Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold70
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: 1110102
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 46923 characters in sequence are not A, C, G, or T
File 1 of 7
Found at i:434 original size:52 final size:54
Alignment explanation
Indices: 325--456 Score: 139
Period size: 52 Copynumber: 2.5 Consensus size: 54
315 GTTTGCTCAA
* * * **
325 TTCTCCACAATCGAGGATATTCCAACTCCGATTTTTACTTTCAAAACATTAATT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTTACTTTCAAAACACCAATT
*
379 TTC-T-ATAATCGGGGATACTCCAACTCCGA-TTTTA-TTTCCAAAAAACACCAA-T
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTTACTTT-C--AAAACACCAATT
*
431 TTCTTCACAATCGGGGACACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
457 CCCCGTTATT
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
50 3 0.05
51 6 0.09
52 26 0.40
53 9 0.14
54 21 0.32
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (54 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTTACTTTCAAAACACCAATT
Found at i:3597 original size:28 final size:28
Alignment explanation
Indices: 3557--3628 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
3547 GAAAAAAAAT
* ** *
3557 CGGGATTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3585 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
3613 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
3629 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:3679 original size:52 final size:51
Alignment explanation
Indices: 3617--3961 Score: 191
Period size: 52 Copynumber: 6.6 Consensus size: 51
3607 AAATAACGAG
*
3617 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-TTTTTGGAAATAAAATCGGA
** * ** * *
3669 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGG-
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTTTTTTGGAAATAAAATCGGA
* * * ** * *
3720 GATTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCGATAAAACCGGG
1 G-TTGGAGTATCCCCGATTGTG-AAAAATTGGTTTTTTGGAAATAAAATCGGA
* * * **** * * *
3773 GTTGGAGTATCCCC--TCG-AAAATAACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTATCCCCGATTGTGAAA-AA-----TT-G-GTTTTTTGGA-AATAAAATCGGA
3828 GTTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATT-G-GTTTTTTGGAAATAAAATCGGA
* * * * *
3882 GTTAGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTTTTTTGGAAATAAAATCGGA
* * *
3933 GTTGGAATATCCTCGATTGTGAAGAATTG
1 GTTGGAGTATCCCCGATTGTGAAAAATTG
3962 AGAAACTCAA
Statistics
Matches: 222, Mismatches: 50, Indels: 43
0.70 0.16 0.14
Matches are distributed among these distances:
48 3 0.01
49 2 0.01
50 2 0.01
51 43 0.19
52 88 0.40
53 26 0.12
54 24 0.11
55 18 0.08
56 6 0.03
57 5 0.02
58 4 0.02
59 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTTTTTTGGAAATAAAATCGGA
Found at i:3743 original size:104 final size:102
Alignment explanation
Indices: 3618--3961 Score: 284
Period size: 104 Copynumber: 3.3 Consensus size: 102
3608 AATAACGAGG
*
3618 TTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTGTGAAAAATTGGT-TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
*
3683 GATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGGGA
65 GATTAAAGGAAAATTGGAGTTTTGAAAATAAAA-CGGGA
* * * ** * *
3722 TTGGAGTATCCCCGATTGTGAAAAAATTAGTGTTTTAGCGATAAAACCGGGGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTGTG-AAAAATTGGTTTTTTGGAAATAAAATCGGAGTTGGAGTAT-CCC
* * ** ** ** * *
3787 TCGAAAATAACGG--GGTTGGAGTATCCCCGATGAT-TAACGGGG
64 -CG--ATTAAAGGAAAATTGGAGT-T--TTGAAAATAAAACGGGA
*
3829 TTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCC
1 TTGGAGTATCCCCGATTGTGAA-AAATT-G-GTTTTTTGGAAATAAAATCGGAGTTGGAGTATCC
* * *
3894 CCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATC-GGA
63 CCGATTAAAGGAAAATTGGAGTTTTGAAAATAAAA-CGGGA
* * *
3933 GTTGGAATATCCTCGATTGTGAAGAATTG
1 -TTGGAGTATCCCCGATTGTGAAAAATTG
3962 AGAAACTCAA
Statistics
Matches: 181, Mismatches: 43, Indels: 33
0.70 0.17 0.13
Matches are distributed among these distances:
103 5 0.03
104 52 0.29
105 37 0.20
106 15 0.08
107 32 0.18
108 11 0.06
109 29 0.16
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (102 bp):
TTGGAGTATCCCCGATTGTGAAAAATTGGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCG
ATTAAAGGAAAATTGGAGTTTTGAAAATAAAACGGGA
Found at i:3832 original size:27 final size:27
Alignment explanation
Indices: 3760--3844 Score: 111
Period size: 27 Copynumber: 3.1 Consensus size: 27
3750 AGTGTTTTAG
*
3760 CGATAAA-ACCGGGGTTGGAGTATCCCC
1 CGATAAATAACGGGGTTGGAGTAT-CCC
3787 TCGA-AAATAACGGGGTTGGAGTATCCC
1 -CGATAAATAACGGGGTTGGAGTATCCC
* *
3814 CGATGATTAACGGGGTTGGAGTATCCC
1 CGATAAATAACGGGGTTGGAGTATCCC
3841 CGAT
1 CGAT
3845 TGTGAAGAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 3 0.06
27 31 0.60
28 18 0.35
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (27 bp):
CGATAAATAACGGGGTTGGAGTATCCC
Found at i:3919 original size:212 final size:212
Alignment explanation
Indices: 3552--3955 Score: 618
Period size: 212 Copynumber: 1.9 Consensus size: 212
3542 TAGAAGAAAA
* * *
3552 AAAATCGGGATTGGAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
1 AAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
* *
3617 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCC
66 GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCC
* *
3682 CGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCGG-GATTGGAGTATCCCCGATTGTGAAAA
131 CGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAG-TTGGAATATCCCCGATTGTGAAAA
3746 AATTAGTGTTTTAGCGAT
195 AATTAGTGTTTTAGCGAT
* * *
3764 AAAACCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGG
1 AAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
3828 GTTGGAGTATCCCCGATTGTGAAGAAATTAGTGT-TTTTTGGAAATAAAATCGGAGTTAGAGTAT
66 GTTGGAGTATCCCCGATTGTGAA-AAATT-G-GTATTTTTGGAAATAAAATCGGAGTTAGAGTAT
* * * *
3892 CCCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCTCGATTGTGAA
128 CCCCGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGAA
3956 GAATTGAGAA
Statistics
Matches: 174, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
211 29 0.17
212 102 0.59
213 41 0.24
214 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (212 bp):
AAAACCGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAG
GTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCC
CGATTAAAGGAAAATTAGCGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGAAAAA
ATTAGTGTTTTAGCGAT
Found at i:3928 original size:51 final size:53
Alignment explanation
Indices: 3832--3958 Score: 161
Period size: 51 Copynumber: 2.4 Consensus size: 53
3822 AACGGGGTTG
* *
3832 GAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGAGTTA
*
3886 GAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGGAGTTG
1 GAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
* * *
3937 GAATATCCTCGATTGTGAAGAA
1 GAGTATCCCCGATTATGAAGAA
3959 TTGAGAAACT
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
51 34 0.53
52 4 0.06
53 11 0.17
54 15 0.23
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.31
Consensus pattern (53 bp):
GAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGAGTTA
Found at i:6323 original size:13 final size:13
Alignment explanation
Indices: 6305--6330 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6295 ACAAAGATCC
6305 ATGTATCGATACA
1 ATGTATCGATACA
6318 ATGTATCGATACA
1 ATGTATCGATACA
6331 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6326 original size:33 final size:33
Alignment explanation
Indices: 6284--6350 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
6274 AAAATTTCCA
***
6284 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
6317 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
6350 A
1 A
6351 TAGAAAAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:6371 original size:20 final size:20
Alignment explanation
Indices: 6317--6371 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
6307 GTATCGATAC
*
6317 AATGTATCGATACACAGAAA
1 AATGTATCGATACATAGAAA
6337 AATGTATCGATACATAGAAA
1 AATGTATCGATACATAGAAA
6357 AATGTATCGATACAT
1 AATGTATCGATACAT
6372 TTCCTTGGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.47, C:0.13, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACATAGAAA
Found at i:6414 original size:19 final size:18
Alignment explanation
Indices: 6390--6457 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
6380 CAGTAGCTAA
6390 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
6409 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
6424 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
6441 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
6458 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:6430 original size:13 final size:13
Alignment explanation
Indices: 6412--6436 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6402 ACAATACTTA
6412 TGTATCGATACAT
1 TGTATCGATACAT
6425 TGTATCGATACA
1 TGTATCGATACA
6437 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6434 original size:32 final size:32
Alignment explanation
Indices: 6393--6455 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
6383 TAGCTAATTA
*
6393 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
6425 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
6456 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:6537 original size:21 final size:21
Alignment explanation
Indices: 6513--6569 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
6503 CATTTGTAGG
6513 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
6534 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
6555 ATGTATCGATACATT
1 ATGTATCGATACATT
6570 TGGATAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:7376 original size:55 final size:55
Alignment explanation
Indices: 7292--7912 Score: 995
Period size: 55 Copynumber: 11.3 Consensus size: 55
7282 AAAGTGTATT
* * *
7292 CTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTC
