Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000913.1 Hibiscus syriacus cultivar Beakdansim tig00001818_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: 1610646
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 7
Found at i:4657 original size:22 final size:21
Alignment explanation
Indices: 4629--4687 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
4619 TTTTGCATAG
4629 AGTATCGATACCCCCTTGAAT
1 AGTATCGATACCCCCTTGAAT
*
4650 AAGTATCGATACCCTCTTTGAAT
1 -AGTATCGATACCC-CCTTGAAT
* *
4673 GGTATTGATACCCCC
1 AGTATCGATACCCCC
4688 CTGAGGGTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 1 0.03
22 24 0.75
23 7 0.22
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (21 bp):
AGTATCGATACCCCCTTGAAT
Found at i:4715 original size:20 final size:20
Alignment explanation
Indices: 4673--4715 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
4663 CTCTTTGAAT
* *
4673 GGTATTGATACCCCCCTGAG
1 GGTACTGATACCCCCATGAG
4693 GGTACTGATACCCTCCATG-G
1 GGTACTGATACCC-CCATGAG
4713 GGT
1 GGT
4716 CTGTTGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.26
Consensus pattern (20 bp):
GGTACTGATACCCCCATGAG
Found at i:7185 original size:19 final size:20
Alignment explanation
Indices: 7146--7185 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
7136 TAAGTGTTAA
* *
7146 TGAATTTTAAGATTTTATAT
1 TGAAATTTAAGATTATATAT
7166 TGAAATTTAA-ATTATATAT
1 TGAAATTTAAGATTATATAT
7185 T
1 T
7186 CGATTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (20 bp):
TGAAATTTAAGATTATATAT
Found at i:8827 original size:16 final size:16
Alignment explanation
Indices: 8806--8836 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
8796 GCATGCTTCC
8806 TCCCTTTTTCTCTTTT
1 TCCCTTTTTCTCTTTT
8822 TCCCTTTTTCTCTTT
1 TCCCTTTTTCTCTTT
8837 GCATCAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
TCCCTTTTTCTCTTTT
Found at i:11969 original size:14 final size:14
Alignment explanation
Indices: 11925--11974 Score: 64
Period size: 15 Copynumber: 3.4 Consensus size: 14
11915 TTCATGGGTT
*
11925 AAGAAGACAACGTCT
1 AAGAAGA-AACGTCA
11940 AAGAAGAAAACGTCA
1 AAGAAG-AAACGTCA
*
11955 AAGAAGAAACATCA
1 AAGAAGAAACGTCA
11969 AAGAAG
1 AAGAAG
11975 GAAAAGAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
14 13 0.41
15 18 0.56
16 1 0.03
ACGTcount: A:0.58, C:0.14, G:0.20, T:0.08
Consensus pattern (14 bp):
AAGAAGAAACGTCA
Found at i:11978 original size:15 final size:15
Alignment explanation
Indices: 11940--11978 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
11930 GACAACGTCT
* *
11940 AAGAAGAAAACGTCA
1 AAGAAGGAAACATCA
11955 AAGAA-GAAACATCA
1 AAGAAGGAAACATCA
11969 AAGAAGGAAA
1 AAGAAGGAAA
11979 AGAAAGCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.64, C:0.10, G:0.21, T:0.05
Consensus pattern (15 bp):
AAGAAGGAAACATCA
Found at i:17875 original size:85 final size:83
Alignment explanation
Indices: 17760--17918 Score: 185
Period size: 83 Copynumber: 1.9 Consensus size: 83
17750 TACAATCACG
* ** * * * *
17760 CACACGAATGTGTGTCGTCTTTTTTAATGACATGTGCTTCAATGAAATGCAATATAAGTCATGCA
1 CACACAAATGTGTGTCAACTTATTTAATGAC--GGGCTTCAATGAAACGCAATATAAGTCATACA
17825 TGCATGTCATAAATTTGTGA
64 TGCATGTCATAAATTTGTGA
* *
17845 CACACAAATGTGTGTCAACTTCATTT-ATGACGGGCTTCAATGACACGCAATGTAAGTCATACAT
1 CACACAAATGTGTGTCAACTT-ATTTAATGACGGGCTTCAATGAAACGCAATATAAGTCATACAT
**
17909 GTGTGTCATA
65 GCATGTCATA
17919 TTAATTTATG
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
83 36 0.58
85 23 0.37
86 3 0.05
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (83 bp):
CACACAAATGTGTGTCAACTTATTTAATGACGGGCTTCAATGAAACGCAATATAAGTCATACATG
CATGTCATAAATTTGTGA
Found at i:26719 original size:17 final size:15
Alignment explanation
Indices: 26683--26713 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
26673 AAATTCTAAA
26683 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
26698 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
26713 T
1 T
26714 TTATTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:26781 original size:28 final size:28
Alignment explanation
Indices: 26724--26783 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
26714 TTATTTTTTG
*
26724 ATAATATATTACTTTAGTATTTAAATAT
1 ATAATATATTACTTTAATATTTAAATAT
* * *
26752 ATAATGTATTATTTTAAT-TTTAATTAAT
1 ATAATATATTACTTTAATATTTAAAT-AT
26780 ATAA
1 ATAA
26784 AATTTTAGAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 6 0.22
28 21 0.78
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (28 bp):
ATAATATATTACTTTAATATTTAAATAT
Found at i:32149 original size:21 final size:20
Alignment explanation
