explanation
Indices: 29482--29540 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
29472 GAGTCAAAAG
*
29482 AAAAAATTAAAAATAG-
1 AAAAAATGAAAAATAGA
* *
29498 TAAAAATGAAAAAAAAAGA
1 AAAAAATG--AAAAATAGA
29517 AAAAAATGACAAAATAGA
1 AAAAAATGA-AAAATAGA
29535 AAAAAA
1 AAAAAA
29541 ATTTAGTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
16 6 0.18
17 1 0.03
18 20 0.59
19 7 0.21
ACGTcount: A:0.78, C:0.02, G:0.08, T:0.12
Consensus pattern (17 bp):
AAAAAATGAAAAATAGA
Found at i:29576 original size:12 final size:12
Alignment explanation
Indices: 29559--29583 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29549 TATAAAACAT
29559 AAACAAATAATA
1 AAACAAATAATA
29571 AAACAAATAATA
1 AAACAAATAATA
29583 A
1 A
29584 GATATAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (12 bp):
AAACAAATAATA
Found at i:30154 original size:20 final size:20
Alignment explanation
Indices: 30117--30154 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30107 AAATATTTTG
*
30117 ATTTGAATTTATTGATTTAA
1 ATTTGAATTTATTAATTTAA
30137 ATTTAGAATTT-TTAATTT
1 ATTT-GAATTTATTAATTT
30155 TTAAATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.34, C:0.00, G:0.08, T:0.58
Consensus pattern (20 bp):
ATTTGAATTTATTAATTTAA
Found at i:31189 original size:58 final size:58
Alignment explanation
Indices: 31063--31566 Score: 556
Period size: 58 Copynumber: 8.7 Consensus size: 58
31053 TTGTGTAGGA
* * * * *
31063 AAAATTGATACTTTCAACTTCTCC-CTAAAATATTTTTTAGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTTCAAGG
* * * *
31120 AAAATTGATACTTGCAACTTTTCCTCAAAAAAACTTTATT-GAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAGAAAATTTATTTTCAAGG
* * * * * * *
31178 AAAATTGATACTTTTAACTTTT-TTTAAAAATATTTTTTGGAAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTTCAAGG
* * * *
31235 AAAATTGATACTTTCAACTTTTCCTCAAAAAAAATTTTTTTTTGAAAATTCATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC---AAAAATATTTTTTAGAAAATTTATTTTCAAGG
* * *
31296 AAAATTGATACTTTCAACTTTTCCTCAAAACA-ATTTTTTTTGAAAATTTGTTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAA-ATA-TTTTTTAGAAAATTTATTTTCAAGG
* * * * *
31355 AAAATTAATACTTTCAATTTTTCCTCAAAAAT-TCATTTTT-GAAAACTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT--TTTTTAGAAAATTTATTTTCAAGG
* ** *
31413 AAAATTGATACTTTCAACTTTT-CTCTAAAAATATTTTTTGGAAAGCTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTAGAAAATTTATTTTCAAGG
* *
31471 AAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTAGAAAACTTATTTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTTCAAGG
*
31528 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
31567 TTCTTGAAAT
Statistics
Matches: 384, Mismatches: 46, Indels: 33
0.83 0.10 0.07
Matches are distributed among these distances:
56 5 0.01
57 125 0.33
58 137 0.36
59 66 0.17
61 51 0.13
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAATTTATTTTCAAGG
Found at i:31265 original size:115 final size:115
Alignment explanation
Indices: 31063--31566 Score: 579
Period size: 115 Copynumber: 4.3 Consensus size: 115
31053 TTGTGTAGGA
*** * *
31063 AAAATTGATACTTTCAACTTCTCCCT-AAAATATTTTTTAGAAACTTTAATTTCGAGGAAAATTG
1 AAAATTGATACTTTCAACTT-TTTTTAAAAATATTTTTTGGAAACTTTAATTTCAAGGAAAATTG