1 CTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
*
7347 CTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
7402 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* *
7457 CTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
7512 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
*
7567 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTATGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
*
7622 CTGCTCTTTGAAGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
7677 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
*
7732 CTGCTATTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
1 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
* * **
7787 CTGCTCTTCGGGGACT-GAAGGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGGAA-AATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
* *
7842 CTGCTCTTTGAGGAC-CGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTC
1 CTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTC
7897 CTGCTCTTTGAGGACT
1 CTGCTCTTTGAGGACT
7913 AAAAAGCGGA
Statistics
Matches: 535, Mismatches: 22, Indels: 17
0.93 0.04 0.03
Matches are distributed among these distances:
54 7 0.01
55 522 0.98
56 6 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (55 bp):
CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTC
Found at i:8898 original size:1 final size:1
Alignment explanation
Indices: 8894--8965 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
8884 CTTTTCTCTC
* * * * * * ** * *
8894 TTTTTCTTTGTTTTGTTTTTTTTGTTTTGTTTTTTTTTCTTTTTTTTTGCTCTTTTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
8959 TTTTTTT
1 TTTTTTT
8966 GAAGAGAAGG
Statistics
Matches: 52, Mismatches: 19, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (1 bp):
T
Found at i:8927 original size:14 final size:14
Alignment explanation
Indices: 8894--8930 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
8884 CTTTTCTCTC
8894 TTTTTCTTTGTTTTG
1 TTTTT-TTTGTTTTG
8909 TTTTTTTTGTTTTG
1 TTTTTTTTGTTTTG
8923 TTTTTTTT
1 TTTTTTTT
8931 TCTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.00, C:0.03, G:0.11, T:0.86
Consensus pattern (14 bp):
TTTTTTTTGTTTTG
Found at i:8950 original size:24 final size:25
Alignment explanation
Indices: 8876--8966 Score: 78
Period size: 25 Copynumber: 3.5 Consensus size: 25
8866 CTTAAGCAGG
* *
8876 TTCTTTTTCTTTTCTCTCTTTTTCTTTG
1 TTCTTTTT-TTTT-GCTCTTTTT-TTTC
* * *
8904 TTTTGTTTTTTTTG-TTTTGTTTTTTT
1 TTCT-TTTTTTTTGCTCTT-TTTTTTC
8930 TTCTTTTTTTTTGCTCTTTTTTTTC
1 TTCTTTTTTTTTGCTCTTTTTTTTC
8955 TT-TTTTTTTTTG
1 TTCTTTTTTTTTG
8967 AAGAGAAGGT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
24 10 0.19
25 17 0.32
26 12 0.23
27 3 0.06
28 7 0.13
29 4 0.08
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.82
Consensus pattern (25 bp):
TTCTTTTTTTTTGCTCTTTTTTTTC
Found at i:21466 original size:28 final size:28
Alignment explanation
Indices: 21426--21497 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
21416 AAAAACAAAT
* ** *
21426 CGGGATTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
21454 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
21482 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
21498 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:21670 original size:28 final size:27
Alignment explanation
Indices: 21638--21712 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
21628 GCGATAAAAC
* **
21638 CGGGGTTAGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGAGG-AATAA
* *
21666 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGAGGAATAA
21693 CGGGGTTGGAGTATCCCCGA
1 CGGGGTTGGAGTATCCCCGA
21713 TTGTGAAGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.23
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGAGGAATAA
Found at i:21764 original size:54 final size:51
Alignment explanation
Indices: 21701--21826 Score: 166
Period size: 50 Copynumber: 2.4 Consensus size: 51
21691 AACGGGGTTG
*
21701 GAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGAGTTA
1 GAGTATCCCCGATTGTGAAGAAATTAGTG--TTTTGAAAAT-AAATCGGAGTTA
* *
21755 GAGTATCCCCGATTAT--AGAAAATTAGTGTTTTGAAAATAAATCGGAGTTG
1 GAGTATCCCCGATTGTGAAG-AAATTAGTGTTTTGAAAATAAATCGGAGTTA
*
21805 GAATATCCCCGATTGTGAAGAA
1 GAGTATCCCCGATTGTGAAGAA
21827 TTGAGAAACT
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
50 25 0.39
51 11 0.17
52 4 0.06
53 9 0.14
54 15 0.23
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAGAAATTAGTGTTTTGAAAATAAATCGGAGTTA
Found at i:21778 original size:212 final size:211
Alignment explanation
Indices: 21434--21821 Score: 613
Period size: 212 Copynumber: 1.8 Consensus size: 211
21424 ATCGGGATTG
* *
21434 GAGTATCCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCT
1 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCC
*
21499 CGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAA
66 CGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGGAAA
* *
21564 ATTGGCGTTTTGAAAATAAAACCGG-GATTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTA
131 ATTAGCGTTTTGAAAAT-AAACCGGAG-TTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTA
21628 GCGATAAAACCGGGGTTA
194 GCGATAAAACCGGGGTTA
* *
21646 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCC
1 GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCC
*
21710 CGATTGTGAAGAAATTAGTGT-TTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATA-G
66 CGATTGTGAA-AAATT-G-GTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGG
* *
21773 AAAATTAGTGTTTTGAAAATAAATCGGAGTTGGAATATCCCCGATTGTG
128 AAAATTAGCGTTTTGAAAATAAACCGGAGTTGGAATATCCCCGATTGTG
21822 AAGAATTGAG
Statistics
Matches: 162, Mismatches: 10, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
211 54 0.33
212 66 0.41
213 40 0.25
214 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (211 bp):
GAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCC
CGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGGAAA
ATTAGCGTTTTGAAAATAAACCGGAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGC
GATAAAACCGGGGTTA
Found at i:21812 original size:50 final size:53
Alignment explanation
Indices: 21486--21826 Score: 172
Period size: 52 Copynumber: 6.5 Consensus size: 53
21476 AAATAACGAG
* * * * *
21486 GTTGGAGTATCCTCGATTGTGAA-AAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
* * *
21538 GTTGGAGTATCCCCGATTA--AAGGAAAATTGGCG-TTTTGAAAATAAAACCGG-
1 GTTGGAGTATCCCCGATTATGAA-G-AAATTAGTGTTTTTGAAAATAAAATCGGA
* * ** * *
21589 GATTGGAGTATCCCCGATTGTGGAA-AAATTAGTGTTTTAG-CGATAAAACCGGG
1 G-TTGGAGTATCCCCGATTAT-GAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
* * *** * **** ** * *
21642 GTTAGAGTATCCCCTCGGA-AAT-AACGGGGTTGGAGTATCCCCGATGAT-TAA-CGGG
1 GTTGGAGTAT-CCC-C-GATTATGAA-GAAATT--AGTGTTTTTGAAAATAAAATCGGA
* *
21697 GTTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGGA
*
21751 GTTAGAGTATCCCCGATTAT--AGAAAATTAGTG-TTTTGAAAAT-AAATCGGA
1 GTTGGAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGGA
* *
21801 GTTGGAATATCCCCGATTGTGAAGAA
1 GTTGGAGTATCCCCGATTATGAAGAA
21827 TTGAGAAACT
Statistics
Matches: 217, Mismatches: 47, Indels: 51
0.69 0.15 0.16
Matches are distributed among these distances:
50 27 0.12
51 15 0.07
52 87 0.40
53 31 0.14
54 30 0.14
55 17 0.08
56 7 0.03
57 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGGA
Found at i:21824 original size:104 final size:101
Alignment explanation
Indices: 21476--21828 Score: 281
Period size: 104 Copynumber: 3.4 Consensus size: 101
21466 ATCCCCGATG
*
21476 AAAT-AACGAGGTTGGAGTATCCTCGATTGTGAAAAATT-G-GTATTTTTGGAAATAAAATCGGA
1 AAATAAACG-GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGT-TTTTTGGAAATAAAATCGGA
* * * *
21538 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGA
64 GTTAGAGTATCCCCGATTATA-GAAAATTAGTGTTTTGA
* *
21577 AAATAAAACCGGGATTGGAGTATCCCCGATTGTGGAAAAATTAGTG-TTTTAGCG--ATAAAACC
1 AAAT-AAA-CGGG-TTGGAGTATCCCCGATTGT-GAAAAATTAGTGTTTTTTG-GAAATAAAATC
* * *** * ***
21639 GGGGTTAGAGTATCCCCTCGGA-AATA-ACGGGGTTGGAGTATCCCCGA
61 GGAGTTAGAGTAT-CCC-C-GATTATAGA--AAATT--AGTGT-TTTGA
** *
21686 TGATTAACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTAGTGTTTTTTGGAAATAAAATCGGA
1 AAATAAAC-GGGTTGGAGTATCCCCGATTGTGAA-AAATTAGTGTTTTTTGGAAATAAAATCGGA
21751 GTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTTGA
64 GTTAGAGTATCCCCGATTATAGAAAATTAGTGTTTTGA
* *
21789 AAATAAATCGGAGTTGGAATATCCCCGATTGTGAAGAATT
1 AAATAAA-CGG-GTTGGAGTATCCCCGATTGTGAAAAATT
21829 GAGAAACTCA
Statistics
Matches: 192, Mismatches: 35, Indels: 48
0.70 0.13 0.17
Matches are distributed among these distances:
101 4 0.02
103 16 0.08
104 66 0.34
105 16 0.08
106 14 0.07
107 37 0.19
108 16 0.08
109 23 0.12
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (101 bp):
AAATAAACGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTTGGAAATAAAATCGGAGT
TAGAGTATCCCCGATTATAGAAAATTAGTGTTTTGA
Found at i:24194 original size:13 final size:13
Alignment explanation
Indices: 24176--24201 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
24166 ACAAAGATCC
24176 ATGTATCGATACA
1 ATGTATCGATACA
24189 ATGTATCGATACA
1 ATGTATCGATACA
24202 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:24213 original size:33 final size:33
Alignment explanation
Indices: 24155--24221 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
24145 AAAATTTCCA
*** *
24155 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCAATAC
*
24188 AATGTATCGATACACAGAAAAATGTATCAATAC
1 AATGTATCGATACAAAGAAAAATGTATCAATAC
24221 A
1 A
24222 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCAATAC
Found at i:24265 original size:19 final size:18
Alignment explanation
Indices: 24241--24308 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
24231 CAGTAGCTAA
24241 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
24260 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