Indices: 32115--32172 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
32105 TTGAAGTTTC
32115 AAAT-TTAAATATTTAATCTT
1 AAATCTTAAA-ATTTAATCTT
*
32135 AAAATCTTAAGATTTAAATCTT
1 -AAATCTTAAAATTT-AATCTT
*
32157 AAATTTTAAAATTTAA
1 AAATCTTAAAATTTAA
32173 AATTAAATCC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
20 2 0.06
21 20 0.62
22 10 0.31
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (20 bp):
AAATCTTAAAATTTAATCTT
Found at i:32292 original size:21 final size:22
Alignment explanation
Indices: 32250--32293 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
32240 TTTGTCTATC
* **
32250 TGATAAGTTTTTATTATTTAAA
1 TGATAAGTTTTTATGACCTAAA
32272 TGATAA-TTTTTATGACCTAAA
1 TGATAAGTTTTTATGACCTAAA
32293 T
1 T
32294 TCTAAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (22 bp):
TGATAAGTTTTTATGACCTAAA
Found at i:36950 original size:64 final size:64
Alignment explanation
Indices: 36882--37098 Score: 174
Period size: 64 Copynumber: 3.4 Consensus size: 64
36872 TTGAAGGTGT
** * * *
36882 ATCGATGCATTGGTAGTGCATCGATACA-CTCTTTTAA-AA-AAATTACATCGAATGCAATTCGT
1 ATCGATGCATAAGTAGTGCATCGATACATCTC-ATTAATAAGAAA--ACATCAAATGCAATTAGT
36944 GC
63 GC
* *
36946 ATCGATGCATAAGTAGTGCATCGATGCATCTCATTAATAAGGAAACATCAAATGCAATTAGTGC
1 ATCGATGCATAAGTAGTGCATCGATACATCTCATTAATAAGAAAACATCAAATGCAATTAGTGC
* * * * * * * * * *
37010 ATCGATGCATAAGGCA-TGCATAGATGCATCCCAGTGATAATACAACATCGAATGCATTTTA-TG
1 ATCGATGCATAA-GTAGTGCATCGATACATCTCATTAATAAGAAAACATCAAATGCA-ATTAGTG
37073 C
64 C
* **
37074 ACCGATGCATCGGTAGTGCATCGAT
1 ATCGATGCATAAGTAGTGCATCGAT
37099 GCATACTTTT
Statistics
Matches: 125, Mismatches: 22, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
63 2 0.02
64 111 0.89
65 10 0.08
66 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATACATCTCATTAATAAGAAAACATCAAATGCAATTAGTGC
Found at i:37100 original size:64 final size:63
Alignment explanation
Indices: 36926--37102 Score: 178
Period size: 64 Copynumber: 2.8 Consensus size: 63
36916 TAAAAAAATT
** * * *
36926 ACATCGAATGCAATTCGTGCATCGATGCATAAGTAGTGCATCGATGCATCTCATTAATAAGGAA
1 ACATCGAATGC-ATTTATGCATCGATGCATAGGTAGTGCATCGATGCATCCCAGTAATAAGGAA
* * * * * *
36990 ACATCAAATGCAATTAGTGCATCGATGCATAAGGCA-TGCATAGATGCATCCCAGTGATAA-TAC
1 ACATCGAATGCATTTA-TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCAGTAATAAGGA-
37053 A
63 A
* *
37054 ACATCGAATGCATTTTATGCACCGATGCATCGGTAGTGCATCGATGCAT
1 ACATCGAATGCA-TTTATGCATCGATGCATAGGTAGTGCATCGATGCAT
37103 ACTTTTATTG
Statistics
Matches: 91, Mismatches: 17, Indels: 10
0.77 0.14 0.08
Matches are distributed among these distances:
63 6 0.07
64 79 0.87
65 6 0.07
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (63 bp):
ACATCGAATGCATTTATGCATCGATGCATAGGTAGTGCATCGATGCATCCCAGTAATAAGGAA
Found at i:38372 original size:31 final size:31
Alignment explanation
Indices: 38260--38384 Score: 128
Period size: 31 Copynumber: 4.0 Consensus size: 31
38250 GTCGAGGGTA
* *
38260 TACCTATGTTCTACGGAACATATTGACAGAAT
1 TACCTATGTTCTACGGAACATATGGACAG-TT
* *
38292 TACCTATG-TCTTTC-GAGACATATGGACAGTA
1 TACCTATGTTC-TACGGA-ACATATGGACAGTT
*
38323 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
* * * *
38354 TACCTAGGTTCTTCGGAACCTATGGATAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
38385 GCCGAGGATC
Statistics
Matches: 77, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
31 52 0.68
32 25 0.32
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTT
Found at i:38412 original size:30 final size:30
Alignment explanation
Indices: 38371--38441 Score: 124
Period size: 30 Copynumber: 2.4 Consensus size: 30
38361 GTTCTTCGGA
* *
38371 ACCTATGGATAGTTGCCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
38401 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCGAGGATCTTTATG
38431 ACCTCTGGATA
1 ACCTCTGGATA
38442 TGTCCTTCGG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCGAGGATCTTTATG
Found at i:40919 original size:31 final size:31
Alignment explanation
Indices: 40844--40919 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
40834 GTCTTTCGAG
* *
40844 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGTTTACCTAGGTTCTAAGGA
* **
40875 ATATATGGACAGTTTACCTAGGTTCTTCGGA
1 ACATATGGACAGTTTACCTAGGTTCTAAGGA
*
40906 ACCTATGGACAGTT
1 ACATATGGACAGTT
40920 GTCGAGGATC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (31 bp):
ACATATGGACAGTTTACCTAGGTTCTAAGGA
Found at i:45659 original size:12 final size:12
Alignment explanation
Indices: 45642--45666 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45632 TGATTCGACG
45642 ACGCTCATCACC
1 ACGCTCATCACC