* * *
31127 ATACTTGCAACTTTTCCTCAAAAAAACTTTATTGAAAATTTATTTTTAAGG
65 ATACTTTCAACTTTTCCTCAAAAAAACTTTTTTGAAAACTTATTTTTAAGG
* *
31178 AAAATTGATACTTTTAACTTTTTTTAAAAATATTTTTTGGAAACTTTAATTTCGAGGAAAATTGA
1 AAAATTGATACTTTCAACTTTTTTTAAAAATATTTTTTGGAAACTTTAATTTCAAGGAAAATTGA
*
31243 TACTTTCAACTTTTCCTCAAAAAAAATTTTTTTTTGAAAA-TTCATTTTTAAGG
66 TACTTTCAACTTTTCCTC-AAAAAAA--CTTTTTTGAAAACTT-ATTTTTAAGG
* * * * ** *
31296 AAAATTGATACTTTCAACTTTTCCTCAAAACA-ATTTTTTTTGAAAATTTGTTTTTAAGGAAAAT
1 AAAATTGATACTTTCAACTTTT-TTTAAAA-ATA-TTTTTTGGAAACTTTAATTTCAAGGAAAAT
* * ** * *
31360 TAATACTTTCAATTTTTCCTCAAAAATTCATTTTTGAAAACTTATTTTTAAGA
63 TGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTGAAAACTTATTTTTAAGG
* * *
31413 AAAATTGATACTTTCAACTTTTCTCTAAAAATATTTTTTGGAAAGC-TTATTTTCAAGAAAAATT
1 AAAATTGATACTTTCAACTTTT-TTTAAAAATATTTTTTGGAAA-CTTTAATTTCAAGGAAAATT
* **
31477 GATACTTTCAACTTTTCCTC-AAAATA-TTTTTTAGAAAACTTATTTTCGAGG
64 GATACTTTCAACTTTTCCTCAAAAAAACTTTTTT-GAAAACTTATTTTTAAGG
*
31528 AAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTT-TTAAAAATATTTTTT
31567 TTCTTGAAAT
Statistics
Matches: 335, Mismatches: 41, Indels: 26
0.83 0.10 0.06
Matches are distributed among these distances:
114 8 0.02
115 129 0.39
116 51 0.15
117 49 0.15
118 43 0.13
119 11 0.03
120 44 0.13
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.44
Consensus pattern (115 bp):
AAAATTGATACTTTCAACTTTTTTTAAAAATATTTTTTGGAAACTTTAATTTCAAGGAAAATTGA
TACTTTCAACTTTTCCTCAAAAAAACTTTTTTGAAAACTTATTTTTAAGG
Found at i:33829 original size:13 final size:13
Alignment explanation
Indices: 33808--33849 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
33798 AAAAAATGAT
*
33808 AAATATGAAATAA
1 AAATTTGAAATAA
33821 AAATTTGAAATAA
1 AAATTTGAAATAA
33834 AAA--TG-AATAA
1 AAATTTGAAATAA
33844 AAATTT
1 AAATTT
33850 TTACAATCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 8 0.31
11 2 0.08
12 1 0.04
13 15 0.58
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (13 bp):
AAATTTGAAATAA
Found at i:34126 original size:103 final size:102
Alignment explanation
Indices: 33999--34382 Score: 600
Period size: 103 Copynumber: 3.8 Consensus size: 102
33989 TTTTTTACCT
* * *
33999 TTTTTTTGTTTTTTTTA-TTTTTTAAATTTTGATCAAAGCTCTTCTAAGCAGAGGCTCAATGACT
1 TTTTTTTATTTTTTTTATTTTTTTAAA-TTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACT
34063 TTGAGAAACATAAACAAAGCTCCTCTAAACAGAGGTAA
65 TTGAGAAACATAAACAAAGCTCCTCTAAACAGAGGTAA
* *
34101 TTTTTTTATTTTTTTTATTTTTTTAAATTTTAATCAAAGCTCATCTAAGCAGAGGCTCAACGACT
1 TTTTTTTATTTTTTTTATTTTTTTAAA-TTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACT
34166 TTGAGAAACATAAACAAAGCTCCTCTAAACAGAGGTAA
65 TTGAGAAACATAAACAAAGCTCCTCTAAACAGAGGTAA
34204 TTTTTTTATTTTTTTTATTTTTTTTTAAATTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGAC
1 TTTTTTTATTTTTTTTA--TTTTTTTAAATTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGAC
34269 TTTGAGAAACATAAACAAAGCTCCTCTAAACCA-AGGTAA
64 TTTGAGAAACATAAACAAAGCTCCTCTAAA-CAGAGGTAA
* * *
34308 TTTTTTT-TTTTTGTTT-TTTTTTTAAATTTGATCAAAGTTCCTCTAGGTAGAGGCTCAACGACT
1 TTTTTTTATTTTT-TTTATTTTTTTAAATTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACT
34371 TTGA-AAA-ATAAA
65 TTGAGAAACATAAA