24275 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
24292 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
24309 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:24281 original size:13 final size:13
Alignment explanation
Indices: 24263--24287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24253 ACAATACTTA
24263 TGTATCGATACAT
1 TGTATCGATACAT
24276 TGTATCGATACA
1 TGTATCGATACA
24288 AAACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:24283 original size:32 final size:32
Alignment explanation
Indices: 24244--24306 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
24234 TAGCTAATTA
*
24244 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
24276 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
24307 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:24388 original size:21 final size:21
Alignment explanation
Indices: 24364--24420 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
24354 CATTTGTAGG
24364 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
24385 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
24406 ATGTATCGATACATT
1 ATGTATCGATACATT
24421 TGGATAAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:32495 original size:73 final size:73
Alignment explanation
Indices: 32376--32513 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 73
32366 CAATAGATGT
* * * * * *
32376 GTGTTTGCAAGACTTTAAGCATAATGAATAATAGATATAAATGAAATGATAAATACAAATGTGTA
1 GTGTTTACAAGAATTTAAGCACAATGAATAAGAAATATAAATGAAATGATAAATACAAATATGTA
32441 CTAGGTGG
66 CTAGGTGG
*
32449 GTGTTTACAAGAATTTAAGCACAATGAATAAGAAATACT-AGTGAAATGATAAATACAAATATGT
1 GTGTTTACAAGAATTTAAGCACAATGAATAAGAAATA-TAAATGAAATGATAAATACAAATATGT
32513 A
65 A
32514 TAAGAAAGAT
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
73 56 0.98
74 1 0.02
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (73 bp):
GTGTTTACAAGAATTTAAGCACAATGAATAAGAAATATAAATGAAATGATAAATACAAATATGTA
CTAGGTGG
Found at i:36695 original size:2 final size:2
Alignment explanation
Indices: 36688--36734 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
36678 AAAATCCTAA
*
36688 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36730 AT AT A
1 AT AT A
36735 GACAATACTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:40008 original size:16 final size:17
Alignment explanation
Indices: 39974--40021 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 17
39964 AGGGCTTGAA
*
39974 TTAAGTTATTTTTAAAT
1 TTAAATTATTTTTAAAT
*
39991 TTAAATTATTTTT-TAT
1 TTAAATTATTTTTAAAT
* *
40007 TTGAATTAATTTTAA
1 TTAAATTATTTTTAA
40022 GTTTTGATCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
TTAAATTATTTTTAAAT
Found at i:40339 original size:54 final size:58
Alignment explanation
Indices: 40229--40344 Score: 141
Period size: 60 Copynumber: 2.0 Consensus size: 58
40219 TCGACATATT
* * *
40229 TATAAATATAAAATTATCTAGTAGTTTTATTTAAAACTTTAAGTAATTAATAATTATTTA
1 TATAAATATAAAATTATATAATAATTTTATTTAAAAC-TT-AGTAATTAATAATTATTTA
* *
40289 TATAAATATAAAATTATATAATAATTTTATTT-ATA-TT-GTAGTTAAT-ATTATTTA
1 TATAAATATAAAATTATATAATAATTTTATTTAAAACTTAGTAATTAATAATTATTTA
40343 TA
1 TA
40345 ATTTTTAGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
54 10 0.20
55 8 0.16
57 2 0.04
59 2 0.04
60 29 0.57
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (58 bp):
TATAAATATAAAATTATATAATAATTTTATTTAAAACTTAGTAATTAATAATTATTTA
Found at i:40358 original size:24 final size:22
Alignment explanation
Indices: 40309--40366 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
40299 AAATTATATA
*
40309 ATAATTTTATTTATATTGTAGT
1 ATAATATTATTTATATTGTAGT
*
40331 -TAATATTATTTATAATTTTTAGT
1 ATAATATTATTTAT-A-TTGTAGT
*
40354 ATAATATCATTTA
1 ATAATATTATTTA
40367 AGTTGAAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 12 0.40
22 1 0.03
23 6 0.20
24 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (22 bp):
ATAATATTATTTATATTGTAGT
Found at i:40476 original size:3 final size:3
Alignment explanation
Indices: 40451--40515 Score: 94
Period size: 3 Copynumber: 21.0 Consensus size: 3
40441 ACTCCCTTTG
* *
40451 TTA TTA TTT TTAA TTA TAAA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
40498 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
40516 AATGAAAGTC
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 52 0.93
4 4 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:41207 original size:16 final size:16
Alignment explanation
Indices: 41176--41214 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
41166 TAAATTAAGA
* *
41176 TCAAAGTGATTTGAAT
1 TCAAAATGATTCGAAT
*
41192 TTAAAATGATTCGAAT
1 TCAAAATGATTCGAAT
41208 TCAAAAT
1 TCAAAAT
41215 ATACTAAACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.36
Consensus pattern (16 bp):
TCAAAATGATTCGAAT
Found at i:41457 original size:3 final size:3
Alignment explanation
Indices: 41449--41474 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
41439 AATCCATCTC
41449 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
41475 TTAATAATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:42681 original size:32 final size:31
Alignment explanation
Indices: 42638--42700 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 31
42628 TAGCCAAACT
*
42638 TGTATCGATACAGC-AAGTATGTATCGATACAA
1 TGTATCAATACA-CAAAGT-TGTATCGATACAA
42670 TGTATCAATACACAAAAGTTGTATCGATACA
1 TGTATCAATACAC-AAAGTTGTATCGATACA
42701 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 1 0.04
32 23 0.82
33 4 0.14
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (31 bp):
TGTATCAATACACAAAGTTGTATCGATACAA
Found at i:44159 original size:13 final size:13
Alignment explanation
Indices: 44141--44165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44131 CATTATGCTT
44141 TGTATCGATACAA
1 TGTATCGATACAA
44154 TGTATCGATACA
1 TGTATCGATACA
44166 TGCACATTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:45849 original size:9 final size:9
Alignment explanation
Indices: 45829--45859 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
45819 AGACGATGAA
*
45829 GATGATGAT
1 GATGATGTT
45838 GATGATGTT
1 GATGATGTT
45847 GATGATGTT
1 GATGATGTT
45856 GATG
1 GATG
45860 TTGACTCGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (9 bp):
GATGATGTT
Found at i:50672 original size:72 final size:72
Alignment explanation
Indices: 50552--50696 Score: 263
Period size: 72 Copynumber: 2.0 Consensus size: 72
50542 TTATCCGGGC
* *
50552 TTTCCTCAGTAACGCTCATCTTGAGCATAATGATAGCAACAAAATTATTGCTATTCATTCCTACC
1 TTTCCTCAGCAACGCTCATCTTGAGCATAACGATAGCAACAAAATTATTGCTATTCATTCCTACC
50617 TAATGGG
66 TAATGGG
*
50624 TTTCCTCAGCAACGCTCATCTTGAGCATAACGATAGCAACAAAGTTATTGCTATTCATTCCTACC
1 TTTCCTCAGCAACGCTCATCTTGAGCATAACGATAGCAACAAAATTATTGCTATTCATTCCTACC
50689 TAATGGG
66 TAATGGG
50696 T
1 T
50697 CGAGACTTGA
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (72 bp):
TTTCCTCAGCAACGCTCATCTTGAGCATAACGATAGCAACAAAATTATTGCTATTCATTCCTACC
TAATGGG
Found at i:51514 original size:35 final size:35
Alignment explanation
Indices: 51468--51537 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
51458 TTCGTATTAG
51468 GAATAGTCGTATTTGTTTTTGCTTATCCTTTTGAC
1 GAATAGTCGTATTTGTTTTTGCTTATCCTTTTGAC
51503 GAATAGTCGTATTTGTTTTTGCTTATCCTTTTGAC
1 GAATAGTCGTATTTGTTTTTGCTTATCCTTTTGAC
51538 TTTCTTGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.51
Consensus pattern (35 bp):
GAATAGTCGTATTTGTTTTTGCTTATCCTTTTGAC
Found at i:51694 original size:21 final size:21
Alignment explanation
Indices: 51668--51773 Score: 87
Period size: 21 Copynumber: 5.0 Consensus size: 21
51658 TTGTTTTTGC
51668 TATCAAGGGGAGAAAATTTTT
1 TATCAAGGGGAGAAAATTTTT
51689 TATCAAGGGG-GAGAAA-TTTT
1 TATCAAGGGGAGA-AAATTTTT
* * **
51709 TA--AATGAGAGCCTTAATTATTT
1 TATCAAGGGGAG--AAAATT-TTT
51731 TATCAAGGGGGAGAAAATTTTT
1 TATCAA-GGGGAGAAAATTTTT
51753 TATCAAGGGG-GAGAAATTTTT
1 TATCAAGGGGAGA-AAATTTTT
51774 AAATGAGAGC
Statistics
Matches: 67, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
18 4 0.06
19 1 0.01
20 12 0.18
21 26 0.39
22 14 0.21
23 4 0.06
24 2 0.03
25 4 0.06
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.34
Consensus pattern (21 bp):
TATCAAGGGGAGAAAATTTTT
Found at i:51699 original size:22 final size:21
Alignment explanation
Indices: 51668--51773 Score: 96
Period size: 22 Copynumber: 5.0 Consensus size: 21
51658 TTGTTTTTGC
51668 TATCAA-GGGGAGAAAATTTTT
1 TATCAAGGGGGAG-AAATTTTT
51689 TATCAAGGGGGAGAAA-TTTT
1 TATCAAGGGGGAGAAATTTTT
* * *
51709 TA--AA-TGAGAGCCTTAATTATTT
1 TATCAAGGGGGAG---AAATT-TTT
51731 TATCAAGGGGGAGAAAATTTTT
1 TATCAAGGGGGAG-AAATTTTT
51753 TATCAAGGGGGAGAAATTTTT
1 TATCAAGGGGGAGAAATTTTT
51774 AAATGAGAGC
Statistics
Matches: 69, Mismatches: 7, Indels: 18
0.73 0.07 0.19
Matches are distributed among these distances:
17 4 0.06
18 2 0.03
20 8 0.12
21 18 0.26
22 27 0.39
23 4 0.06
24 2 0.03
25 4 0.06
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.34
Consensus pattern (21 bp):
TATCAAGGGGGAGAAATTTTT
Found at i:51768 original size:64 final size:64
Alignment explanation
Indices: 51668--51815 Score: 282
Period size: 64 Copynumber: 2.3 Consensus size: 64
51658 TTGTTTTTGC
51668 TATCAA-GGGGAGAAAATTTTTTATCAAGGGGGAGAAATTTTTAAATGAGAGCCTTAATTATTT
1 TATCAAGGGGGAGAAAATTTTTTATCAAGGGGGAGAAATTTTTAAATGAGAGCCTTAATTATTT
51731 TATCAAGGGGGAGAAAATTTTTTATCAAGGGGGAGAAATTTTTAAATGAGAGCCTTAATTATTT
1 TATCAAGGGGGAGAAAATTTTTTATCAAGGGGGAGAAATTTTTAAATGAGAGCCTTAATTATTT
51795 TATCAAGGGGGAG-AAATTTTT
1 TATCAAGGGGGAGAAAATTTTT
51816 AAATGAAAGC
Statistics
Matches: 84, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
63 14 0.17
64 70 0.83
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.34
Consensus pattern (64 bp):
TATCAAGGGGGAGAAAATTTTTTATCAAGGGGGAGAAATTTTTAAATGAGAGCCTTAATTATTT
Found at i:51774 original size:42 final size:41
Alignment explanation
Indices: 51744--51852 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 41
51734 CAAGGGGGAG