45654 ACGCTCATCACC
1 ACGCTCATCACC
45666 A
1 A
45667 ACGCAGCACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.48, G:0.08, T:0.16
Consensus pattern (12 bp):
ACGCTCATCACC
Found at i:46930 original size:5 final size:5
Alignment explanation
Indices: 46916--46949 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
46906 TTCATTCACC
*
46916 AATAT CATAT AATAT AATAT AATAT AATACT AAT
1 AATAT AATAT AATAT AATAT AATAT AATA-T AAT
46950 TAACTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:54126 original size:20 final size:21
Alignment explanation
Indices: 54101--54152 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
54091 TTTTCCCAAT
*
54101 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
54121 TCGCAATGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
54142 TCGCAATGCGA
1 TCGCAATGCGA
54153 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:54166 original size:20 final size:20
Alignment explanation
Indices: 54141--54295 Score: 170
Period size: 20 Copynumber: 7.7 Consensus size: 20
54131 AATTGGGAAA
54141 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
54161 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
54181 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* *
54201 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
54222 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
54242 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
* * *
54262 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
54282 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
54296 TTTCAAAGCG
Statistics
Matches: 117, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
19 4 0.03
20 87 0.74
21 24 0.21
22 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:54210 original size:81 final size:82
Alignment explanation
Indices: 54138--54295 Score: 221
Period size: 81 Copynumber: 1.9 Consensus size: 82
54128 GCGAATTGGG
* * * * *
54138 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTGACTATCGCAATGCGATACTGAC-T-
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAAT-ACATA
54201 ATCGCAATGCGATAATAC
65 ATCGCAATGCGATAATAC
* * *
54219 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATACATAA
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACATAA
54284 TCGCAATGCGAT
66 TCGCAATGCGAT
54296 TTTCAAAGCG
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
80 2 0.03
81 52 0.78
82 13 0.19
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (82 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACATAA
TCGCAATGCGATAATAC
Found at i:54226 original size:61 final size:61
Alignment explanation
Indices: 54161--54295 Score: 198
Period size: 61 Copynumber: 2.2 Consensus size: 61
54151 GATACTGACT
* *
54161 ATCGCAATGCGATACTGACTATCGCAATGCGATACTGACTATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
* * * * * *
54222 ATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATACATA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
54283 ATCGCAATGCGAT
1 ATCGCAATGCGAT
54296 TTTCAAAGCG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (61 bp):
ATCGCAATGCGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATACAAA
Found at i:54491 original size:22 final size:22
Alignment explanation
Indices: 54463--54506 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
54453 CACTCTCTCA
54463 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
54485 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
54507 TATCTTCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:54764 original size:19 final size:19
Alignment explanation
Indices: 54714--54756 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
54704 CAACCGAGAA
54714 TCGCAACGCGATTTTAGTT
1 TCGCAACGCGATTTTAGTT
54733 TCGCAACGCGATTTTAGTT
1 TCGCAACGCGATTTTAGTT
54752 TCGCA
1 TCGCA
54757 TTGCGATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (19 bp):
TCGCAACGCGATTTTAGTT
Found at i:54794 original size:20 final size:20
Alignment explanation
Indices: 54769--54837 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
54759 GCGATTCTCT
54769 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
54789 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
54809 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
54829 TGTTGCGAT
1 CGTTGCGAT
54838 TTTCATTTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:54843 original size:20 final size:20
Alignment explanation
Indices: 54769--54847 Score: 95
Period size: 20 Copynumber: 4.0 Consensus size: 20
54759 GCGATTCTCT
**
54769 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