34383 TGGCTCCTCT
Statistics
Matches: 268, Mismatches: 9, Indels: 13
0.92 0.03 0.04
Matches are distributed among these distances:
99 5 0.02
100 3 0.01
101 48 0.18
102 16 0.06
103 104 0.39
104 80 0.30
105 12 0.04
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.40
Consensus pattern (102 bp):
TTTTTTTATTTTTTTTATTTTTTTAAATTTGATCAAAGCTCCTCTAAGCAGAGGCTCAACGACTT
TGAGAAACATAAACAAAGCTCCTCTAAACAGAGGTAA
Found at i:34230 original size:10 final size:9
Alignment explanation
Indices: 34204--34228 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34194 ACAGAGGTAA
34204 TTTTTTTAT
1 TTTTTTTAT
34213 TTTTTTTAT
1 TTTTTTTAT
34222 TTTTTTT
1 TTTTTTT
34229 TAAATTTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:34403 original size:41 final size:42
Alignment explanation
Indices: 34356--34569 Score: 267
Period size: 42 Copynumber: 5.1 Consensus size: 42
34346 TCCTCTAGGT
34356 AGAGGCTCAACGACTTT-GAAAAATAAATGGCTCCTCTAATC
1 AGAGGCTCAACGACTTTGGAAAAATAAATGGCTCCTCTAATC
* **
34397 AGAGGCTCAACGACTTT-GAAAAATAAATTGCTTATCTAAAT-
1 AGAGGCTCAACGACTTTGGAAAAATAAATGGCTCCTCT-AATC
*
34438 AGAGG--CAACGAAACTTTGGAAAAATAAATTGCTCCTCTAATC
1 AGAGGCTCAACG--ACTTTGGAAAAATAAATGGCTCCTCTAATC
** * * *
34480 AGAGGCTTGATGACTTTGGAAAAATAAATGGCTTCTCTAATT
1 AGAGGCTCAACGACTTTGGAAAAATAAATGGCTCCTCTAATC
* *
34522 AGAGGCTCGACGACTTTGGAAAAATAAATGCCTCCTCTAATC
1 AGAGGCTCAACGACTTTGGAAAAATAAATGGCTCCTCTAATC
34564 AGAGGC
1 AGAGGC
34570 ATCGTAACTT
Statistics
Matches: 150, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
39 5 0.03
41 47 0.31
42 96 0.64
44 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (42 bp):
AGAGGCTCAACGACTTTGGAAAAATAAATGGCTCCTCTAATC
Found at i:34477 original size:42 final size:42
Alignment explanation
Indices: 34368--34640 Score: 240
Period size: 42 Copynumber: 6.6 Consensus size: 42
34358 AGGCTCAACG
* * * **
34368 ACTTT-GAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACG
1 ACTTTGGAAAAATAAATTGCTCCTCTAATCAGAGGCACGATA
**
34409 ACTTT-GAAAAATAAATTGCTTATCTAAAT-AGAGGCAACGA-A
1 ACTTTGGAAAAATAAATTGCTCCTCT-AATCAGAGGC-ACGATA
** *
34450 ACTTTGGAAAAATAAATTGCTCCTCTAATCAGAGGCTTGATG
1 ACTTTGGAAAAATAAATTGCTCCTCTAATCAGAGGCACGATA
* * * * **
34492 ACTTTGGAAAAATAAATGGCTTCTCTAATTAGAGGCTCGACG
1 ACTTTGGAAAAATAAATTGCTCCTCTAATCAGAGGCACGATA
34534 ACTTTGGAAAAATAAA-TGCCTCCTCTAATCAGAGGCATCG-TA
1 ACTTTGGAAAAATAAATTG-CTCCTCTAATCAGAGGCA-CGATA
* * *
34576 ACTTTTGG-AAAGTAAATTACTCCTCTAAAT-AGAGGCACCATA
1 AC-TTTGGAAAAATAAATTGCTCCTCT-AATCAGAGGCACGATA
* *
34618 ACTTTAG-AAAGTAAATTGCTCCT
1 ACTTTGGAAAAATAAATTGCTCCT
34641 TAACAATCAT
Statistics
Matches: 194, Mismatches: 27, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
41 59 0.30
42 124 0.64
43 11 0.06
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (42 bp):
ACTTTGGAAAAATAAATTGCTCCTCTAATCAGAGGCACGATA
Found at i:34592 original size:84 final size:81
Alignment explanation
Indices: 34355--34611 Score: 286
Period size: 84 Copynumber: 3.1 Consensus size: 81
34345 TTCCTCTAGG
* * *
34355 TAGAGGCTCAACGACTTT-GAAAAATAAATGGCTCCTCTAATCAGAGGCTC-AACGACTTTGAAA
1 TAGAGGCTCGACGACTTTGGAAAAATAAAT-GCTCCTCTAATCAGAGGCTCGTA--ACTTTGGAA
*
34418 AATAAATTGCTTATCTAAA
63 AATAAATTGCTTCTCTAAA