*
51744 AAAATT-TTTTATCAAGGGGGAGAAATTTTTAAATGAGAGCC
1 AAAATTATTTTATCAAGGGGGAGAAATTTTTAAAGGAGAG-C
** * *
51785 TTAATTATTTTATCAAGGGGGAGAAATTTTTAAATGAAAGCC
1 AAAATTATTTTATCAAGGGGGAGAAATTTTTAAAGGAGAG-C
** *
51827 TTAATTATTTTATAAAGGGGGAGAAA
1 AAAATTATTTTATCAAGGGGGAGAAA
51853 AACGAAACTT
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 4 0.06
42 59 0.94
ACGTcount: A:0.39, C:0.06, G:0.21, T:0.34
Consensus pattern (41 bp):
AAAATTATTTTATCAAGGGGGAGAAATTTTTAAAGGAGAGC
Found at i:52526 original size:13 final size:13
Alignment explanation
Indices: 52508--52532 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52498 CATGGCACAT
52508 TGTATCGATACAA
1 TGTATCGATACAA
52521 TGTATCGATACA
1 TGTATCGATACA
52533 TTATGAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:55417 original size:3 final size:3
Alignment explanation
Indices: 55409--55496 Score: 176
Period size: 3 Copynumber: 29.3 Consensus size: 3
55399 TATGTATTAT
55409 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
55457 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
55497 AATCTAATAT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:56020 original size:39 final size:38
Alignment explanation
Indices: 55977--56051 Score: 116
Period size: 38 Copynumber: 1.9 Consensus size: 38
55967 TATCACTATT
*
55977 ATTTATAAAAAA-TTAATAAAATTATTTATAAAAAAATTA
1 ATTTATAAAAAAGTTAACAAAA-T-TTTATAAAAAAATTA
56016 ATTTATAAAAAAGTTAACAAAATTTTATAAAAAAAT
1 ATTTATAAAAAAGTTAACAAAATTTTATAAAAAAAT
56052 AAAAAATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
38 13 0.38
39 13 0.38
40 8 0.24
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (38 bp):
ATTTATAAAAAAGTTAACAAAATTTTATAAAAAAATTA
Found at i:56021 original size:16 final size:16
Alignment explanation
Indices: 55994--56032 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
55984 AAAAATTAAT
55994 AAAATT-ATTTATAAA
1 AAAATTAATTTATAAA
56009 AAAATTAATTTATAAA
1 AAAATTAATTTATAAA
*
56025 AAAGTTAA
1 AAAATTAA
56033 CAAAATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
AAAATTAATTTATAAA
Found at i:56044 original size:22 final size:20
Alignment explanation
Indices: 55978--56063 Score: 72
Period size: 23 Copynumber: 4.2 Consensus size: 20
55968 ATCACTATTA
*
55978 TTTATAAAAAATTAATAAAATT
1 TTTATAAAAAAATAA-AAAA-T
*
56000 ATTTATAAAAAAAT---TAA-
1 -TTTATAAAAAAATAAAAAAT
*
56017 TTTATAAAAAAGTTAACAAAAT
1 TTTATAAAAAA-ATAA-AAAAT
56039 TTTATAAAAAAATAAAAAAT
1 TTTATAAAAAAATAAAAAAT
56059 TTTAT
1 TTTAT
56064 TCATTCACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
16 11 0.21
17 1 0.02
19 2 0.04
20 10 0.19
21 5 0.10
22 11 0.21
23 12 0.23
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (20 bp):
TTTATAAAAAAATAAAAAAT
Found at i:56057 original size:20 final size:21
Alignment explanation
Indices: 56017--56063 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
56007 AAAAAATTAA
*
56017 TTTATAAAAAAGTTAACAAAAT
1 TTTATAAAAAA-ATAACAAAAT
56039 TTTATAAAAAAATAA-AAAAT
1 TTTATAAAAAAATAACAAAAT
56059 TTTAT
1 TTTAT
56064 TCATTCACCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.42
21 3 0.12
22 11 0.46
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
TTTATAAAAAAATAACAAAAT
Found at i:59992 original size:52 final size:53
Alignment explanation
Indices: 59914--60017 Score: 192
Period size: 52 Copynumber: 2.0 Consensus size: 53
59904 TCTTATAATG
59914 TTTCAACTTCAGCACCAATTGTATAATTTTTGGCCCCTTAAAAC-TTTTTTTC
1 TTTCAACTTCAGCACCAATTGTATAATTTTTGGCCCCTTAAAACATTTTTTTC
*
59966 TTTCAGCTTCAGCACCAATTGTATAATTTTTGGCCCCTTAAAACATTTTTTT
1 TTTCAACTTCAGCACCAATTGTATAATTTTTGGCCCCTTAAAACATTTTTTT
60018 TCCATTCAAT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 43 0.86
53 7 0.14
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (53 bp):
TTTCAACTTCAGCACCAATTGTATAATTTTTGGCCCCTTAAAACATTTTTTTC
Found at i:63990 original size:13 final size:13
Alignment explanation
Indices: 63972--63997 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63962 ATACAAAGAT
63972 CAATGTATCGATA
1 CAATGTATCGATA
63985 CAATGTATCGATA
1 CAATGTATCGATA
63998 TATTTCTTTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:65023 original size:43 final size:44
Alignment explanation
Indices: 64949--65253 Score: 336
Period size: 43 Copynumber: 6.8 Consensus size: 44
64939 GCTGAAGATA
* *
64949 CCAATGTGCTGATTCAAGGCC-GACGACATTGGACTT-AAAGGTG
1 CCAATATGCTGATTCAAGGCCAG-CGATATTGGACTTAAAAGGTG
* *
64992 CTAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AATGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGGTG
65035 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-A-G--G-TG
* * * * *
65084 TCAATGTGCTGATTCAAGGCCAGTGACATTGG--TTCAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGGTG
*
65126 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAAGATG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA-A-G--G-TG
* * * *
65175 CCAATGTGCTGATTCAAGGCCAGTGACATTGG--TTCAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGGTG
65217 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
65254 GAAGAAGATA
Statistics
Matches: 222, Mismatches: 24, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
42 61 0.27
43 74 0.33
44 9 0.04
45 3 0.01
46 4 0.02
47 8 0.04
48 2 0.01
49 61 0.27
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (44 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAGGTG
Found at i:65143 original size:91 final size:91
Alignment explanation
Indices: 64949--65258 Score: 447
Period size: 91 Copynumber: 3.5 Consensus size: 91
64939 GCTGAAGATA
* * * *
64949 CCAATGTGCTGATTCAAGGCC-GACGACATTGGACTT-AA-A-G--G-TGCTAATATGCTGATTC
1 CCAATATGCTGATTCAAGGCCAG-CGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTC
* * *
65007 AAGGCCAGCGATATTGGACTT-AATGGTG
65 AAGGCCAGTGACATTGG--TTCAAAGGTG
*
65035 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGTCAATGTGCTGATTCA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCA
65100 AGGCCAGTGACATTGGTTCAAAGGTG
66 AGGCCAGTGACATTGGTTCAAAGGTG
*
65126 CCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAAGATGCCAATGTGCTGATTCA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCA
65191 AGGCCAGTGACATTGGTTCAAAGGTG
66 AGGCCAGTGACATTGGTTCAAAGGTG
65217 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
65259 AGATACCACC
Statistics
Matches: 204, Mismatches: 11, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
86 32 0.16
87 3 0.01
88 1 0.00
89 1 0.00
90 2 0.01
91 132 0.65
92 33 0.16
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (91 bp):
CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGATGCCAATGTGCTGATTCA
AGGCCAGTGACATTGGTTCAAAGGTG
Found at i:65157 original size:42 final size:42
Alignment explanation
Indices: 65085--65248 Score: 202
Period size: 42 Copynumber: 3.7 Consensus size: 42
65075 ATGAAGATGT
* *
65085 CAATGTGCTGATTCAAGGCCAGTGACATTGGTTCAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTTCAAAGGTGC
* *
65127 CAATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GG-TTCAA-A-G--G-TGC
* *
65176 CAATGTGCTGATTCAAGGCCAGTGACATTGGTTCAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGTTCAAAGGTGC
*
65218 CAATATGCTGATTCAAGGCCAGCGATATTGG
1 CAATATGCTGATTCAAGGCCAGCGACATTGG
65249 ACTTAGAAGA
Statistics
Matches: 104, Mismatches: 11, Indels: 14
0.81 0.09 0.11
Matches are distributed among these distances:
42 57 0.55
43 3 0.03
44 4 0.04
45 2 0.02
46 2 0.02
47 4 0.04
48 3 0.03
49 29 0.28
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (42 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGTTCAAAGGTGC
Found at i:65366 original size:29 final size:29
Alignment explanation
Indices: 65275--65665 Score: 477
Period size: 29 Copynumber: 13.6 Consensus size: 29
65265 CACCAACTTG
65275 TGTGGGCTTTGGAAAAGGATGCCACTGACT
1 TGTGGGCTTTGGAAAA-GATGCCACTGACT
* * * *
65305 TGTGGGCTTTTG-AAGGTTGCCACAGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
*
65333 TGTGGGCTTTGGAAAAGATACCACTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
* * * *
65362 TGTGGGCTTTTG-AAGGTTGCCATTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
*
65390 TGTGGGCTTTGGAAAAGATGCCACAGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
* * *
65419 TGTGGGCTTT-TAAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
*
65447 TGTGGGCTTTGGAAAGGATGCCACTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
* * *
65476 TGTGGGCTTTGG-AAGGTTGCCACTAACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
* *
65504 TGTGGGCTTTGGAAAAGATACCACGGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
* * *
65533 TGTGGGCTTTTG-AAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
*
65561 TGTGGGCTTTGGAAAGGATGCCACTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
* *
65590 TGTGGGCTTTGGAAAAGATGCCACTGGCA
1 TGTGGGCTTTGGAAAAGATGCCACTGACT
*
65619 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGGAAAA-GATGCCACTGACT
* *
65649 TATGGGCATTGGAAAAG
1 TGTGGGCTTTGGAAAAG
65666 GTGAGGAATG
Statistics
Matches: 308, Mismatches: 47, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
28 118 0.38
29 155 0.50
30 35 0.11
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTGGAAAAGATGCCACTGACT
Found at i:65369 original size:57 final size:57
Alignment explanation
Indices: 65275--65655 Score: 573
Period size: 57 Copynumber: 6.6 Consensus size: 57
65265 CACCAACTTG
*
65275 TGTGGGCTTTGGAAAAGGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACAGACT
1 TGTGGGCTTTGGAAAA-GATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* *
65333 TGTGGGCTTTGGAAAAGATACCACTGACTTGTGGGCTTTTGAAGGTTGCCATTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* *
65390 TGTGGGCTTTGGAAAAGATGCCACAGACTTGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* * *
65447 TGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCTTTGGAAGGTTGCCACTAACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* *