**
54789 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
54809 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
54829 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
54848 AGAAACTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:55038 original size:25 final size:24
Alignment explanation
Indices: 54984--55038 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
54974 TGTTTATTAT
* *
54984 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
55008 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
55034 TGTTT
1 TGTTT
55039 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:56186 original size:18 final size:18
Alignment explanation
Indices: 56165--56209 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
56155 TCCACTTCGG
*
56165 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
56183 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
56201 GAGCCATCA
1 GAGCCATCA
56210 TCTGATCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:56743 original size:19 final size:20
Alignment explanation
Indices: 56700--56744 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
56690 CGCAACATGA
56700 AAATGACTATCGCAATGCGG
1 AAATGACTATCGCAATGCGG
*
56720 AAATGTCTATCGCAATGC-G
1 AAATGACTATCGCAATGCGG
56739 AAATGA
1 AAATGA
56745 AAATCGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.22
Consensus pattern (20 bp):
AAATGACTATCGCAATGCGG
Found at i:56750 original size:19 final size:19
Alignment explanation
Indices: 56708--56824 Score: 92
Period size: 19 Copynumber: 6.6 Consensus size: 19
56698 GAAAATGACT
***
56708 ATCGCAATGCGGAAATGTCT
1 ATCGCAATGC-GAAATGAAA
56728 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
56747 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
56761 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
56780 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
56794 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
56813 GTTGCAATGCGA
1 ATCGCAATGCGA
56825 TTTGTGTTTC
Statistics
Matches: 78, Mismatches: 9, Indels: 21
0.72 0.08 0.19
Matches are distributed among these distances:
14 20 0.26
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 36 0.46
20 10 0.13
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:56763 original size:14 final size:14
Alignment explanation
Indices: 56744--56800 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
56734 ATGCGAAATG
56744 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
56758 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
56777 AAAATCGCAACGAC
1 AAAATCGCAACGAC
56791 AAAATCGCAA
1 AAAATCGCAA
56801 TGCGAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.51, C:0.23, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:56770 original size:33 final size:33
Alignment explanation
Indices: 56728--56812 Score: 170
Period size: 33 Copynumber: 2.6 Consensus size: 33
56718 GGAAATGTCT
56728 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
56761 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
56794 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
56813 GTTGCAATGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.48, C:0.20, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:56855 original size:14 final size:14
Alignment explanation
Indices: 56836--56893 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
56826 TTGTGTTTCG
56836 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
56850 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
56866 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
56882 CGTTGCGATTTT
1 CGTTGCGATTTT
56894 TATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:56904 original size:33 final size:33
Alignment explanation
Indices: 56820--56942 Score: 167
Period size: 33 Copynumber: 3.8 Consensus size: 33
56810 AAAGTTGCAA
** *
56820 TGCGATTTGTGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTGCATTTCGCATTGCGATTTTGTCGT
56853 TGCGATTT-CATTTCGCATTGCGATTTTGTCGT
1 TGCGATTTGCATTTCGCATTGCGATTTTGTCGT
** * *
56885 TGCGATTTTTATTTCGCATTACGATTTTGTCTT
1 TGCGATTTGCATTTCGCATTGCGATTTTGTCGT
*
56918 TGCGATTTGCATTTCACATTGCGAT
1 TGCGATTTGCATTTCGCATTGCGAT
56943 AGCCATTTCC
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
32 29 0.37
33 50 0.63
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (33 bp):
TGCGATTTGCATTTCGCATTGCGATTTTGTCGT
Found at i:56910 original size:65 final size:66
Alignment explanation
Indices: 56820--56942 Score: 185
Period size: 65 Copynumber: 1.9 Consensus size: 66
56810 AAAGTTGCAA
* * * *
