Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005151.1 Hibiscus syriacus cultivar Beakdansim tig00011606_pilon, 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: 43773
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:863 original size:47 final size:49
Alignment explanation
Indices: 799--896 Score: 173
Period size: 47 Copynumber: 2.0 Consensus size: 49
789 CTAATATTAA
799 ACCTAAAAGTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATTT
1 ACCTAAAAGTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATTT
*
848 ACCT-AAAG-TTTTAATATTTTATTTGAATAATTGCAAATTAAAAATTT
1 ACCTAAAAGTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATTT
895 AC
1 AC
897 AAGACTAAAC
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 40 0.83
48 4 0.08
49 4 0.08
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (49 bp):
ACCTAAAAGTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATTT
Found at i:2624 original size:13 final size:12
Alignment explanation
Indices: 2590--2742 Score: 68
Period size: 12 Copynumber: 12.3 Consensus size: 12
2580 TTGTTGTATT
*
2590 TTTACTTTTTTA
1 TTTATTTTTTTA
*
2602 -TTATTATTTTA
1 TTTATTTTTTTA
2613 TTTATTTGTTTTA
1 TTTATTT-TTTTA
*
2626 TTTATATATTTT-
1 TTTAT-TTTTTTA
* *
2638 TTTCTTCTTTTTC
1 TTTATT-TTTTTA
2651 TTTATTTTTTTA
1 TTTATTTTTTTA
2663 --TATTTATTTTA
1 TTTATTT-TTTTA
* *
2674 CTTATTATTTTA
1 TTTATTTTTTTA
2686 TCTT-TGCTTTCTTTA
1 T-TTAT--TTT-TTTA
*
2701 TCTTA-TCTTTTA
1 T-TTATTTTTTTA
*
2713 TTTAATTTGTTT-
1 TTT-ATTTTTTTA
2725 TTTATTTATTTTAA
1 TTTATTT-TTTT-A
2739 TTTA
1 TTTA
2743 ATTAATTAAT
Statistics
Matches: 108, Mismatches: 15, Indels: 34
0.69 0.10 0.22
Matches are distributed among these distances:
10 5 0.05
11 21 0.19
12 36 0.33
13 31 0.29
14 7 0.06
15 8 0.07
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTATTTTTTTA
Found at i:2648 original size:24 final size:21
Alignment explanation
Indices: 2588--2661 Score: 53
Period size: 21 Copynumber: 3.3 Consensus size: 21
2578 TGTTGTTGTA
*
2588 TTTTTACTTTTTTATTATTAT
1 TTTTTTCTTTTTTATTATTAT
*
2609 TTTATTTATTTGTTTTATTTATATAT
1 TTT-TTT-CTT-TTTTA-TTAT-TAT
2635 TTTTTTCTTCTTTT-TCT-TTAT
1 TTTTTTCTT-TTTTAT-TATTAT
2656 TTTTTT
1 TTTTTT
2662 ATATTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
21 12 0.28
22 4 0.09
23 3 0.07
24 11 0.26
25 7 0.16
26 6 0.14
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (21 bp):
TTTTTTCTTTTTTATTATTAT
Found at i:2672 original size:23 final size:23
Alignment explanation
Indices: 2602--2701 Score: 60
Period size: 23 Copynumber: 4.2 Consensus size: 23
2592 TACTTTTTTA
* *
2602 TTATTATTTTATTTATTTGTTTTAT
1 TTATTATTTTA--TATTTATTTTCT
* *
2627 TTATATATTTT-TTTCTTCTTTTTCT
1 TTAT-TATTTTATAT-TT-ATTTTCT
*
2652 TTATTTTTTTATATTTATTTTAC-
1 TTATTATTTTATATTTATTTT-CT
* **
2675 TTATTATTTTATCTTTGCTTTCT
1 TTATTATTTTATATTTATTTTCT
2698 TTAT
1 TTAT
2702 CTTATCTTTT
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
22 1 0.02
23 27 0.46
24 10 0.17
25 15 0.25
26 6 0.10
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (23 bp):
TTATTATTTTATATTTATTTTCT
Found at i:2690 original size:37 final size:37
Alignment explanation
Indices: 2597--2690 Score: 90
Period size: 37 Copynumber: 2.6 Consensus size: 37
2587 ATTTTTACTT
2597 TTTTATTATTATTTTA--TTTATTTGTTTTATTTATATA
1 TTTTATTATTATTTTATCTTTATTTGTTTTA-TT-TATA
* * *
2634 TTTTTTTCTTCTTTT-TCTTTATTT-TTTTATATT-TA
1 TTTTATTATTATTTTATCTTTATTTGTTTTAT-TTATA
2669 TTTTACTTATTATTTTATCTTT
1 TTTTA-TTATTATTTTATCTTT
2691 GCTTTCTTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
35 6 0.13
36 10 0.22
37 23 0.50
38 7 0.15
ACGTcount: A:0.18, C:0.05, G:0.01, T:0.76
Consensus pattern (37 bp):
TTTTATTATTATTTTATCTTTATTTGTTTTATTTATA
Found at i:3367 original size:32 final size:33
Alignment explanation
Indices: 3293--3373 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
3283 TGAGGGCATC
3293 TTTGAAGATTCAACATCAAATGTTGGAGCATTTT
1 TTTG-AGATTCAACATCAAATGTTGGAGCATTTT
* * *
3327 TTTTAGATTTAACATCAAATGTTGGGGC-TTTT
1 TTTGAGATTCAACATCAAATGTTGGAGCATTTT
3359 TTTGAGATTCAACAT
1 TTTGAGATTCAACAT
3374 TGAATATTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
32 17 0.40
33 22 0.52
34 3 0.07
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (33 bp):
TTTGAGATTCAACATCAAATGTTGGAGCATTTT
Found at i:4081 original size:94 final size:95
Alignment explanation
Indices: 3971--4231 Score: 337
Period size: 94 Copynumber: 2.7 Consensus size: 95
3961 ATATCGTGCC
*
3971 ACTCGAGACAACACAAGTTCAACTCCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTC-C
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCGC
4035 CAATTTCAACTTCACAGCGAAGGATATTGG
66 CAATTTCAACTTCACAGCGAAGGATATTGG
* * *
4065 ACTCGAGACAACACAAGTTCAACTTCACAACAAAGGGACGGCTGATTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAA--T---
4130 AATTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
61 --TTC---GCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
4170 ACTCG-GACAGCACAAGCTCAACTTCACAGCGAAGGGGCGACTGGCTGTCAACAAACAATTTC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTC
4232 TTAGTTCCAG
Statistics
Matches: 144, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
94 55 0.38
96 1 0.01
97 3 0.02
101 3 0.02
102 1 0.01
104 45 0.31
105 36 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (95 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTCGC
CAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:4228 original size:104 final size:105
Alignment explanation
Indices: 4034--4290 Score: 345
Period size: 105 Copynumber: 2.4 Consensus size: 105
4024 AAACAATTTC
*
4034 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACAAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCG-GACAACACAAGCTCAACTTCACAACAAA
* * *
4099 GGGACGGCTGATTGTCAACAAACAATTTCCCAATT-CGGAG
65 GGGACGACTGACTGTCAACAAACAATTTCCCAATTCCAGAG
* * *
4139 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGGACAGCACAAGCTCAACTTCACAGCGAAG
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGGACAACACAAGCTCAACTTCACAACAAAG
* * ** *
4204 GGGCGACTGGCTGTCAACAAACAATTTCTTAGTTCCAGAG
66 GGACGACTGACTGTCAACAAACAATTTCCCAATTCCAGAG
* * * *
4244 CCAATTTTAACTTCACGGCGGAGGATATTGGACTCGGAACAATACAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGG-ACAACACAA
4291 CTTACTTGGA
Statistics
Matches: 133, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
104 52 0.39
105 74 0.56
106 7 0.05
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (105 bp):
CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGGACAACACAAGCTCAACTTCACAACAAAG
GGACGACTGACTGTCAACAAACAATTTCCCAATTCCAGAG
Found at i:4732 original size:87 final size:87
Alignment explanation
Indices: 4536--4708 Score: 292
Period size: 87 Copynumber: 2.0 Consensus size: 87
4526 CAGTTTCTCT
*
4536 TGAAACATAAACATTGAAAACATTCCCCTTGAAATGAATTTTTTCTCGATTGAGATAGTTTCCCT
1 TGAAACATAAACATTGAAAACATTCCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCCCT
*
4601 TGAAACGAAATTTTGTCTCCCC
66 TGAAACAAAATTTTGTCTCCCC
* * * *
4623 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGGGGTAGTTTCCCT
1 TGAAACATAAACATTGAAAACATTCCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCCCT
4688 TGAAACAAAATTTTGTCTCCC
66 TGAAACAAAATTTTGTCTCCC
4709 TTGAGACAGT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (87 bp):
TGAAACATAAACATTGAAAACATTCCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCCCT
TGAAACAAAATTTTGTCTCCCC
Found at i:4844 original size:99 final size:102
Alignment explanation
Indices: 4623--4857 Score: 359
Period size: 99 Copynumber: 2.3 Consensus size: 102
4613 TTGTCTCCCC
* *
4623 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGGGGTAGTTTCCCT
1 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAGTTTCCCT
4688 TGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
66 TGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* * * * *
4725 TGAAACATAAACATTGAAAACATTTTCTTTGAAATTAA-TTTGTCTCTCTTGAGAT-GTTTCCCT
1 TGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAGTTTCCCT
*
4788 TGAAACAAAATTTTGTCT-CCTTGAGATAGTTTCTCT
66 TGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* *
4824 TGAAACATAAACCTTGAAAACGTTTCCCTTGAAA
1 TGAAACATAAACATTGAAAACATTTCCCTTGAAA
4858 CATTAAATAT
Statistics
Matches: 121, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
99 47 0.39
100 26 0.21
101 13 0.11
102 35 0.29