65504 TGTGGGCTTTGGAAAAGATACCACGGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
1 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
* * * * * *
65561 TGTGGGCTTTGGAAAGGATGCCACTGACTTGTGGGCTTTGGAAAAGATGCCACTGGCA
1 TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTG-AAGGTTGCCACTGACT
* *
65619 TGTGGGCTTTGGAAAAGGGTGCCACTGACTTATGGGC
1 TGTGGGCTTTGGAAAA-GATGCCACTGACTTGTGGGC
65656 ATTGGAAAAG
Statistics
Matches: 293, Mismatches: 28, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
57 232 0.79
58 43 0.15
59 18 0.06
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (57 bp):
TGTGGGCTTTGGAAAAGATGCCACTGACTTGTGGGCTTTTGAAGGTTGCCACTGACT
Found at i:67131 original size:34 final size:32
Alignment explanation
Indices: 67093--67192 Score: 107
Period size: 32 Copynumber: 3.0 Consensus size: 32
67083 CATCCGGACC
67093 CTTTTTGTTGTTGTTTTTTTTTCTTTTCTTTTTT
1 CTTTTTGTT-TTGTTTTTTTTT-TTTTCTTTTTT
*
67127 CTTTTT-TTCTT-TTTTTTTGTTTTTTGTTTTTT
1 CTTTTTGTT-TTGTTTTTTT-TTTTTTCTTTTTT
67159 -TTCTTTGTTTTGTTTTGTGTTTTTTTTCTTTTTT
1 CTT-TTTGTTTTGTTTT-T-TTTTTTTTCTTTTTT
67193 TTAATGGAGG
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
31 2 0.04
32 22 0.39
33 12 0.21
34 19 0.33
35 2 0.04
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (32 bp):
CTTTTTGTTTTGTTTTTTTTTTTTTCTTTTTT
Found at i:67142 original size:30 final size:29
Alignment explanation
Indices: 67106--67193 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
67096 TTTGTTGTTG
*
67106 TTTTTTTTTCTTTTCTTTTTTCTTTTTTTC
1 TTTTTTTTTGTTTT-TTTTTTCTTTTTTTC
*
67136 TTTTTTTTTGTTTTTTGTTTT-TTTTCTTTG
1 TTTTTTTTTGTTTTTT-TTTTCTTTT-TTTC
* *
67166 TTTTGTTTTGTGTTTTTTTTCTTTTTTT
1 TTTTTTTTTGTTTTTTTTTTCTTTTTTT
67194 TAATGGAGGA
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
29 13 0.25
30 38 0.75
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (29 bp):
TTTTTTTTTGTTTTTTTTTTCTTTTTTTC
Found at i:67144 original size:25 final size:23
Alignment explanation
Indices: 67107--67194 Score: 88
Period size: 25 Copynumber: 3.7 Consensus size: 23
67097 TTGTTGTTGT
*
67107 TTTTTTTTCTTTTCTTTTTTCTTT
1 TTTTTTTTCTTTT-TTTTTTTTTT
* * *
67131 TTTTCTTT-TTTTTTGTTTTTTG
1 TTTTTTTTCTTTTTTTTTTTTTT
* *
67153 TTTTTTTTCTTTGTTTTGTTTTGTG
1 TTTTTTTTCTTT-TTTT-TTTTTTT
67178 TTTTTTTTCTTTTTTTT
1 TTTTTTTTCTTTTTTTT
67195 AATGGAGGAC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 14 0.26
23 8 0.15
24 14 0.26
25 18 0.33
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (23 bp):
TTTTTTTTCTTTTTTTTTTTTTT
Found at i:67182 original size:50 final size:52
Alignment explanation
Indices: 67095--67194 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 52
67085 TCCGGACCCT
*
67095 TTTTGTTGTTGTTTTTTTTTCTTTTCTTTTTTC-TTTTTTTCTTTTTTTTTG
1 TTTTGTTGTTGTTTTTTTTTCTTTTCTTTTGTCTTTTTTTTCTTTTTTTTTG
* * *
67146 TTTT-TTGTT-TTTTTTCTTTGTTTTGTTTTGTGTTTTTTTTCTTTTTTTT
1 TTTTGTTGTTGTTTTTT-TTTCTTTTCTTTTGTCTTTTTTTTCTTTTTTTT
67195 AATGGAGGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 6 0.14
50 17 0.40
51 20 0.47
ACGTcount: A:0.00, C:0.06, G:0.09, T:0.85
Consensus pattern (52 bp):
TTTTGTTGTTGTTTTTTTTTCTTTTCTTTTGTCTTTTTTTTCTTTTTTTTTG
Found at i:67212 original size:1 final size:1
Alignment explanation
Indices: 67106--67194 Score: 70
Period size: 1 Copynumber: 89.0 Consensus size: 1
67096 TTTGTTGTTG
* * * * * * * * *
67106 TTTTTTTTTCTTTTCTTTTTTCTTTTTTTCTTTTTTTTTGTTTTTTGTTTTTTTTCTTTGTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
67171 TTTTGTGTTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTT
67195 AATGGAGGAC
Statistics
Matches: 64, Mismatches: 24, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 64 1.00
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.87
Consensus pattern (1 bp):
T
Found at i:75234 original size:34 final size:35
Alignment explanation
Indices: 75171--75237 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
75161 CTAAGTGATT
75171 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
75207 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
75238 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:80233 original size:13 final size:13
Alignment explanation
Indices: 80215--80241 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
80205 TCACTATTCA
80215 TGTATCGATACAC
1 TGTATCGATACAC
80228 TGTATCGATACAC
1 TGTATCGATACAC
80241 T
1 T
80242 ATAAATAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:80773 original size:34 final size:35
Alignment explanation
Indices: 80710--80776 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
80700 CTAAGTGATT
80710 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
80746 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
80777 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:86099 original size:19 final size:20
Alignment explanation
Indices: 86075--86128 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
86065 AGCGATACAT
86075 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTGTA
** *
86094 TGTATCGATACATTTACTGTT
1 TGTATCGATACA-AAACTGTA
86115 TGTATCGATACAAA
1 TGTATCGATACAAA
86129 TTGTTGAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAACTGTA
Found at i:86982 original size:15 final size:15
Alignment explanation
Indices: 86962--86993 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
86952 GGATTGAATC
86962 TATGATTTAATTAAA
1 TATGATTTAATTAAA
86977 TATGATTTAATTAAA
1 TATGATTTAATTAAA
86992 TA
1 TA
86994 AAAGGTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
TATGATTTAATTAAA
Found at i:87439 original size:18 final size:17
Alignment explanation
Indices: 87404--87443 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
87394 ATTTTTATAA
*
87404 TTATTAGATAATAATAT
1 TTATTAAATAATAATAT
*
87421 TTATTAAATGAATATTAT
1 TTATTAAAT-AATAATAT
87439 TTATT
1 TTATT
87444 GAGATAGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (17 bp):
TTATTAAATAATAATAT
Found at i:89503 original size:97 final size:97
Alignment explanation
Indices: 89255--89492 Score: 397
Period size: 97 Copynumber: 2.5 Consensus size: 97
89245 TGAAAAACGA
* * * *
89255 GGTTAGAGTATCCTCTC-GAAGAATGGGGCTGGAGTATCCCCGATGATGATAATTTAAGCAAGAA
1 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCCCGATGATGATAATTTAAGCAAGAA
*
89319 GAAGATTTAAACTTTGATGAGTTTAAAAGCGG
66 GAAAATTTAAACTTTGATGAGTTTAAAAGCGG
*
89351 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCTCGATGATGATAATTTAAGCAAGAA
1 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCCCGATGATGATAATTTAAGCAAGAA
89416 GAAAATTTAAACTTTGATGAGTTTAAAAGCGG
66 GAAAATTTAAACTTTGATGAGTTTAAAAGCGG
* *
89448 GGTTGGAGTATCCCCTCGGAGGAATAGGGTTAGAGTATCCCCGAT
1 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCCCGAT
89493 AAATAAAATT
Statistics
Matches: 132, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
96 15 0.11
97 117 0.89
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (97 bp):
GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTATCCCCGATGATGATAATTTAAGCAAGAA
GAAAATTTAAACTTTGATGAGTTTAAAAGCGG
Found at i:91551 original size:20 final size:20
Alignment explanation
Indices: 91526--91624 Score: 100
Period size: 20 Copynumber: 5.7 Consensus size: 20
91516 TTTCAACGAT
91526 TTGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
91546 TTGTATCGATAC----AA--
1 TTGTATCGATACATAAAATG
91560 -TGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
91579 TTGTATCGATAC----AA--
1 TTGTATCGATACATAAAATG
91593 -TGTATCGATACATAAAATG
1 TTGTATCGATACATAAAATG
91612 TTGTATCGATACA
1 TTGTATCGATACA
91625 ATGTATCGAT
Statistics
Matches: 65, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 22 0.34
16 4 0.06
17 4 0.06
20 35 0.54
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.34
Consensus pattern (20 bp):
TTGTATCGATACATAAAATG
Found at i:91564 original size:33 final size:33
Alignment explanation
Indices: 91527--91659 Score: 230
Period size: 33 Copynumber: 4.0 Consensus size: 33
91517 TTCAACGATT
91527 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
91560 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
91593 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
91626 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
91659 T
1 T
91660 TTAAGCTACT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 96 1.00
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:91565 original size:13 final size:13
Alignment explanation
Indices: 91547--91637 Score: 56
Period size: 13 Copynumber: 5.9 Consensus size: 13
91537 CATAAAATGT
91547 TGTATCGATACAA
1 TGTATCGATACAA
91560 TGTATCGATACATAAAA
1 TGTATCGATAC----AA
91577 TGTTGTATCGATACAA
1 ---TGTATCGATACAA
91593 TGTATCGATACATAAAA
1 TGTATCGATAC----AA
91610 TGTTGTATCGATACAA
1 ---TGTATCGATACAA
91626 TGTATCGATACA
1 TGTATCGATACA
91638 TATTTTTTTG
Statistics
Matches: 64, Mismatches: 0, Indels: 28
0.70 0.00 0.30
Matches are distributed among these distances:
13 34 0.53
16 4 0.06
17 4 0.06
20 22 0.34
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:91718 original size:13 final size:13
Alignment explanation
Indices: 91700--91724 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91690 ATTACTCAAA
91700 TGTATCGATACAT
1 TGTATCGATACAT
91713 TGTATCGATACA
1 TGTATCGATACA
91725 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:91826 original size:52 final size:52
Alignment explanation
Indices: 91733--91860 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
91723 CACTGATCTT
91733 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
91784 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
91836 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
91861 TCATATTTCG
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
51 19 0.25
52 57 0.75
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATTAAA
Found at i:93307 original size:11 final size:11
Alignment explanation
Indices: 93291--93321 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
93281 TTCTCTTCAA