56820 TGCGATTTGTGTTTCGCGTTGCGATTTTGTCGTTGCGATTT-CATTTCGCATTGCGATTTTGTCG
1 TGCGATTTGTATTTCGCATTACGATTTTGTCGTTGCGATTTGCATTTCACATTGCGATTTTGTCG
56884 T
66 T
* *
56885 TGCGATTTTTATTTCGCATTACGATTTTGTCTTTGCGATTTGCATTTCACATTGCGAT
1 TGCGATTTGTATTTCGCATTACGATTTTGTCGTTGCGATTTGCATTTCACATTGCGAT
56943 AGCCATTTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
65 36 0.71
66 15 0.29
ACGTcount: A:0.13, C:0.17, G:0.22, T:0.48
Consensus pattern (66 bp):
TGCGATTTGTATTTCGCATTACGATTTTGTCGTTGCGATTTGCATTTCACATTGCGATTTTGTCG
T
Found at i:56983 original size:20 final size:20
Alignment explanation
Indices: 56917--56983 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
56907 GATTTTGTCT
*
56917 TTGCGATTTG-CATTT-CACA
1 TTGCGA-TTGCCATTTCCGCA
*
56936 TTGCGATAGCCATTTCCGCA
1 TTGCGATTGCCATTTCCGCA
* * *
56956 TTGCGATTGTCATTTTCGCG
1 TTGCGATTGCCATTTCCGCA
56976 TTGCGATT
1 TTGCGATT
56984 TTAAGTTTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
18 2 0.05
19 11 0.28
20 27 0.68
ACGTcount: A:0.16, C:0.22, G:0.21, T:0.40
Consensus pattern (20 bp):
TTGCGATTGCCATTTCCGCA
Found at i:57444 original size:41 final size:41
Alignment explanation
Indices: 57348--57435 Score: 122
Period size: 41 Copynumber: 2.1 Consensus size: 41
57338 GACTCACCTG
* * *
57348 TCATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCACTA
* *
57390 TCCTCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
57431 TCATC
1 TCATC
57436 GTTGAAGAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.22, C:0.43, G:0.15, T:0.20
Consensus pattern (41 bp):
TCATCCCTCAAGAGTCCCCCCCACCGTTCAAGAGGCCACTA
Found at i:58881 original size:14 final size:14
Alignment explanation
Indices: 58847--58885 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
58837 TTGATTGTTT
58847 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
58861 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
58875 TGTTGATTTGT
1 AATTGATTTGT
58886 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:59046 original size:19 final size:19
Alignment explanation
Indices: 59022--59089 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
59012 ATCACAACGA
59022 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
59041 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
59060 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
59074 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
59090 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:59195 original size:20 final size:20
Alignment explanation
Indices: 59116--59203 Score: 97
Period size: 20 Copynumber: 4.4 Consensus size: 20
59106 CGATTTTCTA
59116 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
* *** *
59136 GTTGTGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
*
59156 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
59176 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
*
59196 GTTACGAT
1 GTTGCGAT
59204 TTCCCCGTTG
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
19 3 0.06
20 47 0.89
21 3 0.06
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:59760 original size:12 final size:12
Alignment explanation
Indices: 59741--59774 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
59731 CTCTCCGGCG
59741 ACATCCGTTCCT
1 ACATCCGTTCCT
*
59753 ATATCCGTTCCT
1 ACATCCGTTCCT
59765 ACATCC-TTCC
1 ACATCCGTTCC
59775 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:60388 original size:24 final size:24
Alignment explanation
Indices: 60329--60382 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
60319 GTATTCGAAA
* *
60329 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATATTGTTCAATACTCGGAC
*
60353 TTTGATATTGTTCAATACTCGGAT
1 TTTGATATTGTTCAATACTCGGAC
60377 TTTGAT
1 TTTGAT
60383 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (24 bp):
TTTGATATTGTTCAATACTCGGAC
Found at i:60574 original size:12 final size:12
Alignment explanation
Indices: 60557--60593 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
60547 ATATAATCCT
60557 GAAGAAGAAAAA
1 GAAGAAGAAAAA
*
60569 GAAGAAGACAAA
1 GAAGAAGAAAAA
60581 GAAGAAGAAAAA
1 GAAGAAGAAAAA
60593 G
1 G
60594 TCCCCGAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.70, C:0.03, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:62909 original size:19 final size:19
Alignment explanation
Indices: 62884--63000 Score: 101
Period size: 19 Copynumber: 6.7 Consensus size: 19
62874 GGAAATTACT
62884 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
62903 ATAGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
62917 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