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.37
Consensus pattern (102 bp):
TGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAGTTTCCCT
TGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
Found at i:4952 original size:15 final size:15
Alignment explanation
Indices: 4932--4965 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4922 CTTGTCTCTC
*
4932 TTGAGATAGTTTCCA
1 TTGAGACAGTTTCCA
*
4947 TTGAGACAGTTTCCC
1 TTGAGACAGTTTCCA
4962 TTGA
1 TTGA
4966 AACAAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (15 bp):
TTGAGACAGTTTCCA
Found at i:4958 original size:52 final size:51
Alignment explanation
Indices: 4897--5001 Score: 174
Period size: 51 Copynumber: 2.0 Consensus size: 51
4887 AACGAGTTTG
*
4897 GAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTCTTGAGATAGTTTCCATT
1 GAGACAGTTTCCCTTGAAAC-AAATCTTGTCACTCTTGAGATAGTTTCCATT
* *
4949 GAGACAGTTTCCCTTGAAACAAATTTTGTCACTCTTGAGATAGTTTCCCTT
1 GAGACAGTTTCCCTTGAAACAAATCTTGTCACTCTTGAGATAGTTTCCATT
5000 GA
1 GA
5002 AACAAAATCT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
51 30 0.60
52 20 0.40
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (51 bp):
GAGACAGTTTCCCTTGAAACAAATCTTGTCACTCTTGAGATAGTTTCCATT
Found at i:5113 original size:36 final size:36
Alignment explanation
Indices: 5030--5133 Score: 131
Period size: 36 Copynumber: 2.9 Consensus size: 36
5020 CTTTTCCTTG
*
5030 AAACAAATTTCGTCTC-CTTGAGACAGTTTC-TTTT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTTTTT
* *
5064 AGAACTAAGTTTTGTCTCTCTTGAGACAATTTCTTTTT
1 A-AAC-AAATTTTGTCTCTCTTGAGACAGTTTCTTTTT
* *
5102 AAACAAATTTTGTCCCTCTTGAAACAGTTTCT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCT
5134 CTTGAAAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
34 1 0.02
35 3 0.05
36 34 0.58
37 16 0.27
38 5 0.08
ACGTcount: A:0.27, C:0.19, G:0.12, T:0.42
Consensus pattern (36 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTTTTT
Found at i:6358 original size:23 final size:23
Alignment explanation
Indices: 6294--6361 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
6284 TTTCATGTAA
* **
6294 TATTTTTTACATTTTATGCATTT
1 TATTTTTTACATTATATATATTT
* *
6317 TCTTTTTTACTTTAGTATATATTT
1 TATTTTTTACATTA-TATATATTT
*
6341 TATTTTTTAGATTATATATAT
1 TATTTTTTACATTATATATAT
6362 ATATATATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
23 18 0.50
24 18 0.50
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTTTACATTATATATATTT
Found at i:6423 original size:4 final size:4
Alignment explanation
Indices: 6387--6604 Score: 51
Period size: 4 Copynumber: 52.8 Consensus size: 4
6377 TATTATCAGT
* * * * *
6387 TTTA TTAA TTTA TATA TATA TTACTA TTT- TTTA TTTA -TTA TATA TATA
1 TTTA TTTA TTTA TTTA TTTA TT--TA TTTA TTTA TTTA TTTA TTTA TTTA
*
6435 TATA TATTA TTTTA CTTT- TTTA -TTA TTTTA TTTA TTGT- TTTA TTTA
1 TTTA T-TTA -TTTA -TTTA TTTA TTTA -TTTA TTTA TT-TA TTTA TTTA
* * * * * *
6481 TATATA TTTT TTCTT TTTC TTTA TTTT TTATA TTTA TTTTA CTTA -CTA
1 T-T-TA TTTA TT-TA TTTA TTTA TTTA TT-TA TTTA -TTTA TTTA TTTA
** * *
6529 TTTTA TTT- TTGC TTTC TTTA TCTTA TCT- TTTA TTTAA TTTA TTT- TTT-
1 -TTTA TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTT-A TTTA TTTA TTTA
* *
6576 TTCA TTTTAA TTTA ATTA TTTA TTTA TTT
1 TTTA -TTT-A TTTA TTTA TTTA TTTA TTT
6605 CTTATCTTTT
Statistics
Matches: 165, Mismatches: 24, Indels: 50
0.69 0.10 0.21
Matches are distributed among these distances:
3 24 0.15
4 92 0.56
5 40 0.24
6 9 0.05
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:6442 original size:28 final size:29
Alignment explanation
Indices: 6386--6487 Score: 97
Period size: 29 Copynumber: 3.6 Consensus size: 29
6376 TTATTATCAG
*
6386 TTTTATTAATT-TATATATATATTACTATT-
1 TTTTATTTATTATATATATATA-TA-TATTA
6415 TTTTATTTATTATATATATATATATATTA
1 TTTTATTTATTATATATATATATATATTA
* * * *
6444 TTTTACTTTTTTAT-TAT-TTTATTTATTG
1 TTTTA-TTTATTATATATATATATATATTA
6472 TTTTATTTA-TATATAT
1 TTTTATTTATTATATAT
6488 TTTTTCTTTT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
26 3 0.05
27 6 0.10
28 17 0.27
29 20 0.32
30 17 0.27
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (29 bp):
TTTTATTTATTATATATATATATATATTA
Found at i:6461 original size:36 final size:35
Alignment explanation
Indices: 6332--6461 Score: 119
Period size: 36 Copynumber: 3.7 Consensus size: 35
6322 TTTACTTTAG
6332 TATATATTTTATTTTTTAG--ATTATATATATATA
1 TATATATTTTATTTTTTAGTTATTATATATATATA
* *
6365 TATATTATTTT-TTATTATCAGTT-TTAT-TAATTTATA
1 TATA-TATTTTATT-TT-TTAGTTATTATAT-ATATATA
* *
6401 TATATATTACTATTTTTTATTTATTATATATATATA
1 TATATATT-TTATTTTTTAGTTATTATATATATATA
6437 TATATTATTTTACTTTTTTA-TTATT
1 TATA-TATTTTA-TTTTTTAGTTATT
6462 TTATTTATTG
Statistics
Matches: 78, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
33 6 0.08
34 8 0.10
35 12 0.15
36 38 0.49
37 14 0.18
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (35 bp):
TATATATTTTATTTTTTAGTTATTATATATATATA
Found at i:6479 original size:17 final size:16
Alignment explanation
Indices: 6441--6575 Score: 78
Period size: 17 Copynumber: 8.1 Consensus size: 16
6431 TATATATATA
*
6441 TTATTTTACTTT-TTTA
1 TTATTTTA-TTTATTTT
6457 TTATTTTATTTATTGTT
1 TTATTTTATTTATT-TT
*
6474 TTATTTATATATATTTT
1 TTATTT-TATTTATTTT
* *
6491 TTCTTTTTCTTTATTTT
1 TT-ATTTTATTTATTTT
* *
6508 TTATATTTATTTTACTTA
1 TTAT-TTTA-TTTATTTT
* *
6526 CTATTTTATTT-TTGCT
1 TTATTTTATTTATT-TT
* *
6542 TT-CTTTATCTTATCTT
1 TTATTTTAT-TTATTTT
*
6558 TTATTTAATTTATTTT
1 TTATTTTATTTATTTT
6574 TT
1 TT
6576 TTCATTTTAA
Statistics
Matches: 89, Mismatches: 20, Indels: 20
0.69 0.16 0.16
Matches are distributed among these distances:
15 9 0.10
16 28 0.31
17 33 0.37
18 19 0.21
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.73
Consensus pattern (16 bp):
TTATTTTATTTATTTT
Found at i:6489 original size:74 final size:71
Alignment explanation
Indices: 6320--6492 Score: 179
Period size: 75 Copynumber: 2.3 Consensus size: 71
6310 TGCATTTTCT
*
6320 TTTTTACTTTAGTATATATTTTATTTTTTAGATTATATATATATATATATTATTTTTTATTATCA
1 TTTTTA-TTTA-TATATATTTT-TTATTTA-ATTATATATATATATATATTATTTTTTATTATCA
6385 GTTTTATTAA
62 GTTTTATTAA
* * * *
6395 TTTATATATATATTACTATTTTTTATTT-ATTATATATATATATATATTATTTTACTTTTTTATT
1 TTTTTATTTATA-TA-TATTTTTTATTTAATTATATATATATATATATTA-TTT--TTTATTATC
*
6459 A-TTTTATTTAT
61 AGTTTTA-TTAA
6470 TGTTTTATTTATATATATTTTTT
1 T-TTTTATTTATATATATTTTTT
6493 CTTTTTCTTT
Statistics
Matches: 83, Mismatches: 8, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
72 21 0.25
73 5 0.06
74 23 0.28
75 25 0.30
76 9 0.11
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (71 bp):
TTTTTATTTATATATATTTTTTATTTAATTATATATATATATATATTATTTTTTATTATCAGTTT
TATTAA
Found at i:6491 original size:28 final size:27
Alignment explanation
Indices: 6394--6491 Score: 69
Period size: 28 Copynumber: 3.6 Consensus size: 27
6384 AGTTTTATTA
* *
6394 ATTTATATATA-TATTA-CTATTTTTT
1 ATTTATATATATTTTTATATATTTTTT
* *
6419 ATTTATTATATATATATATATATTATTTT
1 ATTTA-TATATATTTTTATATATT-TTTT
* *
6448 ACTTT-TTTAT-TATTTTATTTATTGTTTT
1 A-TTTATATATAT-TTTTATATATT-TTTT
6476 ATTTATATATATTTTT
1 ATTTATATATATTTTT
6492 TCTTTTTCTT
Statistics
Matches: 55, Mismatches: 10, Indels: 13
0.71 0.13 0.17
Matches are distributed among these distances:
25 5 0.09
26 6 0.11
27 6 0.11
28 29 0.53
29 6 0.11
30 3 0.05
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (27 bp):
ATTTATATATATTTTTATATATTTTTT
Found at i:6497 original size:44 final size:46
Alignment explanation
Indices: 6410--6507 Score: 125
Period size: 44 Copynumber: 2.2 Consensus size: 46
6400 ATATATATTA
6410 CTATT-TTTTATTTATTATATATATATATATATTATTTTACTTTTT
1 CTATTATTTTATTTATTATATATATATATATATTATTTTACTTTTT
* * *
6455 -TATTATTTTATTTATTGTTTTATTTATATATATT-TTTT-CTTTTT
1 CTATTATTTTATTTATT-ATATATATATATATATTATTTTACTTTTT
6499 CT-TTATTTT
1 CTATTATTTT
6508 TTATATTTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
44 17 0.36
45 16 0.34
46 14 0.30
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.71
Consensus pattern (46 bp):
CTATTATTTTATTTATTATATATATATATATATTATTTTACTTTTT
Found at i:9656 original size:50 final size:49
Alignment explanation
Indices: 9578--9678 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 49
9568 TCTAATATTA
9578 ACCTAAAAGTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATTT
1 ACCTAAAAGTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATTT
*
9627 ACCTAAAAGTTTTTTAATATTTTATTTGAATAATTGCAAATTAAAAATTT
1 ACCTAAAAG-TTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATTT
9677 AC
1 AC
9679 AAGACTAAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 9 0.18
50 41 0.82
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.45
Consensus pattern (49 bp):
ACCTAAAAGTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATTT
Found at i:10451 original size:2 final size:2
Alignment explanation
Indices: 10446--10472 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10436 TTTTTTAGAT
10446 TA 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 TA T
10473 TTTATTATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10451 original size:24 final size:25
Alignment explanation
Indices: 10386--10453 Score: 63
Period size: 25 Copynumber: 2.8 Consensus size: 25
10376 TTTTCATGTA
*
10386 TATTTTTTACATT--T-TATGCATTT
1 TATTTTTTACATTAGTATATAC-TTT
* *
10409 TCTTTTTTACTTTAGTATATACTTT
1 TATTTTTTACATTAGTATATACTTT
*
10434 TATTTTTTAGATTA-TATATA
1 TATTTTTTACATTAGTATATA
10454 TATATATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
23 11 0.31
24 6 0.17
25 15 0.42
26 4 0.11
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.63
Consensus pattern (25 bp):
TATTTTTTACATTAGTATATACTTT
Found at i:10532 original size:33 final size:32
Alignment explanation
Indices: 10494--10561 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 32
10484 TTTTATTCAT
*
10494 TTATATATATATTTACTAT-TTTTTA-TTTTTA
1 TTATATATATATATA-TATATTTTTACTTTTTA
10525 TTATATATATATATATATATTTTTACTTTTTTA
1 TTATATATATATATATATATTTTTAC-TTTTTA
10558 TTAT
1 TTAT
10562 TTTATTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
30 3 0.09
31 20 0.61
33 10 0.30
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (32 bp):
TTATATATATATATATATATTTTTACTTTTTA
Found at i:10538 original size:39 final size:38
Alignment explanation
Indices: 10444--10561 Score: 128
Period size: 39 Copynumber: 3.0 Consensus size: 38
10434 TATTTTTTAG
* *
10444 ATTATATATATATATATATATATATATATTTTATTATC
1 ATTATATATATATATATATATTTATATTTTTTATTATC
* * * *
10482 AGTTTTATTCATTTATATATATATTTACTATTTTTTATTTTT
1 A-TTATA-T-ATATATATATATATTTA-TATTTTTTATTATC
*
10524 ATTATATATATATATATATATTTTTACTTTTTTATTAT
1 ATTATATATATATATATATATTTATA-TTTTTTATTAT
10562 TTTATTTATT
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
38 3 0.05
39 29 0.45
40 2 0.03
41 19 0.29
42 12 0.18
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (38 bp):
ATTATATATATATATATATATTTATATTTTTTATTATC
Found at i:10585 original size:45 final size:45
Alignment explanation
Indices: 10510--10623 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 45
10500 ATATATTTAC
*
10510 TATTTTTTATTTTTATTATATATATATATATATATTTT-TACTTTTT-TAT
1 TATTTTTTATATTTATT-T-TAT-T-TATATAT-TTTTCTACTTTTTCT-T
* *
10559 TATTTTATT-TATTTGTTTTATTTATATATTTTTCTTCTTTTTCTT
1 TATTTT-TTATATTTATTTTATTTATATATTTTTCTACTTTTTCTT
10604 TATTTTTTATATTTATTTTA
1 TATTTTTTATATTTATTTTA
10624 CTTACTATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
44 6 0.11
45 31 0.54
46 2 0.04
47 3 0.05
48 1 0.02
49 12 0.21
50 2 0.04
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.73
Consensus pattern (45 bp):
TATTTTTTATATTTATTTTATTTATATATTTTTCTACTTTTTCTT
Found at i:11293 original size:32 final size:32
Alignment explanation
Indices: 11246--11358 Score: 138
Period size: 32 Copynumber: 3.5 Consensus size: 32
11236 TGAGGGCATC
*
11246 TTTGAAGATTCAACATCAAATGTTGGAGCATTT
1 TTTG-AGATTCAACATCAAATGTTGGGGCATTT
* *
11279 TTTTAGATTTAACATCAAATGTTGGGGCATTT
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
* * *
11311 TTTGAGATTCAACATCGAATATTGGGGCA-TA
1 TTTGAGATTCAACATCAAATGTTGGGGCATTT
*
11342 TTTGGGAATTCAACATC
1 TTTGAG-ATTCAACATC
11359 CTGATGCAAA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
31 6 0.09
32 61 0.87
33 3 0.04
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.37
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGGGCATTT
Found at i:12044 original size:94 final size:95
Alignment explanation
Indices: 11935--12197 Score: 339
Period size: 106 Copynumber: 2.7 Consensus size: 95
11925 ATATCGTGCC
* *
11935 ACTCGAGACAACACAAGTTCAACTCCACAACGAAGGGACGACTGGTTGTCAACAAACAATTTC-C
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCGC
11999 CAATTTCAACTTCACAGCGAAGGATATTGG
66 CAATTTCAACTTCACAGCGAAGGATATTGG
* *
12029 ACTCGAGACAACACAAGTTCAACTTCACAACAAAGGGACGGCTGATTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC--A-AA-----C
12094 AATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
58 AATTTC---GCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
12135 ACTCGAGACAGCACAAGCTCAACTTCACAGCGAAGGGGCGGCTGGCTGTCAACAAACAATTTC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTC
12198 TTAGTTCCAG
Statistics
Matches: 146, Mismatches: 11, Indels: 20
0.82 0.06 0.11
Matches are distributed among these distances:
94 49 0.34
96 1 0.01
97 2 0.01
98 7 0.05
102 7 0.05
103 2 0.01
104 1 0.01
106 77 0.53
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (95 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCGC
CAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:12185 original size:106 final size:106
Alignment explanation
Indices: 11998--12256 Score: 356
Period size: 106 Copynumber: 2.4 Consensus size: 106
11988 AAACAATTTC
*
11998 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACAAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAACAAA
* * *
12063 GGGACGGCTGATTGTCAACAAACAATTTCCCAATTTCGGAG
66 GGGACGGCTGACTGTCAACAAACAATTTCCCAATTCCAGAG
* * *
12104 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAGCACAAGCTCAACTTCACAGCGAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAACAAA
* * ** *
12169 GGGGCGGCTGGCTGTCAACAAACAATTTCTTAGTTCCAGAG
66 GGGACGGCTGACTGTCAACAAACAATTTCCCAATTCCAGAG
* * * * * *
12210 CCAATTTTAACTTCACGGCGGAGGATATTAGACTCGAAACAATACAA
1 CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
12257 CTTACTTGGA
Statistics
Matches: 134, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
106 134 1.00
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (106 bp):
CCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAACAAA
GGGACGGCTGACTGTCAACAAACAATTTCCCAATTCCAGAG
Found at i:12687 original size:37 final size:37
Alignment explanation
Indices: 12612--12800 Score: 130
Period size: 37 Copynumber: 5.4 Consensus size: 37
12602 ATTGAAAACA
* * * * *
12612 TTTCCCTTGAAA-TAAATTTTATCTCGCTTGGGGTAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
*
12648 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
* ** * * *
12685 TTTCTCTTGAAACATAAAAATTG--------AAAACA-
1 TTTCCCTTGAAACA-AAATTTTGTCTCCCTTGAGATAG
* ** *
12714 TTTCCTTTGAAA-TTAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
*
12750 TTTTCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
*
12787 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
12801 TAAACCTTGA
Statistics
Matches: 114, Mismatches: 27, Indels: 23
0.70 0.16 0.14
Matches are distributed among these distances:
27 5 0.04
29 10 0.09
30 4 0.04
35 3 0.03
36 22 0.19
37 64 0.56
38 6 0.05
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAG
Found at i:12699 original size:87 final size:87
Alignment explanation
Indices: 12503--12675 Score: 292
Period size: 87 Copynumber: 2.0 Consensus size: 87
12493 CAGTTTCTCT
*
12503 TGAAACATAAACATTGAAAACATTGCCCTTGAAATGAATTTTATCTCGATTGAGATAGTTTCCCT
1 TGAAACATAAACATTGAAAACATTGCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCCCT
*
12568 TGAAACGAAATTTTGTCTCCCC
66 TGAAACAAAATTTTGTCTCCCC
* * * *
12590 TGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCCCT
1 TGAAACATAAACATTGAAAACATTGCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCCCT
12655 TGAAACAAAATTTTGTCTCCC
66 TGAAACAAAATTTTGTCTCCC
12676 TTGAGACAGT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (87 bp):
TGAAACATAAACATTGAAAACATTGCCCTTGAAATAAATTTTATCTCGATTGAGATAGTTTCCCT
TGAAACAAAATTTTGTCTCCCC
Found at i:12700 original size:102 final size:102
Alignment explanation
Indices: 12590--12827 Score: 377
Period size: 102 Copynumber: 2.3 Consensus size: 102
12580 TTGTCTCCCC
* *
12590 TGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGGGGTAGTTTCCCT
1 TGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCCCT
12655 TGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