* * * *
34437 TAGAGGCAACGA-AACTTTGGAAAAATAAATTGCTCCTCTAATCAGAGGCTTGATGACTTTGGAA
1 TAGAGGC-TCGACGACTTTGGAAAAATAAA-TGCTCCTCTAATCAGAGGCTCG-TAACTTTGG-A
* *
34501 AAATAAATGGCTTCTCTAAT
62 AAATAAATTGCTTCTCTAAA
34521 TAGAGGCTCGACGACTTTGGAAAAATAAATGCCTCCTCTAATCAGAGGCATCGTAACTTTTGGAA
1 TAGAGGCTCGACGACTTTGGAAAAATAAATG-CTCCTCTAATCAGAGGC-TCGTAAC-TTTGGAA
* * *
34586 AGTAAATTACTCCTCTAAA
63 AATAAATTGCTTCTCTAAA
34605 TAGAGGC
1 TAGAGGC
34612 ACCATAACTT
Statistics
Matches: 146, Mismatches: 19, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
82 12 0.08
83 42 0.29
84 85 0.58
85 7 0.05
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (81 bp):
TAGAGGCTCGACGACTTTGGAAAAATAAATGCTCCTCTAATCAGAGGCTCGTAACTTTGGAAAAT
AAATTGCTTCTCTAAA
Found at i:34599 original size:126 final size:124
Alignment explanation
Indices: 34367--34611 Score: 327
Period size: 126 Copynumber: 2.0 Consensus size: 124
34357 GAGGCTCAAC
*
34367 GACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATTGCTTAT
1 GACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATTGCTCAT
*
34432 CTAAATAGAGGCAACGAAACTTTGGAAAAATAAATTGCTCCTCT-AATCAGAGGCTTGAT
66 CTAAATAGAGGCAACGAAACTTTGGAAAAATAAATTACTCCTCTAAAT-AGAGGCTTGAT
* * *
34491 GACTTTGGAAAAATAAATGGCTTCTCTAATTAGAGGCTCGACGACTTTGGAAAAATAAA-TGCCT
1 GACTTT-GAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTT-GAAAAATAAATTG-CT
* * * *
34555 CCTCT-AATCAGAGGCATCGTAACTTTTGG-AAAGTAAATTACTCCTCTAAATAGAGGC
63 CATCTAAAT-AGAGGCAACGAAAC-TTTGGAAAAATAAATTACTCCTCTAAATAGAGGC
34612 ACCATAACTT
Statistics
Matches: 106, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
124 6 0.06
125 43 0.41
126 49 0.46
127 8 0.08
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (124 bp):
GACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATTGCTCAT
CTAAATAGAGGCAACGAAACTTTGGAAAAATAAATTACTCCTCTAAATAGAGGCTTGAT
Found at i:34622 original size:84 final size:80
Alignment explanation
Indices: 34368--34640 Score: 273
Period size: 84 Copynumber: 3.3 Consensus size: 80
34358 AGGCTCAACG
* * *
34368 ACTTT-GAAAAATAAATGGCTCCTCTAATCAGAGGCTC-AACGACTTTGAAAAATAAATTGCTTA
1 ACTTTGGAAAAATAAAT-GCTCCTCTAATCAGAGGCTCGTA--ACTTTGGAAAATAAATTGCTTC
34431 TCTAAATAGAGGCAACGAA
63 TCTAAATAGAGGC-ACGAA
* * *
34450 ACTTTGGAAAAATAAATTGCTCCTCTAATCAGAGGCTTGATGACTTTGGAAAAATAAATGGCTTC
1 ACTTTGGAAAAATAAA-TGCTCCTCTAATCAGAGGCTCG-TAACTTTGG-AAAATAAATTGCTTC
* * *
34515 TCTAATTAGAGGCTCGACG
63 TCTAAATAGAGGCACGA-A
* * *
34534 ACTTTGGAAAAATAAATGCCTCCTCTAATCAGAGGCATCGTAACTTTTGGAAAGTAAATTACTCC
1 ACTTTGGAAAAATAAATG-CTCCTCTAATCAGAGGC-TCGTAAC-TTTGGAAAATAAATTGCTTC
*
34599 TCTAAATAGAGGCACCATA
63 TCTAAATAGAGGCACGA-A
* *
34618 ACTTTAG-AAAGTAAATTGCTCCT
1 ACTTTGGAAAAATAAA-TGCTCCT
34641 TAACAATCAT
Statistics
Matches: 159, Mismatches: 22, Indels: 19
0.80 0.11 0.09
Matches are distributed among these distances:
82 5 0.03
83 52 0.33
84 95 0.60
85 7 0.04
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (80 bp):
ACTTTGGAAAAATAAATGCTCCTCTAATCAGAGGCTCGTAACTTTGGAAAATAAATTGCTTCTCT
AAATAGAGGCACGAA
Found at i:34622 original size:126 final size:124
Alignment explanation
Indices: 34368--34640 Score: 313
Period size: 125 Copynumber: 2.2 Consensus size: 124