93291 AAAAAAAAAAG
1 AAAAAAAAAAG
93302 AAAAAAAAAAG
1 AAAAAAAAAAG
93313 AAAAAAAAA
1 AAAAAAAAA
93322 CAAAACAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.94, C:0.00, G:0.06, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:94424 original size:54 final size:54
Alignment explanation
Indices: 94296--95188 Score: 1022
Period size: 54 Copynumber: 16.4 Consensus size: 54
94286 TCTCCTTCCG
* * * *
94296 CTTTTTAGTCCCCAAAGTGCAGGACACCTCTTAAAGCCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAG-CCCACACAAGTTGGTGGCA
*
94352 CCTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAGCCCACACAAGTTGGTGGCA
* * *
94406 TTTTTCCAGTCCTC-AAGAGGCAGGGACACCTTTTAAGCCCACACAAGGT-GTGGCA
1 CTTTT-CAGTCCTCAAAGA-GCA-GGACACCTTTCAAGCCCACACAAGTTGGTGGCA
94461 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAG-CCACACAAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCTTTC-AAGCCCACACAAGTTGGTGGCA
* * * *
94515 CCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGGCCACCCAAGTT-GTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTC-AAGCCCACACAAGTTGGTGGCA
*
94569 -TTTTCCAGTCCTC-AAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAGCCCACACAAGTTGGTGGCA
* * *
94623 CCTTTCAGTCCTCAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTCGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTC-AAGCCCACACAAGTTGGTGGCA
* *
94678 TTTTTCCAGTCCTCAAAGAGCA-GACACCTTTTAAG-CCACAACAAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAGCCCAC-ACAAGTTGGTGGCA
*
94732 -TTTTCCCA-TCC-CAAAGAGCAGGACACTTTTCAAGCCCACACAAGTTGGTGGCA
1 CTTTT--CAGTCCTCAAAGAGCAGGACACCTTTCAAGCCCACACAAGTTGGTGGCA
* *
94785 -TTTTCCAGTCCTCAACGAGCAGGACACCTCTTAAAAGCCCACA-AAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCT-TT-CAAGCCCACACAAGTTGGTGGCA
* * *
94840 CTCTTCAGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGG-A
1 CTTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAGCCCACACAAGTTGGTGGCA
*
94894 CCTTTCAGTCCTCAAAGAGCA-GACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTC-AAGCCCACACAAGTTGGTGGCA
*
94948 -TTTTCCAGTCCTCAAAGAACAGGACA-CTTTCAAAGCCCACACAAGTTGGTGGCA
1 CTTTT-CAGTCCTCAAAGAGCAGGACACCTTTC-AAGCCCACACAAGTTGGTGGCA
* *
95002 -TTTCCAGTCCTCAAAGAGCAGGACA-CTCTTAAAGCCCACACAAGTTGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCT-TTCAAGCCCACACAAGTTGGTGGCA
* * * * *
95055 CCTTT-ATTCCCCAAAGAGCAGGACACTTTTCTAAAGCCCCACACAA-TGGGGTGGCA
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTC--AAG-CCCACACAAGT-TGGTGGCA
* * *
95111 CCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGC-
1 CTTTTCAGTCCTCAAAGAGCAGGACACCTTTC-AAGCCCACACAAGTTGGTGGCA
* * *
95165 CTTTTTACTCCTCAATGAGCAGGA
1 CTTTTCAGTCCTCAAAGAGCAGGA
95189 TACAATTTTT
Statistics
Matches: 737, Mismatches: 62, Indels: 78
0.84 0.07 0.09
Matches are distributed among these distances:
52 14 0.02
53 188 0.26
54 251 0.34
55 160 0.22
56 102 0.14
57 22 0.03
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.22
Consensus pattern (54 bp):
CTTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAGCCCACACAAGTTGGTGGCA
Found at i:94666 original size:163 final size:163
Alignment explanation
Indices: 94302--95188 Score: 1086
Period size: 163 Copynumber: 5.4 Consensus size: 163
94292 TCCGCTTTTT
* *
94302 AGTCCCCAAAGTGCAGGACACCTCTT-AAAGCCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAG-CCCACACAAGTTGGTGGCA-CTTTCAGTCCTCA
* *
94366 AAGAGCAGGACACCTTTCAAGCCCACACAAGTTGGTGGCATTTTTCCAGTCCTC-AAGAGGCAGG
63 AAGAGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGA-GCA-G
* *
94430 GACACCTTTTAAGCCCACACAAGGT-GTGGCATTTTCC
126 GACACCTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
94467 AGTCCTCAAAGAGCAGGACACCTTTCAAAG-CCACACAAGTTGGTGGCACCTTTCAGTCCCCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAGTCCTCAAA
* *
94531 GAGCAGGACACCTTTCAAAGGCCACCCAAGTT-GTGGCA-TTTTCCAGTCCTC-AAGAGCAGGAC
65 GAGCAGGACACCTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGAC
*
94593 ACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
129 ACCT-TTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* * *
94629 AGTCCTCAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTCGGTGGCATTTTTCCAGTCCTCAA
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTT-CAGTCCTCAA
*
94694 AGAGCA-GACACCTTTTAAG-CCACAACAAGTTGGTGGCA-TTTTCCCA-TCC-CAAAGAGCAGG
64 AGAGCAGGACACCTTTAAAGCCCAC-ACAAGTTGGTGGCACTTTT-CCAGTCCTCAAAGAGCAGG
* *
94754 ACACTTTTCAAGCCCACACAAGTTGGTGGCATTTTCC
127 ACACCTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
94791 AGTCCTCAACGAGCAGGACACCTCTTAAAAGCCCACA-AAGTTGGTGGCACTCTTCAGTCCCCAA
1 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACT-TTCAGTCCTCAA
*
94855 AGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGG-ACCTTT-CAGTCCTCAAAGAGCA-GA
64 AGAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGA
94917 CACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
128 CACCTTT-AAAGCCCACACAAGTTGGTGGCATTTTCC
*
94954 AGTCCTCAAAGAACAGGACA-CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAGTCCTCAAA
* * *
95017 GAGCAGGACA-CTCTTAAAGCCCACACAAGTTGGTGGCACCTTT--ATTCCCCAAAGAGCAGGAC
65 GAGCAGGACACCT-TTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGAC
* * *
95079 ACTTTTCTAAAGCCCCACACAA-TGGGGTGGCACCTTT-C
129 AC-CTT-TAAAG-CCCACACAAGT-TGGTGGCA-TTTTCC
* * * * *
95117 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGC-CTTTTTACTCCTCAAT
1 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTCAGTCCTCAAA
95181 GAGCAGGA
65 GAGCAGGA
95189 TACAATTTTT
Statistics
Matches: 645, Mismatches: 44, Indels: 67
0.85 0.06 0.09
Matches are distributed among these distances:
160 49 0.08
161 88 0.14
162 162 0.25
163 236 0.37
164 82 0.13
165 28 0.04
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (163 bp):
AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAG
AGCAGGACACCTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACAC
CTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:94679 original size:217 final size:217
Alignment explanation
Indices: 94302--95169 Score: 1132
Period size: 217 Copynumber: 4.0 Consensus size: 217
94292 TCCGCTTTTT
* *
94302 AGTCCCCAAAGTGCAGGACACCTCTT-AAAGCCCCACACAAGTTGGTGGCACCTTT-CAGTCCTC
1 AGTCCCCAAAGAGCAGGACACCT-TTCAAAG-CCCACACAAGTTGGTGGCA-TTTTCCAGTCCTC
* ** *
94365 AAAGAGCAGGACACCT-TTCAAGCCCACACAAGTTGGTGGCATTTTTCCAGTCCTC-AAGAGGCA
63 AAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAGA-GCA
* *
94428 GGGACACCTTTTAAGCCCACACAAG-GTGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACCTT
126 -GGACACCTTTAAAGCCCACACAAGTG-GTGGCACCTTT-CAGTCCTCAAAGAGCA-GACACCTT
*
94491 TCAAAG-CCACACAAGTTGGTGGCACCTTT-C
187 TCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
* *
94521 AGTCCCCAAAGAGCAGGACACCTTTCAAAGGCCACCCAAGTT-GTGGCATTTTCCAGTCCTC-AA
1 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
* *
94584 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACA
66 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
** *
94649 CCTTTCAAAGCCCACACAAGTCGGTGGCATTTTTCCAGTCCTCAAAGAGCAGACACCTTT-TAAG
131 CCTTT-AAAGCCCACACAAGT-GGTGGCACCTTT-CAGTCCTCAAAGAGCAGACACCTTTCAAAG
94713 -CCACAACAAGTTGGTGGCATTTTCCC
193 CCCAC-ACAAGTTGGTGGCATTTT-CC
* *
94739 A-T-CCCAAAGAGCAGGACACTTTTC-AAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAC
1 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
94801 GAGCAGGACACCTCTTAAAAGCCCACA-AAGTTGGTGGCA-CTCTTCAGTCCCCAAAGAGCAGGA
66 GAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCT-TTCAGTCCCCAAAGAGCAGGA
94864 CACCTCTTAAAGCCCACACAAGTTGGTGG-ACCTTTCAGTCCTCAAAGAGCAGACACCTTTCAAA
129 CACCT-TTAAAGCCCACACAAG-TGGTGGCACCTTTCAGTCCTCAAAGAGCAGACACCTTTCAAA
94928 GCCCACACAAGTTGGTGGCATTTTCC
192 GCCCACACAAGTTGGTGGCATTTTCC
* *
94954 AGTCCTCAAAGAACAGGACA-CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTCCAGTCCTCAAA
1 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
*
95017 GAGCAGGACA-CTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-ATTCCCCAAAGAGCAGGACA
66 GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
* * *
95080 CTTTTCTAAAGCCCCACACAATGGGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAA
131 C-CTT-TAAAG-CCCACACAA-GTGGTGGCACCTTTCAGTCCTCAAAGAGCA-GACACCTTTCAA
* *
95145 AGCCCACACGAGTTGGTGGCCTTTT
191 AGCCCACACAAGTTGGTGGCATTTT
95170 TACTCCTCAA
Statistics
Matches: 589, Mismatches: 30, Indels: 61
0.87 0.04 0.09
Matches are distributed among these distances:
214 31 0.05
215 76 0.13
216 163 0.28
217 210 0.36
218 83 0.14
219 26 0.04
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (217 bp):
AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
GAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACA
CCTTTAAAGCCCACACAAGTGGTGGCACCTTTCAGTCCTCAAAGAGCAGACACCTTTCAAAGCCC
ACACAAGTTGGTGGCATTTTCC
Found at i:96958 original size:49 final size:48
Alignment explanation
Indices: 96899--97005 Score: 178
Period size: 48 Copynumber: 2.2 Consensus size: 48
96889 TAGTTTAGGA
*
96899 CCTTTTTTTGTTTCCATGGCTTTCTTGCATTTTCATCACCATAACAGCC
1 CCTTTTTTTGTTT-CATGGCTTTCTTGCATTTTCATCAACATAACAGCC
*
96948 CTTTTTTTTGTTTCATGGCTTTCTTGCATTTTCATCAACATAACAGCC
1 CCTTTTTTTGTTTCATGGCTTTCTTGCATTTTCATCAACATAACAGCC
*
96996 CCTTGTTTTG
1 CCTTTTTTTG
97006 CATCCTTTGT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
48 42 0.78
49 12 0.22
ACGTcount: A:0.16, C:0.25, G:0.11, T:0.48
Consensus pattern (48 bp):
CCTTTTTTTGTTTCATGGCTTTCTTGCATTTTCATCAACATAACAGCC
Found at i:98667 original size:53 final size:53
Alignment explanation
Indices: 98559--98733 Score: 151
Period size: 53 Copynumber: 3.3 Consensus size: 53
98549 TTATTTCTGA
* * * * * *
98559 GGGGATTACTCCAAACCCCGACTTTCTTTTC-AAAATATCGATTTTTTCA-TAATC
1 GGGGA-TACTCC-AACCCCGATTTTATTTCCAAAAATA-CCAATTTCTCACTAATC
* * *
98613 GGGGATACTCCAACCCCGGTTTTATTTTCAAACA-ACCAATTTCTC-CTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAATACCAATTTCTCAC--TAATC
** * *
98666 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACCAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAAATACCAATTTCTCACTAATC
*
98719 GAGGATACTCCAACC
1 GGGGATACTCCAACC
98734 TCGTTATTTT
Statistics
Matches: 98, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
51 7 0.07
52 16 0.16
53 59 0.60
54 15 0.15
55 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.33
Consensus pattern (53 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAAATACCAATTTCTCACTAATC
Found at i:134706 original size:49 final size:51
Alignment explanation
Indices: 134607--134731 Score: 211
Period size: 49 Copynumber: 2.5 Consensus size: 51
134597 CGAAATATGA
134607 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATAAATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTT-ATAATGTATCGATAAATCTGGGC
*
134659 AAATTTG-CTGCATGTATCGATACATTT-TAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTATAATGTATCGATAAATCTGGGC
134708 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
134732 AAGATCAGTG
Statistics
Matches: 71, Mismatches: 1, Indels: 5
0.92 0.01 0.06
Matches are distributed among these distances:
48 3 0.04
49 41 0.58
51 20 0.28
52 7 0.10
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTTATAATGTATCGATAAATCTGGGC
Found at i:134758 original size:13 final size:13
Alignment explanation
Indices: 134740--134764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
134730 CAAAGATCAG
134740 TGTATCGATACAA
1 TGTATCGATACAA
134753 TGTATCGATACA
1 TGTATCGATACA
134765 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:134842 original size:13 final size:13
Alignment explanation
Indices: 134824--134909 Score: 82
Period size: 13 Copynumber: 5.9 Consensus size: 13
134814 CAAAAAAATA
134824 TGTATCGATACAT
1 TGTATCGATACAT
134837 TGTATCGATACAAT
1 TGTATCGATAC-AT
*
134851 TTTATGTCGATACAT
1 TGTA--TCGATACAT
134866 TGTATCGATACAACTTTT
1 TGTATCGATAC-A----T
134884 ATGTATCGATACAT
1 -TGTATCGATACAT
134898 TGTATCGATACA
1 TGTATCGATACA
134910 ACATTTTTGT
Statistics
Matches: 62, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
13 30 0.48
14 7 0.11
15 5 0.08
16 7 0.11
18 2 0.03
19 11 0.18
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:134862 original size:16 final size:16
Alignment explanation
Indices: 134841--134887 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
134831 ATACATTGTA
134841 TCGATACAATTTTATG
1 TCGATACAATTTTATG
*
134857 TCGATAC-ATTGTA--
1 TCGATACAATTTTATG
134870 TCGATACAACTTTTATG
1 TCGATACAA-TTTTATG
134887 T
1 T
134888 ATCGATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
13 7 0.28
14 1 0.04
15 9 0.36
16 7 0.28
17 1 0.04
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.43
Consensus pattern (16 bp):
TCGATACAATTTTATG
Found at i:134898 original size:32 final size:32
Alignment explanation
Indices: 134822--134922 Score: 165
Period size: 32 Copynumber: 3.2 Consensus size: 32
134812 TACAAAAAAA
134822 TATGTATCGATACATTGTATCGATACAA-TTT
1 TATGTATCGATACATTGTATCGATACAACTTT
134853 TATG--TCGATACATTGTATCGATACAACTTT
1 TATGTATCGATACATTGTATCGATACAACTTT
134883 TATGTATCGATACATTGTATCGATACAACATTT
1 TATGTATCGATACATTGTATCGATACAAC-TTT
134916 T-TGTATC
1 TATGTATC
134923 TAAAATCGTT
Statistics
Matches: 66, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
29 22 0.33
30 7 0.11
31 4 0.06
32 29 0.44
33 4 0.06
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.42
Consensus pattern (32 bp):
TATGTATCGATACATTGTATCGATACAACTTT
Found at i:134921 original size:19 final size:19
Alignment explanation
Indices: 134865--134922 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
134855 TGTCGATACA
134865 TTGTATCGATACAAC-TTT
1 TTGTATCGATACAACATTT
134883 TATGTATCGAT---ACA---
1 T-TGTATCGATACAACATTT
134897 TTGTATCGATACAACATTT
1 TTGTATCGATACAACATTT
134916 TTGTATC
1 TTGTATC
134923 TAAAATCGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 15
0.68 0.00 0.32
Matches are distributed among these distances:
13 9 0.28
14 1 0.03
16 5 0.16
18 1 0.03
19 16 0.50
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.43
Consensus pattern (19 bp):
TTGTATCGATACAACATTT
Found at i:138014 original size:20 final size:20
Alignment explanation
Indices: 137989--138044 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
137979 TTTTTACCCA
*
137989 AATGTATCGATACATTTTTT
1 AATGTATCGATACATTTTTC
* * * *
138009 AATGTATCGATGCATGTATG
1 AATGTATCGATACATTTTTC
138029 AATGTATCGATACATT
1 AATGTATCGATACATT
138045 CTGTCTTTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:138097 original size:71 final size:71
Alignment explanation
Indices: 137979--138117 Score: 215
Period size: 71 Copynumber: 2.0 Consensus size: 71
137969 AAAAGTCATA
* * *
137979 TTTTTACCCAAATGTATCGATACATTTTTTAATGTATCGATGCATGTATGAATGTATCGATACAT
1 TTTTTACCCAAATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATACAT
138044 TCTGTC
66 TCTGTC
* * * *
138050 TTTTTATCCAGATGTATTGATACATTTTTCAATATATCGATATATGTATGAATGTATCGATACAT
1 TTTTTACCCAAATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATACAT
138115 TCT
66 TCT
138118 TCAATGTATC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (71 bp):
TTTTTACCCAAATGTATCGATACATTTTTCAATATATCGATACATGTATGAATGTATCGATACAT
TCTGTC
Found at i:138123 original size:20 final size:20
Alignment explanation
Indices: 138061--138137 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
138051 TTTTATCCAG
* *
138061 ATGTATTGATACATTTTTCA
1 ATGTATCGATACATTCTTCA
* * * *
138081 ATATATCGATATATGT-ATGA
1 ATGTATCGATACAT-TCTTCA
138101 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
138121 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
138138 GTCTTTTTAC
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
19 1 0.02
20 44 0.96
21 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:140735 original size:61 final size:61
Alignment explanation
Indices: 140634--140753 Score: 154
Period size: 61 Copynumber: 2.0 Consensus size: 61
140624 GTTAAGGTAG
140634 GATAAAAGATATATTTCAATTTAATCCACCCATGAACAC-TTTCAAGTGTTTTGAATCTTAA
1 GATAAAAGATATATTTCAATTTAATCCACCCATGAACACTTTTC-AGTGTTTTGAATCTTAA
* * * * * *
140695 GATAAAGGATATATTTTAATTTAATTCACCTAT-AAGCACTTTTCATTGTTTTGGATCTT
1 GATAAAAGATATATTTCAATTTAATCCACCCATGAA-CACTTTTCAGTGTTTTGAATCTT
140754 CTGAAGAGCC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
60 2 0.04
61 45 0.88
62 4 0.08
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (61 bp):
GATAAAAGATATATTTCAATTTAATCCACCCATGAACACTTTTCAGTGTTTTGAATCTTAA
Found at i:151856 original size:32 final size:30
Alignment explanation
Indices: 151819--151976 Score: 101
Period size: 28 Copynumber: 5.3 Consensus size: 30
151809 AACTTGTGTA
151819 GGCTTTGAAAAGAGTTAACACCGACTCGTG
1 GGCTTTGAAAAGAGTTAACACCGACTCGTG
* * *
151849 TGAGCTTTGAAAAGAGTTACCACTGGCTCGTG
1 -G-GCTTTGAAAAGAGTTAACACCGACTCGTG
* * * *
151881 GGCTTTG-AAAG-GGT-GCTACTGACTTGTG
1 GGCTTTGAAAAGAGTTAAC-ACCGACTCGTG
* ** * *
151909 GGCTTTG-AAAG-GATGCCACTGACTTGTG
1 GGCTTTGAAAAGAGTTAACACCGACTCGTG
** * **
151937 GGCTTTGAAAAGAGTTGCCACTGACTTATG
1 GGCTTTGAAAAGAGTTAACACCGACTCGTG
151967 GGCTTTGAAA
1 GGCTTTGAAA
151977 GGATGCCACT
Statistics
Matches: 111, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
27 1 0.01
28 42 0.38
29 9 0.08
30 31 0.28
31 2 0.02
32 26 0.23
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (30 bp):
GGCTTTGAAAAGAGTTAACACCGACTCGTG
Found at i:151910 original size:28 final size:28
Alignment explanation
Indices: 151868--152116 Score: 327
Period size: 28 Copynumber: 8.8 Consensus size: 28
151858 AAAAGAGTTA
* * *
151868 CCACTGGCTCGTGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
151896 CTACTGACTTGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
151924 CCACTGACTTGTGGGCTTTGAAAAGAGTTG
1 CCACTGACTTGTGGGCTTTG-AAAG-GATG
*
151954 CCACTGACTTATGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
*
151982 CCACTGACTTGTGGGGCTTTGAAAGGATA
1 CCACTGACTTGT-GGGCTTTGAAAGGATG
* *
152011 CCACTAACTTGTGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
** *
152039 TTACTGACTTGTGGGCTTTAAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* *
152067 CCACTGACTTGTGGGCTTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* *
152095 CTACTGACTTGTGGGCTATGAA
1 CCACTGACTTGTGGGCTTTGAA
152117 GAGCTGAACG
Statistics
Matches: 194, Mismatches: 24, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
28 138 0.71
29 34 0.18
30 22 0.11
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (28 bp):
CCACTGACTTGTGGGCTTTGAAAGGATG
Found at i:153496 original size:53 final size:53
Alignment explanation
Indices: 153432--153568 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
153422 CTACTTCCAA
153432 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
153485 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
153538 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
153569 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:153601 original size:20 final size:20
Alignment explanation
Indices: 153538--153608 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
153528 GCCAATGTCC
**
153538 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
153558 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
153578 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
153598 TGTATCGATAC
1 TGTATCGATAC
153609 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:154811 original size:8 final size:8
Alignment explanation
Indices: 154774--154844 Score: 65
Period size: 8 Copynumber: 8.9 Consensus size: 8
154764 CCTCTTTCTA
154774 TTTTTTGT
1 TTTTTTGT
*
154782 TATTTTGT
1 TTTTTTGT
* *
154790 TTCTTGGT
1 TTTTTTGT
154798 TTTTTT-T
1 TTTTTTGT
*
154805 TTGTTT-T
1 TTTTTTGT
154812 TTTTTTGTT
1 TTTTTTG-T
*
154821 TTTTTCTAT
1 TTTTT-TGT
154830 TTTTTTGT
1 TTTTTTGT
154838 TTTTTTG
1 TTTTTTG
154845 CGTATGAAGG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
7 12 0.24
8 25 0.50
9 12 0.24
10 1 0.02