66 TGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* * * * * *
12692 TGAAACATAAAAATTGAAAACATTTCCTTTGAAATTAATTTTGTCTCTCTTGAGATAGTTTTCCT
1 TGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCCCT
*
12757 TGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCTCT
66 TGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
* *
12794 TGAAACATAAACCTTGAAAACGTTTCCCTTGAAA
1 TGAAACATAAACATTGAAAACATTTCCCTTGAAA
12828 CATAAAATAT
Statistics
Matches: 123, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
102 123 1.00
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (102 bp):
TGAAACATAAACATTGAAAACATTTCCCTTGAAATAAATTTTATCTCGCTTGAGATAGTTTCCCT
TGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCTCT
Found at i:12965 original size:51 final size:52
Alignment explanation
Indices: 12867--12968 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 52
12857 AACGAGTTTT
*
12867 GAGACAGTTTCCCTTGAAACAAAATCTTGTCTCTCTTGAGATAGTTTCCCTC
1 GAGACAATTTCCCTTGAAACAAAATCTTGTCTCTCTTGAGATAGTTTCCCTC
*
12919 GAGACAATTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGATAGTTTCCCT
1 GAGACAATTTCCCTTGAAACAAAATCTTGTCTCTCTTGAGATAGTTTCCCT
12969 TGAAACAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
51 29 0.60
52 19 0.40
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (52 bp):
GAGACAATTTCCCTTGAAACAAAATCTTGTCTCTCTTGAGATAGTTTCCCTC
Found at i:13092 original size:36 final size:36
Alignment explanation
Indices: 13000--13115 Score: 144
Period size: 36 Copynumber: 3.2 Consensus size: 36
12990 CTTTTCCTTG
* *
13000 AAACAAATTTCGTCCCCCTTGAGACAGTTTC-TTTT
1 AAACAAATTTTGTCCCTCTTGAGACAGTTTCTTTTT
* * *
13035 AGAACTAAGTTTTGTCTCTCTTGAGACAATTTCTTTTT
1 A-AAC-AAATTTTGTCCCTCTTGAGACAGTTTCTTTTT
* *
13073 AAACAAATTTTGTCCCTCTTGAGACAGTTTCTCTTG
1 AAACAAATTTTGTCCCTCTTGAGACAGTTTCTTTTT
13109 AAACAAA
1 AAACAAA
13116 AAAAAACCTT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
35 1 0.01
36 37 0.54
37 25 0.37
38 5 0.07
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (36 bp):
AAACAAATTTTGTCCCTCTTGAGACAGTTTCTTTTT
Found at i:14448 original size:73 final size:73
Alignment explanation
Indices: 14313--14457 Score: 188
Period size: 75 Copynumber: 2.0 Consensus size: 73
14303 TTTACTTTAG
**
14313 TATATATTTTTATTTTTTTAGATTATATATATATATATATATATTTTTTTATTATCAGTTTTATT
1 TATATATTACTATTTTTTTAGATTATATATATATATATATATATTTTTTTATTAT-A-TTTTATT
14378 AATTTATATA
64 AATTTATATA
*
14388 TATATATTACTATTTTTTTA-TTTATTATATATATATATATATATTATTTTTACTT-T-TTTTAT
1 TATATATTACTATTTTTTTAGATTA-TATATATATATATATATATT-TTTTTA-TTATATTTTAT
*
14450 TATTTTAT
63 TAATTTAT
14458 TTATTTGTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
73 13 0.21
74 3 0.05
75 38 0.60
76 7 0.11
77 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (73 bp):
TATATATTACTATTTTTTTAGATTATATATATATATATATATATTTTTTTATTATATTTTATTAA
TTTATATA
Found at i:14462 original size:49 final size:50
Alignment explanation
Indices: 14398--14514 Score: 134
Period size: 49 Copynumber: 2.3 Consensus size: 50
14388 TATATATTAC
14398 TATTTTTTTATTTATTAT-ATATATATATATATATTATTT-TTAC-TTTT-TT
1 TATTTTTTTATTTATT-TGATATATATATATATATT-TTTCTT-CTTTTTCTT
* * * *
14447 TATTATTTTATTTATTTGTTTTATTTATATATATTTTTCTTCTTTTTCTT
1 TATTTTTTTATTTATTTGATATATATATATATATTTTTCTTCTTTTTCTT
14497 TATTTTTTATATTTATTT
1 TATTTTTT-TATTTATTT
14515 TACTTACTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
48 5 0.09
49 35 0.60
50 9 0.16
51 9 0.16
ACGTcount: A:0.23, C:0.03, G:0.01, T:0.73
Consensus pattern (50 bp):
TATTTTTTTATTTATTTGATATATATATATATATTTTTCTTCTTTTTCTT
Found at i:14542 original size:51 final size:47
Alignment explanation
Indices: 14423--14556 Score: 121
Period size: 47 Copynumber: 2.7 Consensus size: 47
14413 TATATATATA
* * *
14423 TATATATATTATTT-TTACTTTTTTTATTATTTTATT-TATTTGTTTTATT
1 TATATATATT-TTTCTT-CTTTTTCT-TTATTTT-TTATATTTATTTTACT
14472 TATATATATTTTTCTTCTTTTTCTTTATTTTTTATATTTATTTTACT
1 TATATATATTTTTCTTCTTTTTCTTTATTTTTTATATTTATTTTACT
* * *
14519 TACTATTTTATTTTTGCTTTCTTTATC-TTATCTTTTAT
1 TA-TA-TATATTTTT-C-TTCTTTTTCTTTATTTTTTAT
14557 TTAATTTATT
Statistics
Matches: 73, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
46 2 0.03
47 20 0.27
48 12 0.16
49 20 0.27
50 11 0.15
51 8 0.11
ACGTcount: A:0.19, C:0.07, G:0.01, T:0.72
Consensus pattern (47 bp):
TATATATATTTTTCTTCTTTTTCTTTATTTTTTATATTTATTTTACT
Found at i:17636 original size:49 final size:50
Alignment explanation
Indices: 17582--17682 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
17572 CTAATATTAA
17582 ACCTAAAAG-TTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATTT
1 ACCTAAAAGTTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATTT
*
17631 ACCTAAAAGTTTTTTAATATTTTATTTGAATAATTGCAAATTAAAAATTT
1 ACCTAAAAGTTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATTT
17681 AC
1 AC
17683 AAGACTAAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 9 0.18
50 41 0.82
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.45
Consensus pattern (50 bp):
ACCTAAAAGTTTTTTAATATTTTATTTGAATAATTGAAAATTAAAAATTT
Found at i:18455 original size:2 final size:2
Alignment explanation
Indices: 18450--18474 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18440 TTTTTTAGAT
18450 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
18475 TATTTATTAT
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:18545 original size:36 final size:38
Alignment explanation
Indices: 18456--18576 Score: 138
Period size: 38 Copynumber: 3.1 Consensus size: 38
18446 AGATTATATA
*
18456 TATATATATATATATATATTATTTATTATCAGTTTTATTCAT
1 TATATATATATATATATATTATTT-TTA-C-TTTTTATT-AT
* * *
18498 T-TATATATATATGTTTACTATTTTTTA-TTTTTATTAT
1 TATATATATATATATATATTA-TTTTTACTTTTTATTAT
18535 TATATATATATATATATATTATTTTTACTTTATTATTAT
1 TATATATATATATATATATTATTTTTACTTT-TTATTAT
18574 TAT
1 TAT
18577 TTTATTTATT
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
37 9 0.13
38 26 0.38
39 10 0.15
41 19 0.28
42 4 0.06
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (38 bp):
TATATATATATATATATATTATTTTTACTTTTTATTAT
Found at i:19310 original size:32 final size:32
Alignment explanation
Indices: 19263--19343 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
19253 TGAGGGCATC
19263 TTTGAAGATTCAACATCAAATGTTGGAGCATTT
1 TTTG-AGATTCAACATCAAATGTTGGAGCATTT
* * *
19296 TTTTAGATTTAACATCAAATGTTGGGGCATTT
1 TTTGAGATTCAACATCAAATGTTGGAGCATTT
19328 TTTGAGATTCAACATC
1 TTTGAGATTCAACATC
19344 GAATATTAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 40 0.93
33 3 0.07
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (32 bp):
TTTGAGATTCAACATCAAATGTTGGAGCATTT
Found at i:19356 original size:32 final size:31
Alignment explanation
Indices: 19255--19375 Score: 118
Period size: 32 Copynumber: 3.8 Consensus size: 31
19245 AGGAACAATG
*
19255 AGGGCATCTTTGAAGATTCAACATCAAATGTT
1 AGGGCATTTTTG-AGATTCAACATCAAATGTT
* *
19287 -GGAGCATTTTTTTAGATTTAACATCAAATGTT
1 AGG-GCA-TTTTTGAGATTCAACATCAAATGTT
* * *
19319 GGGGCATTTTTTGAGATTCAACATCGAATATT
1 AGGGCA-TTTTTGAGATTCAACATCAAATGTT
* *
19351 AGGGCATATTTGGGAATTCAACATC
1 AGGGCATTTTTGAG-ATTCAACATC
19376 CTGATGCAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
31 8 0.11
32 61 0.81
33 6 0.08
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (31 bp):
AGGGCATTTTTGAGATTCAACATCAAATGTT
Found at i:21688 original size:73 final size:74
Alignment explanation
Indices: 21553--21696 Score: 281
Period size: 73 Copynumber: 2.0 Consensus size: 74
21543 ATGTCCTATC
21553 TTACAATGGTGTTTGAATTTAAAACCTTTAAAAATGAAAATTATTTCTTTATTCGGAATCTCTAA
1 TTACAATGGTGTTTGAATTTAAAACCTTTAAAAATGAAAATTATTTCTTTATTCGGAATCTCTAA
21618 ATTATTTCT
66 ATTATTTCT
21627 TTACAATGGTGTTTGAATTTAAAACCTTT-AAAATGAAAATTATTTCTTTATTCGGAATCTCTAA
1 TTACAATGGTGTTTGAATTTAAAACCTTTAAAAATGAAAATTATTTCTTTATTCGGAATCTCTAA
21691 ATTATT
66 ATTATT
21697 GAGATGGTTT
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 41 0.59
74 29 0.41
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.44
Consensus pattern (74 bp):
TTACAATGGTGTTTGAATTTAAAACCTTTAAAAATGAAAATTATTTCTTTATTCGGAATCTCTAA
ATTATTTCT
Found at i:26239 original size:182 final size:181
Alignment explanation
Indices: 25866--26709 Score: 1163
Period size: 182 Copynumber: 4.6 Consensus size: 181
25856 GATCTAAATA
*** * * * *
25866 AAAAATGTATCGATCCATATTAATATAATAAGTAAAAATATGAAAAAATCGGT-T-TAATTATGA