34358 AGGCTCAACG
*
34368 ACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATTGCTTATC
1 ACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATTGCTCATC
* *** *
34433 TAAATAGAGGCAACGAAACTTTGGAAAAATAAATTGCTCCTCTAATCAGAGGCTTGATG
66 TAAATAGAGGCAACGAAACTTTGGAAAAATAAATTACTCCTCTAATCAGAGGCACCATA
* * *
34492 ACTTTGGAAAAATAAATGGCTTCTCTAATTAGAGGCTCGACGACTTTGGAAAAATAAA-TGCCTC
1 ACTTT-GAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTT-GAAAAATAAATTG-CTC
* * * *
34556 CTCT-AATCAGAGGCATCGTAACTTTTGG-AAAGTAAATTACTCCTCTAAAT-AGAGGCACCATA
63 ATCTAAAT-AGAGGCAACGAAAC-TTTGGAAAAATAAATTACTCCTCT-AATCAGAGGCACCATA
* *
34618 ACTTT-AGAAAGTAAATTGCTCCT
1 ACTTTGA-AAAATAAATGGCTCCT
34641 TAACAATCAT
Statistics
Matches: 126, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
124 6 0.05
125 56 0.44
126 56 0.44
127 8 0.06
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (124 bp):
ACTTTGAAAAATAAATGGCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATTGCTCATC
TAAATAGAGGCAACGAAACTTTGGAAAAATAAATTACTCCTCTAATCAGAGGCACCATA
Found at i:35032 original size:41 final size:42
Alignment explanation
Indices: 34969--35049 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
34959 TTTTCATTTG
*
34969 AGTTCAAAGGTTCAACAAT-AAAACTTAGAGTTTCACATCTA
1 AGTTCAAAGGTTCAACAATAAAAACTTAGAGATTCACATCTA
* * *
35010 AGTTCAAAGGTTC-TCATTTAAAAATTTAGAGATTCACATC
1 AGTTCAAAGGTTCAACA-ATAAAAACTTAGAGATTCACATC
35050 CAAAAAGTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
40 2 0.06
41 14 0.41
42 18 0.53
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (42 bp):
AGTTCAAAGGTTCAACAATAAAAACTTAGAGATTCACATCTA
Found at i:35179 original size:22 final size:22
Alignment explanation
Indices: 35152--35212 Score: 104
Period size: 22 Copynumber: 2.8 Consensus size: 22
35142 GGTTTCACTC
* *
35152 CTCAAAGATTCTTATTTTGAAA
1 CTCAAAGATTCTCATTTTAAAA
35174 CTCAAAGATTCTCATTTTAAAA
1 CTCAAAGATTCTCATTTTAAAA
35196 CTCAAAGATTCTCATTT
1 CTCAAAGATTCTCATTT
35213 GAGTTCTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (22 bp):
CTCAAAGATTCTCATTTTAAAA
Found at i:36542 original size:22 final size:22
Alignment explanation
Indices: 36510--36577 Score: 100
Period size: 22 Copynumber: 3.0 Consensus size: 22
36500 CTTTTTTTCA
36510 TTTTCTCAATTTTTTCCTTTTT
1 TTTTCTCAATTTTTTCCTTTTT
* *
36532 TTTTCTTAATTTTTTCTTTTTT
1 TTTTCTCAATTTTTTCCTTTTT
*
36554 TTTTCATCAATTTTTTTCTTTTT
1 TTTTC-TCAATTTTTTCCTTTTT
36577 T
1 T
36578 CTTATTTTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
22 25 0.62
23 15 0.38
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTCTCAATTTTTTCCTTTTT
Found at i:41360 original size:11 final size:11
Alignment explanation
Indices: 41344--41369 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
41334 ATTTAGCATT
41344 AAAGAAAATAA
1 AAAGAAAATAA
41355 AAAGAAAATAA
1 AAAGAAAATAA
41366 AAAG
1 AAAG
41370 GAAGAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.81, C:0.00, G:0.12, T:0.08
Consensus pattern (11 bp):
AAAGAAAATAA
Found at i:41545 original size:27 final size:27
Alignment explanation
Indices: 41515--41602 Score: 72
Period size: 27 Copynumber: 3.1 Consensus size: 27
41505 ATTTTTAAGG
41515 AAAATTAATACTTTCAACTTTTCCTCA