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.83
Consensus pattern (8 bp):
TTTTTTGT
Found at i:154843 original size:11 final size:11
Alignment explanation
Indices: 154796--154825 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
154786 TTGTTTCTTG
154796 GTTTTTTTTTT
1 GTTTTTTTTTT
154807 GTTTTTTTTTT
1 GTTTTTTTTTT
154818 GTTTTTTT
1 GTTTTTTT
154826 CTATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:170586 original size:16 final size:16
Alignment explanation
Indices: 170507--170592 Score: 59
Period size: 16 Copynumber: 5.4 Consensus size: 16
170497 AAATTTTATA
* * *
170507 TTATTTTTAGTTTAAA
1 TTATTTTTATTTTGAG
*
170523 TTA-TTTTATTTTGAA
1 TTATTTTTATTTTGAG
* *
170538 TCATTTTGATTTT-AGG
1 TTATTTTTATTTTGA-G
* * *
170554 TTATTTTGAGTTCGAG
1 TTATTTTTATTTTGAG
170570 TTATTTTTATTTTGAG
1 TTATTTTTATTTTGAG
*
170586 TCATTTT
1 TTATTTT
170593 AAATTCAAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
15 13 0.24
16 41 0.75
17 1 0.02
ACGTcount: A:0.22, C:0.03, G:0.13, T:0.62
Consensus pattern (16 bp):
TTATTTTTATTTTGAG
Found at i:170636 original size:22 final size:21
Alignment explanation
Indices: 170590--170636 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
170580 TTTGAGTCAT
* *
170590 TTTAAATTCAAATTAATTAGG
1 TTTAAATTCAAATTAATCAGA
*
170611 TTTAATATTCAGATTAATCAGA
1 TTTAA-ATTCAAATTAATCAGA
170633 TTTA
1 TTTA
170637 GGTTATTTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (21 bp):
TTTAAATTCAAATTAATCAGA
Found at i:170847 original size:33 final size:33
Alignment explanation
Indices: 170808--170886 Score: 149
Period size: 33 Copynumber: 2.4 Consensus size: 33
170798 AATTTGAGTC
170808 TTTTCAAGTTTAAGTTATTTTGAGTTTAAGGCA
1 TTTTCAAGTTTAAGTTATTTTGAGTTTAAGGCA
170841 TTTTCAAGTTTAAGTTATTTTGAGTTTAAGGCA
1 TTTTCAAGTTTAAGTTATTTTGAGTTTAAGGCA
*
170874 TTTTCAAATTTAA
1 TTTTCAAGTTTAA
170887 ATTGATAAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.49
Consensus pattern (33 bp):
TTTTCAAGTTTAAGTTATTTTGAGTTTAAGGCA
Found at i:170852 original size:17 final size:17
Alignment explanation
Indices: 170808--170886 Score: 81
Period size: 16 Copynumber: 4.8 Consensus size: 17
170798 AATTTGAGTC
**
170808 TTTTCAAGTTTAAGTTA
1 TTTTCAAGTTTAAGGCA
*
170825 TTTT-GAGTTTAAGGCA
1 TTTTCAAGTTTAAGGCA
**
170841 TTTTCAAGTTTAAGTTA
1 TTTTCAAGTTTAAGGCA
*
170858 TTTT-GAGTTTAAGGCA
1 TTTTCAAGTTTAAGGCA
*
170874 TTTTCAAATTTAA
1 TTTTCAAGTTTAA
170887 ATTGATAAGT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
16 26 0.53
17 23 0.47
ACGTcount: A:0.29, C:0.06, G:0.15, T:0.49
Consensus pattern (17 bp):
TTTTCAAGTTTAAGGCA
Found at i:171992 original size:13 final size:15
Alignment explanation
Indices: 171959--171991 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
171949 ATATAAAAAT
*
171959 AAAAATGTTTCACCA
1 AAAAATGTTCCACCA
171974 AAAAAT-TTCCACCA
1 AAAAATGTTCCACCA
171988 AAAA
1 AAAA
171992 TAAAAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.55, C:0.21, G:0.03, T:0.21
Consensus pattern (15 bp):
AAAAATGTTCCACCA
Found at i:172245 original size:24 final size:24
Alignment explanation
Indices: 172218--172263 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
172208 ATAATAATTT
172218 TATATTTAA-ATTTAATTATAAAAA
1 TATATTTAATATTT-ATTATAAAAA
*
172242 TATATTTAATATTTTTTATAAA
1 TATATTTAATATTTATTATAAA
172264 TAAAAACAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (24 bp):
TATATTTAATATTTATTATAAAAA
Found at i:172477 original size:16 final size:16
Alignment explanation
Indices: 172453--172486 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
172443 TATATTTTTA
172453 AATTATTATTATAAAT
1 AATTATTATTATAAAT
* *
172469 AATTTTTATTATTAAT
1 AATTATTATTATAAAT
172485 AA
1 AA
172487 CTAATGAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTATTATTATAAAT
Found at i:177848 original size:25 final size:25
Alignment explanation
Indices: 177820--177872 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
177810 ATTGACTATA
177820 TATTTT-TATTAATTAATTT-AATATT
1 TATTTTATATTAATT--TTTAAATATT
177845 TATTTTAATATTAATTTTTAAATATT
1 TATTTT-ATATTAATTTTTAAATATT
177871 TA
1 TA
177873 AAATTTCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 9 0.36
26 8 0.32
27 8 0.32
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TATTTTATATTAATTTTTAAATATT
Found at i:178035 original size:2 final size:2
Alignment explanation
Indices: 178028--178069 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
178018 TTCTAAATCT
178028 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
178070 CATAAACTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:178341 original size:2 final size:2
Alignment explanation
Indices: 178334--178397 Score: 60
Period size: 2 Copynumber: 32.5 Consensus size: 2
178324 TTTATTTGAT
* **
178334 TA TA TA TA TA TA TA TA TA TC T- TA TA TCA TA TA TA CC T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA
* *
178375 TG TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
178398 GAAAATAAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
1 2 0.04
2 49 0.92
3 2 0.04
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:179101 original size:2 final size:2
Alignment explanation
Indices: 179096--179126 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
179086 ATATATATAT
*
179096 AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
179127 CATGTGTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:179173 original size:2 final size:2
Alignment explanation
Indices: 179166--179197 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
179156 TCAATTATTG
179166 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
179198 CTTATTGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:179590 original size:19 final size:20
Alignment explanation
Indices: 179558--179595 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
179548 TTTGCACTAA
*
179558 AATTATATAATTTTTATAAG
1 AATTATATAATTTTAATAAG
*
179578 AATT-TATATTTTTAATAA
1 AATTATATAATTTTAATAA
179596 CTTTTAACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
AATTATATAATTTTAATAAG
Found at i:179746 original size:3 final size:3
Alignment explanation
Indices: 179733--179762 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
179723 AGGAAAGAGA
179733 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA
179763 AAGTTTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:180463 original size:28 final size:29
Alignment explanation
Indices: 180405--180457 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
180395 TAACAAGATA
180405 ATAATTGATTATTTTAAATAATATTTATG
1 ATAATTGATTATTTTAAATAATATTTATG
*
180434 ATAATTTATT-TTTT-AA-AATATTTA
1 ATAATTGATTATTTTAAATAATATTTA
180458 AATGATTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 2 0.09
28 4 0.17
29 9 0.39
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (29 bp):
ATAATTGATTATTTTAAATAATATTTATG
Found at i:181544 original size:2 final size:2
Alignment explanation
Indices: 181539--181576 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
181529 TCGTCTTGTA
181539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
181577 TTGACGTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:183662 original size:43 final size:43
Alignment explanation
Indices: 183600--183710 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
183590 CTAACGTCAG
* * *
183600 AGAGAGAAAGAGA--ATGAGAGAGACGAAGCCAGCAACGTTCT
1 AGAGAGAAAGAGAGCAAGAGAGAGACAAAGCCAGCAACATTCT
* *
183641 AGAGAGAAAGCGAGCTAGAGAGAGACAAAGCCAGCAACATTCT
1 AGAGAGAAAGAGAGCAAGAGAGAGACAAAGCCAGCAACATTCT
* *
183684 AGAGAGTACGAGAGCAAGAGAGAGACA
1 AGAGAGAAAGAGAGCAAGAGAGAGACA
183711 GAGAAAGACA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 12 0.20
43 47 0.80
ACGTcount: A:0.45, C:0.15, G:0.32, T:0.08
Consensus pattern (43 bp):
AGAGAGAAAGAGAGCAAGAGAGAGACAAAGCCAGCAACATTCT
Found at i:184540 original size:20 final size:20
Alignment explanation
Indices: 184505--184576 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
184495 CTACAATTTA
*
184505 TATCAATACAATAAGTGAATG
1 TATCGATAC-ATAAGTGAATG
184526 TATCGATACATAAGTGAATG
1 TATCGATACATAAGTGAATG
* ** *
184546 TATAGATACATATCTGAAATA
1 TATCGATACATAAGTG-AATG
184567 TATCGATACA
1 TATCGATACA
184577 GGACAATGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
20 24 0.55
21 20 0.45
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (20 bp):
TATCGATACATAAGTGAATG
Found at i:186949 original size:15 final size:14
Alignment explanation
Indices: 186929--186975 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
186919 AATATAATCC
186929 TAATATTATAATAAA
1 TAATATTATAAT-AA
*
186944 TAATATAATAATAA
1 TAATATTATAATAA
186958 -AATATTA-AATAA
1 TAATATTATAATAA
186970 TAATAT
1 TAATAT
186976 ATATTATCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 5 0.17
13 11 0.38
14 2 0.07
15 11 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATATTATAATAA
Found at i:186977 original size:15 final size:15
Alignment explanation
Indices: 186936--186977 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
186926 TCCTAATATT
*
186936 ATAATAAATAATATA
1 ATAATAAATATTATA
186951 ATAATAAAATATTA-A
1 ATAAT-AAATATTATA
186966 ATAATAATATAT
1 ATAATAA-ATAT
186978 ATTATCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.08
15 15 0.62
16 7 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATAAATATTATA
Found at i:188694 original size:33 final size:33
Alignment explanation
Indices: 188649--188724 Score: 100
Period size: 33 Copynumber: 2.3 Consensus size: 33
188639 TTTAAAAAAT
188649 TTTAAAATAATATTTACTCTCAATATTATTAAA
1 TTTAAAATAATATTTACTCTCAATATTATTAAA
* * * *
188682 -TTAAAAGTAATATTTATTTTTAATATTTTTAAA
1 TTTAAAA-TAATATTTACTCTCAATATTATTAAA
188715 TTTAAAATAA
1 TTTAAAATAA
188725 AAATAACTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
32 6 0.16
33 25 0.68
34 6 0.16
ACGTcount: A:0.46, C:0.04, G:0.01, T:0.49
Consensus pattern (33 bp):
TTTAAAATAATATTTACTCTCAATATTATTAAA
Done.