1 AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAA-CGGTCTCGAA--ATGA
* ** * * * ** *
25929 TAAAACCGGTAAAGTACTACCGGATATGTTGAAAGTATCGATTAGATTAAAATAAGTATCGACAC
63 CAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTC-AATACTTTAATATAAGTATCGACAC
* *
25994 TTTGAGAATTTAAAAGAGAAGCAGTAATAGCGCCTAAAAAGTGTCGATACTTTAT
127 TTTGGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* * *
26049 AAAAATGTATTGATCCATAACGATATAACAGGTAAAAATATGATAAAACATGTCTCGAAATGACA
1 AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAAC-GGTCTCGAAATGACA
* * * *
26114 AAACCGATAAAGCGCTACCAGATTTATTGAAAGTGTCAATACTTTAATATAAGTATCGATACTTT
65 AAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCAATACTTTAATATAAGTATCGACACTTT
* * * * * *
26179 GGGAATTTCAAAGAGAAGCAGTAATATCGTCTATAAATTGTCAATACTTTAC
130 GGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* *
26231 AAAAATGTATTGATCCATAACGATATAACTGGTAAAAATATGACAAAATCGGTCTCGAAATGAC-
1 AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAA-CGGTCTCGAAATGACA
* * * *
26295 AAACCGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATACTTTCATATAAGTATCAACACTTT
65 AAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCAATACTTTAATATAAGTATCGACACTTT
26360 GGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
130 GGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* *
26412 AAAAAAATGTATCGATCCATAATGATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATGA
1 --AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAA-CGGTCTCGAAATGA
* * *
26477 CAAAACCGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTTATATAAGTATCGACACT
63 CAAAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCAATACTTTAATATAAGTATCGACACT
*
26542 TTGGGAATTTAAAAGAGAAGCAGTAATAGCGTCTATAAAGTGTCGATACTTTAT
128 TTGGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
* *
26596 AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAATTCGGTCTCGAAATGAAA
1 AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAA-ACGGTCTCGAAATGACA
*
26661 AAACCGGTAAAGCGCTACTGGATATATTGAAAGTGTCAATACTTTAATA
65 AAACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCAATACTTTAATA
26710 AGTACGCGTA
Statistics
Matches: 588, Mismatches: 65, Indels: 17
0.88 0.10 0.03
Matches are distributed among these distances:
181 103 0.18
182 232 0.39
183 138 0.23
184 113 0.19
185 2 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (181 bp):
AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACGGTCTCGAAATGACAA
AACCGGTAAAGCGCTACCGGATATATTGAAAGTGTCAATACTTTAATATAAGTATCGACACTTTG
GGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:26536 original size:365 final size:361
Alignment explanation
Indices: 25866--26713 Score: 1236
Period size: 365 Copynumber: 2.3 Consensus size: 361
25856 GATCTAAATA
*** * * *
25866 AAAAATGTATCGATCCATATTAATATAA-TAAGTAAAAATATGAAAAAATCGGT-T-TAATTATG
1 AAAAATGTATCGATCCATAACGATATAACT-GGTAAAAATATGACAAAATCGGTCTCGAA--ATG
** * * * * * *
25928 ATAAAACCGGTAAAGTACTACCGGATATGTTGAAAGTATCGATTAGATTAAAATAAGTATCGACA
63 A-AAAACCGGTAAAGCGCTACTGGATATATTGAAAGTGTCGA-TA-CTT-TAATAAGTATCAACA
25993 CTTTGAGAATTTAAAAGAGAAGCAGTAATAGCGCCTAAAAAGTGTCGATACTTTATAAAAATGTA
124 CTTTGAGAATTTAAAAGAGAAGCAGTAATAGCGCCTAAAAAGTGTCGATACTTTATAAAAATGTA
* *
26058 TTGATCCATAACGATATAACAGGTAAAAATATGATAAAACATGTCTCGAAATGACAAAACCGATA
189 TCGATCCATAACGATATAACAGGTAAAAATATGATAAAACAGGTCTCGAAATGACAAAACCGATA
* * *
26123 AAGCGCTACCAGATTTATTGAAAGTGTCAATACTTTAATATAAGTATCGATACTTTGGGAATTTC
254 AAGCGCTACCAGATATATTGAAAGTGTCAATACTTTAATATAAGTATCGACACTTTGGGAATTTA
* *
26188 AAAGAGAAGCAGTAATATCGTCTATAAATTGTCAATACTTTAC
319 AAAGAGAAGCAGTAATAGCGTCTATAAAGTGTCAATACTTTAC
* *
26231 AAAAATGTATTGATCCATAACGATATAACTGGTAAAAATATGACAAAATCGGTCTCGAAATGACA
1 AAAAATGTATCGATCCATAACGATATAACTGGTAAAAATATGACAAAATCGGTCTCGAAATGAAA
26296 AACCGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATACTTTCATATAAGTATCAACACTTTG
66 AACCGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATACTTT-A-ATAAGTATCAACACTTTG
* *
26361 GGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAAAATGTATCG
129 AGAATTTAAAAGAGAAGCAGTAATAGCGCCTAAAAAGTGTCGATACTTTAT--AAAAATGTATCG
* * *
26426 ATCCATAATGATATAACAGGTAAAAATATGATAAAACCGGTCTCGAAATGACAAAACCGGTAAAG
192 ATCCATAACGATATAACAGGTAAAAATATGATAAAACAGGTCTCGAAATGACAAAACCGATAAAG
* *
26491 CGCTACC-GAATATATTGAAAGTGTCGATACTTTTATATAAGTATCGACACTTTGGGAATTTAAA
257 CGCTACCAG-ATATATTGAAAGTGTCAATACTTTAATATAAGTATCGACACTTTGGGAATTTAAA
* *
26555 AGAGAAGCAGTAATAGCGTCTATAAAGTGTCGATACTTTAT
321 AGAGAAGCAGTAATAGCGTCTATAAAGTGTCAATACTTTAC
* *
26596 AAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGACAAATTCGGTCTCGAAATGAAA
1 AAAAATGTATCGATCCATAACGATATAACTGGTAAAAATATGACAAAATCGGTCTCGAAATG-AA
*
26661 AAACCGGTAAAGCGCTACTGGATATATTGAAAGTGTCAATACTTTAATAAGTA
65 AAACCGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATACTTTAATAAGTA
26714 CGCGTAATAA
Statistics
Matches: 437, Mismatches: 37, Indels: 19
0.89 0.08 0.04
Matches are distributed among these distances:
362 3 0.01
363 68 0.16
364 42 0.10
365 275 0.63
366 47 0.11
367 2 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (361 bp):
AAAAATGTATCGATCCATAACGATATAACTGGTAAAAATATGACAAAATCGGTCTCGAAATGAAA
AACCGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATACTTTAATAAGTATCAACACTTTGAG
AATTTAAAAGAGAAGCAGTAATAGCGCCTAAAAAGTGTCGATACTTTATAAAAATGTATCGATCC
ATAACGATATAACAGGTAAAAATATGATAAAACAGGTCTCGAAATGACAAAACCGATAAAGCGCT
ACCAGATATATTGAAAGTGTCAATACTTTAATATAAGTATCGACACTTTGGGAATTTAAAAGAGA
AGCAGTAATAGCGTCTATAAAGTGTCAATACTTTAC
Found at i:28590 original size:22 final size:22
Alignment explanation
Indices: 28562--28612 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 22
28552 GTTTTGCTTT
28562 TTATATAAAATGATAATATAGTTA
1 TTATATAAAATGATAA-AT-GTTA
*
28586 TTATATAAAATGATAAATTTTA
1 TTATATAAAATGATAAATGTTA
28608 TTATA
1 TTATA
28613 AATGCAGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 8 0.31
23 2 0.08
24 16 0.62
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (22 bp):
TTATATAAAATGATAAATGTTA
Found at i:30892 original size:19 final size:19
Alignment explanation
Indices: 30868--30911 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
30858 AATCTAGGGT
30868 TAATTTTGAATAAGATTTA
1 TAATTTTGAATAAGATTTA
* *
30887 TAATTTTGTATACGATTTA
1 TAATTTTGAATAAGATTTA
30906 TAATTT
1 TAATTT
30912 GTATGTGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.52
Consensus pattern (19 bp):
TAATTTTGAATAAGATTTA
Found at i:31943 original size:201 final size:201
Alignment explanation
Indices: 31364--32707 Score: 2011
Period size: 201 Copynumber: 6.8 Consensus size: 201
31354 GTAAACAAAT
*
31364 GTGTCGATACATTTATAAAACGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
31429 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTTTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
*
31494 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTGGGTGCACG
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
31559 CATAAA
196 CATAAA
*
31565 GTGTCGATACATTTAT-AAAAGTA--GATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
31627 GGTAATTTTTCAATGTAACCGGTATAAATATATC-GTTTTAAGAGAGAATAGGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
*
31691 ATCGACACTTTTTATGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
31756 CATAAA
196 CATAAA
* *
31762 GTGTCGATATATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
** * *
31827 GGTAATTTTTCAATGTAACTAGTATAAATATACCGGTTTTATAAGAGAATATGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* *
31892 ATCAACACTTTTTAAGTTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAACTAGGTGCACG
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
31957 CATAAA
196 CATAAA
* * * * * *
31963 GTGTCAATATATTTATAAAAACTATCGATCCCAAAAATATCGAAACTCATAATTATAAAGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
32028 CGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACATAATGC
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * *
32093 ATCGACACTTTTTAAGTTCGTATCGATACTTTTTGTCCAGAATGAATGCCCGAACTAGGTGCACG
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
*
32158 CAAAAA
196 CATAAA
* *
32164 GTGTCGATATATTTAT-AAAA--A---AT---------ATCGAAACCCATAATTATAATGTTATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
32214 GGTAATTTTTCAATGTAACCGGTATAAATATACAGGTTTTATGAGAGAATATGTCTCCATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* *