1 AAAATTAATACTTTCAACTTTTCCTCA
* * * *
41542 AAAATTCAT-TTTTGAAAACTTATT-TTCAA
1 AAAATTAATACTTT--CAACTT-TTCCTC-A
41571 GGAAAATTAATACTTTCAACTTTTCCTCA
1 --AAAATTAATACTTTCAACTTTTCCTCA
41600 AAA
1 AAA
41603 TATTTTTTGG
Statistics
Matches: 45, Mismatches: 8, Indels: 16
0.65 0.12 0.23
Matches are distributed among these distances:
26 3 0.07
27 11 0.24
28 7 0.16
29 6 0.13
30 7 0.16
31 8 0.18
32 3 0.07
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (27 bp):
AAAATTAATACTTTCAACTTTTCCTCA
Found at i:41573 original size:58 final size:57
Alignment explanation
Indices: 41399--41725 Score: 433
Period size: 57 Copynumber: 5.7 Consensus size: 57
41389 TTGTGCAGGA
* ** * * *
41399 AAAATTGATACTTTCAACTTCTCC-CTAAAATATTTTTTAGAAATTTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTTAGAAAACTTATTTTCAAGG
* * * *
41456 AAAATTGATACTTTCAACTTTTCCTCAAAAAAACTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTC-AAAATA-TTTTTTAGAAAACTTATTTTCAAGG
* *
41515 AAAATTAATACTTTCAACTTTTCCTCAAAA-ATTCATTTTTGAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATT--TTTTAGAAAACTTATTTTCAAGG
* * * *
41573 AAAATTAATACTTTCAACTTTTCCTCAAAATATTTTTTGGAAAGCTTATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAAACTTATTTTCAAGG
*
41630 AAAATTGATACTTTCAACTTTTTCTCAAAATATTTTTTAGAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAAACTTATTTTCAAGG
41687 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTC-AAAATATTTTTT
41726 TCTTGAAATT
Statistics
Matches: 243, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
56 2 0.01
57 121 0.50
58 73 0.30
59 47 0.19
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAATATTTTTTAGAAAACTTATTTTCAAGG
Found at i:44345 original size:18 final size:18
Alignment explanation
Indices: 44311--44346 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44301 TAAAAAATCA
*
44311 AAGATAAAAAATTAAAAG
1 AAGATAAAAAATGAAAAG
*
44329 AAGATAAAATATGAAAAG
1 AAGATAAAAAATGAAAAG
44347 GGATGACAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (18 bp):
AAGATAAAAAATGAAAAG
Found at i:44713 original size:13 final size:14
Alignment explanation
Indices: 44696--44729 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
44686 AACCGACAAT
*
44696 GATAAAATAAAAAA
1 GATAAAAGAAAAAA
44710 -ATAAAAGAAAAAA
1 GATAAAAGAAAAAA
44723 GATAAAA
1 GATAAAA
44730 AAATAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (14 bp):
GATAAAAGAAAAAA
Found at i:44731 original size:9 final size:8
Alignment explanation
Indices: 44699--44739 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
44689 CGACAATGAT
44699 AAAATAAA
1 AAAATAAA
44707 AAAAT-AA
1 AAAATAAA
*
44714 AAGA-AAA
1 AAAATAAA
*
44721 AAGATAAA
1 AAAATAAA
44729 AAAATAAA
1 AAAATAAA
44737 AAA
1 AAA
44740 TTCCAAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
7 11 0.38
8 18 0.62
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (8 bp):
AAAATAAA
Found at i:44843 original size:19 final size:20
Alignment explanation
Indices: 44819--44856 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
44809 AAGCACAAGA
44819 AAAGAAAAAAATAA-AAAAT
1 AAAGAAAAAAATAACAAAAT
*
44838 AAAGAAAAATATAACAAAA
1 AAAGAAAAAAATAACAAAA