32279 ATCGACATTTTTTAAGTTTGTGTCGATACTTTTTGTCTAGAATGAATG------CTAGGTGCACG
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
32338 CATAAA
196 CATAAA
32344 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
32409 GGTAATTTTTCAATGTAACCAGTATATATATACCGGTTTTATGAGAGAATAGGTCTACATATTGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * *
32474 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTATTCAGAATGAATGCCCAAACTAGGTGTATG
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
32539 CATAAA
196 CATAAA
* *
32545 GTGTCGATA-ATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTAAAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
32609 GGTAAATTTCCAATGTAACTGGTATAAATATACCAGTTTTAAGAGAAAATAGGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * *
32674 ATCGAAAATTTTTAAATTTGTGTCGATACTTTTT
131 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTT
32708 TAAATTTCAC
Statistics
Matches: 1038, Mismatches: 80, Indels: 51
0.89 0.07 0.04
Matches are distributed among these distances:
180 31 0.03
181 4 0.00
183 1 0.00
186 129 0.12
195 130 0.13
197 111 0.11
198 79 0.08
200 219 0.21
201 334 0.32
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (201 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
CATAAA
Found at i:32309 original size:186 final size:185
Alignment explanation
Indices: 31995--32571 Score: 743
Period size: 186 Copynumber: 3.1 Consensus size: 185
31985 TATCGATCCC
* * *
31995 AAAAATATCGAAACTCATAATTATAAAGTAATACGTAATTTTTCAATGTAACCGGTATAAATATA
1 AAAAATATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATA
* * * *
32060 CCGGTTTTATGAGAGAATAGGTATACATAATGCATCGACACTTTTTAAGTTCGTATCGATACTTT
66 CCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTT
*
32125 TTGTCCAGAATGAATGCCCGAACTAGGTGCACGCAAAAAGTGTCGATATATTTATA
131 TTGTCCAGAATGAATGCCCGAACTAGGTGCACGCATAAAGTGTCGATA-ATTTATA
*
32181 AAAAATATCGAAACCCATAATTATAATGTTATAGGTAATTTTTCAATGTAACCGGTATAAATATA
1 AAAAATATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATA
* * * *
32246 CAGGTTTTATGAGAGAATATGTCTCCATAATGTATCGACATTTTTTAAGTTTGTGTCGATACTTT
66 CCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTT
*
32311 TTGTCTAGAATGAAT----G--CTAGGTGCACGCATAAAGTGTCGATACATTTATAA
131 TTGTCCAGAATGAATGCCCGAACTAGGTGCACGCATAAAGTGTCGATA-ATTTAT-A
32362 AAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAA
1 AAA--A---AT---------ATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAA
* * * *
32427 CCAGTATATATATACCGGTTTTATGAGAGAATAGGTCTACATATTGTATCGACACTTTTTAAATT
52 CCGGTATAAATATACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTTTAAGTT
* * * * *
32492 TGTGTCGATACTTTTTATTCAGAATGAATGCCCAAACTAGGTGTATGCATAAAGTGTCGATAATT
117 TGTGTCGATACTTTTTGTCCAGAATGAATGCCCGAACTAGGTGCACGCATAAAGTGTCGATAATT
32557 TATA
182 TATA
*
32561 AAAAGTATCGA
1 AAAAATATCGA
32572 TCCCAAAAAC
Statistics
Matches: 339, Mismatches: 31, Indels: 43
0.82 0.08 0.10
Matches are distributed among these distances:
180 31 0.09
181 4 0.01
182 1 0.00
183 1 0.00
185 5 0.01
186 134 0.40
194 1 0.00
195 127 0.37
197 1 0.00
199 4 0.01
200 6 0.02
201 24 0.07
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (185 bp):
AAAAATATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATA
CCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTTTAAGTTTGTGTCGATACTTT
TTGTCCAGAATGAATGCCCGAACTAGGTGCACGCATAAAGTGTCGATAATTTATA
Found at i:32450 original size:195 final size:195
Alignment explanation
Indices: 32181--32707 Score: 770
Period size: 200 Copynumber: 2.7 Consensus size: 195
32171 TATATTTATA
* *
32181 AAAAATATCGAAACCCATAATTATAATGTTATAGGTAATTTTTCAATGTAACCGGTATAAATATA
1 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATA
* * * * *
32246 CAGGTTTTATGAGAGAATATGTCTCCATAATGTATCGACATTTTTTAAGTTTGTGTCGATACTTT
66 CCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACAATTTTTAAATTTGTGTCGATACTTT
*
32311 TT-GTCTAGAATGAATG-CTAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATC
131 TTATTC-AGAATGAATGACTAGGTGCACGCATAAAGTGTCGATA-ATTTATAAAAAGTATCGATC
32374 CC
194 CC
* *
32376 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCAGTATATATATA
1 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATA
* *
32441 CCGGTTTTATGAGAGAATAGGTCTACATATTGTATCGACACTTTTTAAATTTGTGTCGATACTTT
66 CCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACAATTTTTAAATTTGTGTCGATACTTT
* *
32506 TTATTCAGAATGAATGCCCAAACTAGGTGTATGCATAAAGTGTCGATAATTTATAAAAAGTATCG
131 TTATTCAGAATGAATG-----ACTAGGTGCACGCATAAAGTGTCGATAATTTATAAAAAGTATCG
32571 ATCCC
191 ATCCC
* * * * *
32576 AAAAACATCGAAACCGATAATTAAAATGTAATAGGTAAATTTCCAATGTAACTGGTATAAATATA
1 AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATA
* * * *
32641 CCAGTTTTAAGAGAAAATAGGTCTACATAATGTATCGAAAATTTTTAAATTTGTGTCGATACTTT
66 CCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACAATTTTTAAATTTGTGTCGATACTTT
32706 TT
131 TT
32708 TAAATTTCAC
Statistics
Matches: 299, Mismatches: 26, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
195 132 0.44
196 2 0.01
200 141 0.47
201 24 0.08
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (195 bp):
AAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAATATA
CCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACAATTTTTAAATTTGTGTCGATACTTT
TTATTCAGAATGAATGACTAGGTGCACGCATAAAGTGTCGATAATTTATAAAAAGTATCGATCCC
Found at i:32480 original size:381 final size:382
Alignment explanation
Indices: 31794--32707 Score: 1267
Period size: 381 Copynumber: 2.3 Consensus size: 382
31784 TATCGATCCC
*
31794 AAAAATATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACTAGTATAAATATA
1 AAAAATATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACTGGTATAAATATA
* * * *
31859 CCGGTTTTATAAGAGAATATGTCTACATAATGTATCAACACTTTTTAAGTTTGTGTCGATACTTT
66 CAGGTTTTATGAGAGAATATGTCTACATAATGTATCGACAATTTTTAAGTTTGTGTCGATACTTT
*
31924 TTGTCTAGAATGAATGCCCAAACTAGGTGCACGCATAAAGTGTCAATATATTTATAAAAACTATC
131 TTGTCTAGAATGAATG-----ACTAGGTGCACGCATAAAGTGTCAATACATTTATAAAAACTATC
* * *
31989 GATCCCAAAAATATCGAAACTCATAATTATAAAGTAATACGTAATTTTTCAATGTAACCGGTATA
191 GATCCCAAAAACATCGAAACCCATAATTATAAAGTAATACGTAATTTTTCAATGTAACCAGTATA
*
32054 AATATACCGGTTTTATGAGAGAATAGGTATACATAATGCATCGACACTTTTTAAGTTCGTATCGA
256 AATATACCGGTTTTATGAGAGAATAGGTATACATAATGCATCGACACTTTTTAAATTCGTATCGA
* *
32119 TACTTTTTGTCCAGAATGAATGCCCGAACTAGGTGCACGCAAAAAGTGTCGATATATTTAT-A
321 TACTTTTTATCCAGAATGAATGCCCAAACTAGGTGCACGCAAAAAGTGTCGATA-ATTTATAA
* *
32181 AAAAATATCGAAACCCATAATTATAATGTTATAGGTAATTTTTCAATGTAACCGGTATAAATATA
1 AAAAATATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACTGGTATAAATATA
* *
32246 CAGGTTTTATGAGAGAATATGTCTCCATAATGTATCGACATTTTTTAAGTTTGTGTCGATACTTT
66 CAGGTTTTATGAGAGAATATGTCTACATAATGTATCGACAATTTTTAAGTTTGTGTCGATACTTT
* *
32311 TTGTCTAGAATGAATG-CTAGGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCC
131 TTGTCTAGAATGAATGACTAGGTGCACGCATAAAGTGTCAATACATTTATAAAAACTATCGATCC
* * *
32375 CAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCAGTATATATAT
196 CAAAAACATCGAAACCCATAATTATAAAGTAATACGTAATTTTTCAATGTAACCAGTATAAATAT
* * * * *
32440 ACCGGTTTTATGAGAGAATAGGTCTACATATTGTATCGACACTTTTTAAATTTGTGTCGATACTT
261 ACCGGTTTTATGAGAGAATAGGTATACATAATGCATCGACACTTTTTAAATTCGTATCGATACTT
* * * *
32505 TTTATTCAGAATGAATGCCCAAACTAGGTGTATGCATAAAGTGTCGATAATTTATAA
326 TTTATCCAGAATGAATGCCCAAACTAGGTGCACGCAAAAAGTGTCGATAATTTATAA
* * * *
32562 AAAGTATCGATCCCAAAAACATCGAAACCGATAATTAAAATGTAATAGGTAAATTTCCAATGTAA
1 AAA--A---AT---------ATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAA
* * * * *
32627 CTGGTATAAATATACCA-GTTTTAAGAGAAAATAGGTCTACATAATGTATCGAAAATTTTTAAAT
52 CTGGTATAAATATA-CAGGTTTTATGAGAGAATATGTCTACATAATGTATCGACAATTTTTAAGT
32691 TTGTGTCGATACTTTTT
116 TTGTGTCGATACTTTTT
32708 TAAATTTCAC
Statistics
Matches: 469, Mismatches: 42, Indels: 24
0.88 0.08 0.04
Matches are distributed among these distances:
380 6 0.01
381 210 0.45
383 1 0.00
386 2 0.00
387 138 0.29
395 110 0.23
396 2 0.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (382 bp):
AAAAATATCGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACTGGTATAAATATA
CAGGTTTTATGAGAGAATATGTCTACATAATGTATCGACAATTTTTAAGTTTGTGTCGATACTTT
TTGTCTAGAATGAATGACTAGGTGCACGCATAAAGTGTCAATACATTTATAAAAACTATCGATCC
CAAAAACATCGAAACCCATAATTATAAAGTAATACGTAATTTTTCAATGTAACCAGTATAAATAT
ACCGGTTTTATGAGAGAATAGGTATACATAATGCATCGACACTTTTTAAATTCGTATCGATACTT