44857 ATATAAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.82, C:0.03, G:0.05, T:0.11
Consensus pattern (20 bp):
AAAGAAAAAAATAACAAAAT
Found at i:45182 original size:31 final size:28
Alignment explanation
Indices: 45147--45203 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 28
45137 ATATTTGGAA
45147 TAAAAAAAGGAAAAAGATATATAACAAATTT
1 TAAAAAAAGG-AAAA-AT-TATAACAAATTT
* *
45178 TAAAACAATGAAAAATTATAACAAAT
1 TAAAAAAAGGAAAAATTATAACAAAT
45204 AAAAATGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.42
29 2 0.08
30 4 0.17
31 8 0.33
ACGTcount: A:0.65, C:0.05, G:0.07, T:0.23
Consensus pattern (28 bp):
TAAAAAAAGGAAAAATTATAACAAATTT
Found at i:45442 original size:18 final size:17
Alignment explanation
Indices: 45421--45455 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45411 TAATTTAAGG
*
45421 GAAAATATTAATATAAAA
1 GAAAAAATTAA-ATAAAA
45439 GAAAAAATTAAATAAAA
1 GAAAAAATTAAATAAAA
45456 TACCAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (17 bp):
GAAAAAATTAAATAAAA
Found at i:45479 original size:28 final size:28
Alignment explanation
Indices: 45439--45492 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
45429 TAATATAAAA
* * *
45439 GAAAAAATTAAATAAAATACCAAAAATG
1 GAAAAAATAAAATAAAAAAACAAAAATG
45467 GAAAAAATAAAATAAAAAAACAAAAA
1 GAAAAAATAAAATAAAAAAACAAAAA
45493 AATAAAAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.76, C:0.06, G:0.06, T:0.13
Consensus pattern (28 bp):
GAAAAAATAAAATAAAAAAACAAAAATG
Found at i:45484 original size:21 final size:21
Alignment explanation
Indices: 45468--45507 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
45458 CCAAAAATGG
45468 AAAAAATAAAATAAAAAAACA
1 AAAAAATAAAATAAAAAAACA
*
45489 AAAAAATAAAAGAAAAAAA
1 AAAAAATAAAATAAAAAAA
45508 AATGAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.88, C:0.03, G:0.03, T:0.07
Consensus pattern (21 bp):
AAAAAATAAAATAAAAAAACA
Found at i:45499 original size:28 final size:28
Alignment explanation
Indices: 45435--45499 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
45425 ATATTAATAT
* * *
45435 AAAAGAAAAAATTAAATAAAATACCAAA
1 AAAAGAAAAAATAAAATAAAAAAACAAA
**
45463 AATGGAAAAAATAAAATAAAAAAACAAA
1 AAAAGAAAAAATAAAATAAAAAAACAAA
*
45491 AAAATAAAA
1 AAAAGAAAA
45500 GAAAAAAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (28 bp):
AAAAGAAAAAATAAAATAAAAAAACAAA
Found at i:45506 original size:28 final size:31
Alignment explanation
Indices: 45433--45506 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 31
45423 AAATATTAAT
* *
45433 ATAAAAGAAAAAATTAAATAAAATACCAAAA
1 ATAAAAGAAAAAATTAAATAAAACACAAAAA
45464 ATGGAAAA-AATAAAA-TAAA-AAAACA-AAAAA
1 AT--AAAAGAA-AAAATTAAATAAAACACAAAAA
45494 ATAAAAGAAAAAA
1 ATAAAAGAAAAAA
45507 AAATGAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
28 8 0.22
29 2 0.05
30 6 0.16
31 7 0.19
32 6 0.16
33 8 0.22
ACGTcount: A:0.78, C:0.04, G:0.05, T:0.12
Consensus pattern (31 bp):
ATAAAAGAAAAAATTAAATAAAACACAAAAA
Found at i:45515 original size:19 final size:16
Alignment explanation
Indices: 45468--45519 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
45458 CCAAAAATGG
*
45468 AAAAAATAAAATAAAA
1 AAAAAAAAAAATAAAA
*
45484 AAACAAAAAAATAAAA
1 AAAAAAAAAAATAAAA
45500 GAAAAAAAAATGAATAAAA
1 -AAAAAAAAA--AATAAAA
45519 A
1 A
45520 TTTCAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 14 0.47
17 8 0.27
18 1 0.03
19 7 0.23
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.10
Consensus pattern (16 bp):
AAAAAAAAAAATAAAA
Found at i:45798 original size:22 final size:20
Alignment explanation
Indices: 45768--45807 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
45758 TATAAAATAA
45768 AATAAAAAGAATAAAGAATTTT
1 AATAAAAAGAA-AAA-AATTTT
*
45790 AATAGAAAGAAAAAAATT
1 AATAAAAAGAAAAAAATT
45808 AAAACAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 3 0.18
22 10 0.59
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (20 bp):
AATAAAAAGAAAAAAATTTT
Found at i:46212 original size:26 final size:25
Alignment explanation
Indices: 46168--46222 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
46158 ATAACAAGTC
*
46168 AAAAGAAAAAATAATAAAATA-ATAA
1 AAAAGAAAAAATAACAAAATAGA-AA
*
46193 AAAAGGAAAAAATGACAAAATAGAAA
1 AAAA-GAAAAAATAACAAAATAGAAA
46219 AAAA
1 AAAA
46223 TTTAGTCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
25 4 0.15
26 21 0.81
27 1 0.04
ACGTcount: A:0.78, C:0.02, G:0.09, T:0.11
Consensus pattern (25 bp):
AAAAGAAAAAATAACAAAATAGAAA
Found at i:46657 original size:20 final size:21
Alignment explanation
Indices: 46643--46710 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
46633 GAAAATGCAT
46643 AAAAAG-TAAAAAAAAAACAA
1 AAAAAGTTAAAAAAAAAACAA
46663 AAAAAGTTAAAAAAAAAGA-AA
1 AAAAAGTTAAAAAAAAA-ACAA
* *
46684 AAAGAAG-TAAATAAAGAAATAA
1 AAA-AAGTTAAA-AAAAAAACAA
46706 AAAAA
1 AAAAA
46711 TTCTTCAAAG
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
20 6 0.14
21 22 0.52
22 14 0.33
ACGTcount: A:0.81, C:0.01, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAAAGTTAAAAAAAAAACAA
Found at i:47507 original size:18 final size:18
Alignment explanation
Indices: 47484--47519 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
47474 TAAAAAATCA
*
47484 AAGATAAAAAATTAAAAG
1 AAGATAAAAAATGAAAAG
47502 AAGATAAAAAATGAAAAG
1 AAGATAAAAAATGAAAAG
47520 GGATGACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (18 bp):
AAGATAAAAAATGAAAAG
Found at i:47612 original size:24 final size:25
Alignment explanation
Indices: 47556--47612 Score: 59
Period size: 24 Copynumber: 2.4 Consensus size: 25
47546 TTTAGAAAAC
*
47556 ATAAGCAAA-AAAAAAAACTACTAAG
1 ATAAACAAATAAAAAAAACTAC-AAG
*
47581 A-AAA-AAATAAAAAAAATTA-AAG
1 ATAAACAAATAAAAAAAACTACAAG
47603 ATAAACAAAT
1 ATAAACAAAT
47613 TAACAAAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
22 4 0.15
23 6 0.22
24 16 0.59
25 1 0.04
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (25 bp):
ATAAACAAATAAAAAAAACTACAAG
Found at i:47776 original size:31 final size:31
Alignment explanation
Indices: 47718--47776 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
47708 AAAAAATGAG
*
47718 AAAAACTAGAAAAAAATAAAAATGAAAAGGC
1 AAAAACTAGAAAAAAACAAAAATGAAAAGGC
47749 AAAAA-TATGAAATAAAACAAAAA-GAAAA
1 AAAAACTA-GAAA-AAAACAAAAATGAAAA
47777 AAAGGTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 2 0.08
31 14 0.56
32 9 0.36
ACGTcount: A:0.75, C:0.05, G:0.10, T:0.10
Consensus pattern (31 bp):
AAAAACTAGAAAAAAACAAAAATGAAAAGGC
Done.