TTTATCCAGAATGAATGCCCAAACTAGGTGCACGCAAAAAGTGTCGATAATTTATAA
Found at i:32544 original size:582 final size:583
Alignment explanation
Indices: 31364--32707 Score: 2020
Period size: 582 Copynumber: 2.3 Consensus size: 583
31354 GTAAACAAAT
*
31364 GTGTCGATACATTTAT-AAAACGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATA-ATTTATAAAAAC-TATCGATCCCAAAAACATCGAAA-CCATAATTATAAAGTAAT
* *
31428 AGGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTTTACATAATG
63 AGGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACATAATG
*
31493 TATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTGGGTGCAC
128 TATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCAC
* *
31558 GCATAAAGTGTCGATACATTTATAAAAGTAGATCCCAAAAACATCGAAACTCATAATTATAATGT
193 GCAAAAAGTGTCGATACATTTATAAAAG-AGAT-------A-ATCGAAACCCATAATTATAATGT
31623 AATAGGTAATTTTTCAATGTAACCGGTATAAATATATCGTTTTAAGAGAGAATAGGTCTACATAA
249 AATAGGTAATTTTTCAATGTAACCGGTATAAATATATCGTTTTAAGAGAGAATAGGTCTACATAA
*
31688 TGTATCGACACTTTTTATGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGC
314 TGTATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATG-----ACTAGGTGC
* *
31753 ACGCATAAAGTGTCGATATATTTATAAAAAGTATCGATCCCAAAAATATCGAAACCCATAATTAT
374 ACGCATAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTAT
* *
31818 AATGTAATAGGTAATTTTTCAATGTAACTAGTATAAATATACCGGTTTTATAAGAGAATATGTCT
439 AATGTAATAGGTAATTTTTCAATGTAACCAGTATAAATATACCGGTTTTATAAGAGAATAGGTCT
*
31883 ACATAATGTATCAACACTTTTTAAGTTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAACT
504 ACATAATGTATCAACACTTTTTAAATTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAACT
31948 AGGTGCACGCATAAA
569 AGGTGCACGCATAAA
* *
31963 GTGTCAATATATTTATAAAAACTATCGATCCCAAAAATATCGAAACTCATAATTATAAAGTAATA
1 GTGTCGATA-ATTTATAAAAACTATCGATCCCAAAAACATCGAAAC-CATAATTATAAAGTAATA
* *
32028 CGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACATAATGC
64 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACATAATGT
* * *
32093 ATCGACACTTTTTAAGTTCGTATCGATACTTTTTGTCCAGAATGAATGCCCGAACTAGGTGCACG
129 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
* *
32158 CAAAAAGTGTCGATATATTTATAAAA-A-AT-ATCGAAACCCATAATTATAATGTTATAGGTAAT
194 CAAAAAGTGTCGATACATTTATAAAAGAGATAATCGAAACCCATAATTATAATGTAATAGGTAAT
* * *
32220 TTTTCAATGTAACCGGTATAAATATA-CAGGTTTTATGAGAGAATATGTCTCCATAATGTATCGA
259 TTTTCAATGTAACCGGTATAAATATATC--GTTTTAAGAGAGAATAGGTCTACATAATGTATCGA
* *
32284 CATTTTTTAAGTTTGTGTCGATACTTTTTGTCTAGAATGAATG-CTAGGTGCACGCATAAAGTGT
322 CACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGACTAGGTGCACGCATAAAGTGT
32348 CGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
387 CGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTA
* * * *
32413 ATTTTTCAATGTAACCAGTATATATATACCGGTTTTATGAGAGAATAGGTCTACATATTGTATCG
452 ATTTTTCAATGTAACCAGTATAAATATACCGGTTTTATAAGAGAATAGGTCTACATAATGTATCA
* * *
32478 ACACTTTTTAAATTTGTGTCGATACTTTTTAT-TCAGAATGAATGCCCAAACTAGGTGTATGCAT
517 ACACTTTTTAAATTTGTGTCGATACTTTTTGTCT-AGAATGAATGCCCAAACTAGGTGCACGCAT
32542 AAA
581 AAA
*
32545 GTGTCGATAATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTA-AAATGTAATA
1 GTGTCGATAATTTATAAAAACTATCGATCCCAAAAACATCGAAACC-ATAATTATAAA-GTAATA
* * * * * * *
32609 GGTAAATTTCCAATGTAACTGGTATAAATATACCAGTTTTAAGAGAAAATAGGTCTACATAATGT
64 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACATAATGT
* * *
32674 ATCGAAAATTTTTAAATTTGTGTCGATACTTTTT
129 ATCGACACTTTTTAAGTTTGTGTCGATACTTTTT
32708 TAAATTTCAC
Statistics
Matches: 687, Mismatches: 51, Indels: 32
0.89 0.07 0.04
Matches are distributed among these distances:
580 4 0.01
581 133 0.19
582 212 0.31
586 1 0.00
587 57 0.08
588 72 0.10
596 2 0.00
597 1 0.00
598 1 0.00
599 199 0.29
600 5 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (583 bp):
GTGTCGATAATTTATAAAAACTATCGATCCCAAAAACATCGAAACCATAATTATAAAGTAATAGG
TAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGAGAGAATAGGTATACATAATGTAT
CGACACTTTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACGCA
AAAAGTGTCGATACATTTATAAAAGAGATAATCGAAACCCATAATTATAATGTAATAGGTAATTT
TTCAATGTAACCGGTATAAATATATCGTTTTAAGAGAGAATAGGTCTACATAATGTATCGACACT
TTTTAAGTTTGTGTCGATACTTTTTGTCCAGAATGAATGACTAGGTGCACGCATAAAGTGTCGAT
ACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTT
TTCAATGTAACCAGTATAAATATACCGGTTTTATAAGAGAATAGGTCTACATAATGTATCAACAC
TTTTTAAATTTGTGTCGATACTTTTTGTCTAGAATGAATGCCCAAACTAGGTGCACGCATAAA
Found at i:37353 original size:198 final size:198
Alignment explanation
Indices: 36866--38237 Score: 1746
Period size: 198 Copynumber: 7.0 Consensus size: 198
36856 TCAGTAATCT
* * * *
36866 CCAGAATGAATGCCCAACCGAGGTGCATGAATAAAGTGTTGATGCATTTATTAAAAGTATCGATC
1 CCAGAATGAATGCCCAA-CGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* *
36931 CCAAAAACATCGAATA-AGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGT--ATAT
65 CCAAAAACATCGAA-ACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * ** * * *
36993 GTATCAATTAATTAG-AAATATGTCTACGTAATATATCGACACTTTTAAA-TTGTGTCGATACTT
129 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTAAATTTGTGTCGATACTT
*
37056 TTTGT
194 TTTGA
*
37061 CCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
1 CCAGAATGAATGCCCAA-CGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* *
37126 CCAAAAACATCGAATA-AGATAATTATAATGTAATACGTAAATTTACAATGTAACCGGTAGAAAT
65 CCAAAAACATCGAA-ACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
*
37190 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTAAATTTGTGTCGATACGT
129 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTAAATTTGTGTCGATACTT
37255 TTTGA
194 TTTGA
* * * *
37260 CCAGAATGAATGCCCAACGATGTGCACAAATAAAGTATCGATACATTTATAAAACGTATCGATCC
1 CCAGAATGAATGCCCAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCC
* * *
37325 CAAAAACATCGAAACCGATAAATATAATGTAATAGGTAAATTTTCAATATAACCGGTAGAAATAT
66 CAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATAT
* * * * *
37390 ACCGGATAATTAGAGAATAGGTCTACATCATGTATCGACACTTGTGAAATTTGTGTCGATATTTT
131 ACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTT-TTAAATTTGTGTCGATACTTT
*
37455 TTGT
195 TTGA
* * * **
37459 CCAGAATGAATGCCTAA--AAGTGCAC-ACATAAAGTGTCGATACATTGA-AAATGGTATCGATC
1 CCAGAATGAATGCCCAACGAGGTGCACGA-ATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* *
37520 CCAAAAACATCGAAACCGAAAATTATAATGTAATAGGTAACTTTAC-ATGTAACCGGTAGAAATA
65 CCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATA
* *
37584 TACCGGTTAATTAGAAAATATGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACGT
130 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACAC-TTTTAAATTTGTGTCGATACTT
37649 TTTGA
194 TTTGA
* * * * * ** * *
37654 CCAGAAAGAATGCCCAACGGGGTGTACGAATAAAGTATCAATACATTTA-AAATTGTATTGATCT
1 CCAGAATGAATGCCCAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCC
*
37718 CAAAAACATCGAAACCGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAATAT
66 CAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATAT
* * **
37783 ACCGGTTAATTAGAAAATAGGTCTACATCATTTATCGACACTTGTGGAATTTGTGTCGATACTTT
131 ACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTT-TTAAATTTGTGTCGATACTTT
*
37848 TTGT
195 TTGA
* * * * ** **
37852 CTAGAATGAATGCCTAA-AAGAGTGCACGCATAAAGTGTTAATACATTTA-AAATTGTATCGATC
1 CCAGAATGAATGCCCAACGAG-GTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* *
37915 CCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAAAT
65 CCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAG-AAAT
* * * * * *
37980 ATA-CTGTTAATTAGAAAATAAGTCTACATAATGTATAGAC-TTTTTAAATTTGTGTCAATACGT
129 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTAAATTTGTGTCGATACTT
38043 TTTGA
194 TTTGA
** * * * *
38048 CCAGAAAAAATGCCTAACGGGGTGTACGAATAAAGTGTCAATACATTTATAAAAAGTATCGATCC
1 CCAGAATGAATGCCCAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCC
* * * *
38113 CATAAACATCGAAACCGATAAATATAATATAATAGGTAAATTTTCAATGTAACCGGTAGAAATAT
66 CAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATAT
*
38178 ACCGGTTAA-T------TAGGTCTACATAATGTATCGACACTATTTAAAGTTGTGTCGATACTTT
131 ACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACT-TTTAAATTTGTGTCGATACTTT
38236 TT
195 TT
38238 TAAATTACCC
Statistics
Matches: 1040, Mismatches: 117, Indels: 43
0.87 0.10 0.04
Matches are distributed among these distances:
190 20 0.02
191 1 0.00
192 21 0.02
195 208 0.20
196 124 0.12
197 196 0.19
198 393 0.38
199 77 0.07
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (198 bp):
CCAGAATGAATGCCCAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATCC
CAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATAT
ACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTAAATTTGTGTCGATACTTTT
TGA
Found at i:37592 original size:393 final size:392
Alignment explanation
Indices: 36866--38237 Score: 1812
Period size: 393 Copynumber: 3.5 Consensus size: 392
36856 TCAGTAATCT
* * * ** *
36866 CCAGAATGAATGCCCAACCGAGGTGCATGAATAAAGTGTTGATGCATTTATTAAAAGTATCGATC
1 CCAGAAAGAATGCCCAA-CGAGGTGCACGAATAAAGTATCAATACATTTA-TAAAAGTATCGATC
* * *
36931 CCAAAAACATCGAATA-AGATAATTATAATGTAATAGGTAAATTTACAATGTAACCGGT--ATAT
64 CCAAAAACATCGAA-ACCGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAAT
* * * * * * *
36993 GTATC-AATTAATTAGAAATATGTCTACGTAATATATCGACACTT-TTAAA-TTGTGTCGATACT
128 ATACCGGA-TAATTAGAAATAGGTCTACATCATATATCGACACTTGTGAAATTTGTGTCGATACT
* *
37055 TTTTGTCCAGAATGAATGACC-AACCGAGGTGCACGA-ATAAAGTGTCGATACATTTATAAAAAG
192 TTTTGTCCAGAATGAATG-CCTAA---AAGTGCAC-ACATAAAGTGTCGATACATTTA-AAATAG
* *
37118 TATCGATCCCAAAAACATCGAATA-AGATAATTATAATGTAATACGTAAATTTACAATGTAACCG
251 TATCGATCCCAAAAACATCGAA-ACAGATAATTATAATGTAATAGGTAACTTTACAATGTAACCG
*
37182 GTAGAAATATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTAAATTTGTGT
315 GTAGAAATATACCGGTTAATTAGAAAATAAGTCTACATAATGTATCGACACTTTTAAATTTGTGT
37247 CGATACGTTTTGA
380 CGATACGTTTTGA
* * * *
37260 CCAGAATGAATGCCCAACGATGTGCACAAATAAAGTATCGATACATTTATAAAACGTATCGATCC
1 CCAGAAAGAATGCCCAACGAGGTGCACGAATAAAGTATCAATACATTTATAAAA-GTATCGATCC
* *
37325 CAAAAACATCGAAACCGATAAATATAATGTAATAGGTAAATTTTCAATATAACCGGTAGAAATAT
65 CAAAAACATCGAAACCGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATAT
* *
37390 ACCGGATAATTAGAGAATAGGTCTACATCATGTATCGACACTTGTGAAATTTGTGTCGATATTTT
130 ACCGGATAATTAGA-AATAGGTCTACATCATATATCGACACTTGTGAAATTTGTGTCGATACTTT
* *
37455 TTGTCCAGAATGAATGCCTAAAAGTGCACACATAAAGTGTCGATACATTGAAAATGGTATCGATC
194 TTGTCCAGAATGAATGCCTAAAAGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCGATC
* *
37520 CCAAAAACATCGAAACCGAAAATTATAATGTAATAGGTAACTTTAC-ATGTAACCGGTAGAAATA
259 CCAAAAACATCGAAACAGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAATA
*
37584 TACCGGTTAATTAGAAAATATGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACGT
324 TACCGGTTAATTAGAAAATAAGTCTACATAATGTATCGACAC-TTTTAAATTTGTGTCGATACGT
37649 TTTGA
388 TTTGA
* * * * *
37654 CCAGAAAGAATGCCCAACGGGGTGTACGAATAAAGTATCAATACATTTA-AAATTGTATTGATCT
1 CCAGAAAGAATGCCCAACGAGGTGCACGAATAAAGTATCAATACATTTATAAA-AGTATCGATCC
* *
37718 CAAAAACATCGAAACCGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAATAT
65 CAAAAACATCGAAACCGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATAT
* * *
37783 ACCGGTTAATTAGAAAATAGGTCTACATCATTTATCGACACTTGTGGAATTTGTGTCGATACTTT
130 ACCGGATAATTAG-AAATAGGTCTACATCATATATCGACACTTGTGAAATTTGTGTCGATACTTT
* * ** *
37848 TTGTCTAGAATGAATGCCTAAAAGAGTGCACGCATAAAGTGTTAATACATTTAAAATTGTATCGA
194 TTGTCCAGAATGAATGCCT-AAA-AGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCGA
*
37913 TCCCAAAAACATCGAAACTGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAA
257 TCCCAAAAACATCGAAACAGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAG-AA
* * * *
37978 ATATA-CTGTTAATTAGAAAATAAGTCTACATAATGTATAGAC-TTTTTAAATTTGTGTCAATAC
321 ATATACCGGTTAATTAGAAAATAAGTCTACATAATGTATCGACACTTTTAAATTTGTGTCGATAC
38041 GTTTTGA
386 GTTTTGA
* * * * *
38048 CCAGAAAAAATGCCTAACGGGGTGTACGAATAAAGTGTCAATACATTTATAAAAAGTATCGATCC
1 CCAGAAAGAATGCCCAACGAGGTGCACGAATAAAGTATCAATACATTTAT-AAAAGTATCGATCC
* * *
38113 CATAAACATCGAAACCGATAAATATAATATAATAGGTAAATTTTCAATGTAACCGGTAGAAATAT
65 CAAAAACATCGAAACCGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATAT
* * * * *
38178 ACCGG----TT--AATTAGGTCTACATAATGTATCGACACTAT-TTAAAGTTGTGTCGATACTTT
130 ACCGGATAATTAGAAATAGGTCTACATCATATATCGACACT-TGTGAAATTTGTGTCGATACTTT
38236 TT
194 TT
38238 TAAATTACCC
Statistics
Matches: 881, Mismatches: 76, Indels: 48
0.88 0.08 0.05
Matches are distributed among these distances:
388 45 0.05
389 1 0.00
391 2 0.00
392 6 0.01
393 296 0.34
394 216 0.25
395 195 0.22
396 75 0.09
397 13 0.01
398 32 0.04
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (392 bp):
CCAGAAAGAATGCCCAACGAGGTGCACGAATAAAGTATCAATACATTTATAAAAGTATCGATCCC
AAAAACATCGAAACCGATAAATATAATGTAATAGGTAAATTTACAATGTAACCGGTAGAAATATA
CCGGATAATTAGAAATAGGTCTACATCATATATCGACACTTGTGAAATTTGTGTCGATACTTTTT
GTCCAGAATGAATGCCTAAAAGTGCACACATAAAGTGTCGATACATTTAAAATAGTATCGATCCC
AAAAACATCGAAACAGATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAGAAATATA
CCGGTTAATTAGAAAATAAGTCTACATAATGTATCGACACTTTTAAATTTGTGTCGATACGTTTT
GA
Found at i:39838 original size:19 final size:19
Alignment explanation
Indices: 39814--39858 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
39804 ATGTAGGGGA
39814 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
*
39833 AATTTTGTATACGATTTAT
1 AATTTTGTATACGATTCAT
39852 AATTTTG
1 AATTTTG
39859 AATGTGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Found at i:40882 original size:15 final size:15
Alignment explanation
Indices: 40862--40897 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
40852 GTGTTTTAGT
40862 GCATTCGCGAGTGAA
1 GCATTCGCGAGTGAA
40877 GCATTCGCGAGTGAA
1 GCATTCGCGAGTGAA
40892 GCATTC
1 GCATTC
40898 ATAGACTCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (15 bp):
GCATTCGCGAGTGAA
Found at i:42965 original size:197 final size:198
Alignment explanation
Indices: 42584--43051 Score: 585
Period size: 197 Copynumber: 2.4 Consensus size: 198
42574 AATATGTTTC
* *
42584 GATACATTT-TCTAAAAGTATCGACCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTA
1 GATACATTTAT-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTA
* * *
42648 AATTAACAATGTAACCGATATAAATATACCGGTTAATTACAAAACAGGTAAACATAATGTATCGA
65 AATTTACAATGTAACCGATATAAATATACCGGTTAATGACAAAACAGGTAAACATAATGTATCCA
* *
42713 CTTGTGGAATTTGTGTCGATACTTATTGTCAAGAATGAATGCCCAAACGAGGTGCACGCATAAAG
130 CTTGTGAAATATGTGTCGATACTTATTGTCAAGAATGAATGCCCAAACGAGGTGCACGCATAAAG
42778 TGTA
195 TGTA
* *
42782 GATACATTTATTAAAAGTATCGATCCC-AAAACATCGAAACCGATAATAATGATGTAATAGGTAA
1 GATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAA
* * * * * *
42846 ATTTACAATGTAACCGATATAAATATACTGGTTTTATGAGAGAATAGGTCAACATAATGTATCAA
66 ATTTACAATGTAACCGATATAAATATACCGG-TTAATGACAAAACAGGTAAACATAATGTATC--
* * * * * * * *
42911 CACTTTTTAAATATGTGTCGATA-TTTTTTTCCA-TATGAATGCCC-AACTAGGTGCACGTATAA
128 CACTTGTGAAATATGTGTCGATACTTATTGTCAAGAATGAATGCCCAAACGAGGTGCACGCATAA
*
42973 AGTGTC
193 AGTGTA
* *
42979 GATACATTTA--AAATTGTAT-GATCCCAAAAACATCGAAAACGATAATTATAATGT-ATAGGTA
1 GATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTA
*
43040 AATTTGCAATGT
65 AATTTACAATGT
43052 TCGGTATAAA
Statistics
Matches: 235, Mismatches: 29, Indels: 15
0.84 0.10 0.05
Matches are distributed among these distances:
195 27 0.11
196 29 0.12
197 94 0.40
198 59 0.25
199 8 0.03
200 18 0.08
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (198 bp):
GATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAA
ATTTACAATGTAACCGATATAAATATACCGGTTAATGACAAAACAGGTAAACATAATGTATCCAC
TTGTGAAATATGTGTCGATACTTATTGTCAAGAATGAATGCCCAAACGAGGTGCACGCATAAAGT
GTA
Found at i:43188 original size:85 final size:85
Alignment explanation
Indices: 43090--43248 Score: 273
Period size: 85 Copynumber: 1.9 Consensus size: 85
43080 AAAATAGGTC
* * *
43090 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGAACTAGATAATATTT
43155 CCGGTTAAATGCCTATTTTT
66 CCGGTTAAATGCCTATTTTT
*
43175 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGAACTAGATGATATTT
1 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGAACTAGATAATATTT
*
43240 TCGGTTAAA
66 CCGGTTAAA
43249 ATATAAATAA
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (85 bp):
ATATAAGCACTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGAACTAGATAATATTT
CCGGTTAAATGCCTATTTTT
Found at i:43222 original size:23 final size:23
Alignment explanation
Indices: 43173--43216 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43163 ATGCCTATTT
*
43173 TTATATAAGCACTACCTATTACA
1 TTATATAAGCACTACCTAATACA
*
43196 TTATATAAGCGCTACCTAATA
1 TTATATAAGCACTACCTAATA
43217 TGTTATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (23 bp):
TTATATAAGCACTACCTAATACA
Done.