62936 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* **
62955 ATCACAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
62969 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
62988 ATCGCAACGCGAA
1 ATCGCAATGCGAA
63001 TTTAATTTCG
Statistics
Matches: 76, Mismatches: 12, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
14 17 0.22
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 47 0.62
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:62948 original size:52 final size:52
Alignment explanation
Indices: 62884--63000 Score: 200
Period size: 52 Copynumber: 2.2 Consensus size: 52
62874 GGAAATTACT
*
62884 ATCGCAATGCGAAATGAAAAT-AGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAAATCA-CAACGAGAGAATCGCAATGCGAAATGAAA
*
62936 ATCGCAACGCGAAATGAAAATCACAACGAGGGAATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAA
62988 ATCGCAACGCGAA
1 ATCGCAACGCGAA
63001 TTTAATTTCG
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 61 0.98
53 1 0.02
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (52 bp):
ATCGCAACGCGAAATGAAAATCACAACGAGAGAATCGCAATGCGAAATGAAA
Found at i:63028 original size:14 final size:14
Alignment explanation
Indices: 63011--63067 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
63001 TTTAATTTCG
63011 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
63025 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
63044 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
63058 CGTTGCGATT
1 CGTTGCGATT
63068 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:63047 original size:33 final size:33
Alignment explanation
Indices: 62996--63085 Score: 153
Period size: 33 Copynumber: 2.7 Consensus size: 33
62986 AAATCGCAAC
* *
62996 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
63029 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
*
63062 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
63086 AGTACTTTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.13, C:0.22, G:0.21, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
Found at i:63049 original size:19 final size:19
Alignment explanation
Indices: 63025--63085 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
63015 GCGATTCTCT
63025 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
63044 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
63058 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
63077 CATTGCGAT
1 CGTTGCGAT
63086 AGTACTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:63211 original size:14 final size:14
Alignment explanation
Indices: 63192--63228 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
63182 CATCAATTAA
63192 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
63206 ACAAATCACCTTTT
1 ACAAATCAACTTTT
63220 ACAAATCAA
1 ACAAATCAA
63229 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:64652 original size:21 final size:21
Alignment explanation
Indices: 64586--64652 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
64576 GTGAATCGGG
*
64586 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
64606 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
64628 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
64649 CTCT
1 CTCT
64653 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:64671 original size:42 final size:41
Alignment explanation
Indices: 64586--64708 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
64576 GTGAATCGGG
* * * *
64586 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
64628 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
64670 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
64709 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:64985 original size:17 final size:17
Alignment explanation
Indices: 64963--64995 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
64953 ATACTAACTT
64963 CACAGTGTTA-AAGAATA
1 CACAGT-TTAGAAGAATA
64980 CACAGTTTAGAAGAAT
1 CACAGTTTAGAAGAAT
64996 TGGCAGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (17 bp):
CACAGTTTAGAAGAATA
Found at i:65105 original size:91 final size:90
Alignment explanation
Indices: 64926--65110 Score: 282
Period size: 91 Copynumber: 2.0 Consensus size: 90
64916 ATTTCAAACT
*
64926 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGA
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGA
64991 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
*
65019 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGAA
* *
65083 GTATTGGCAGTAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
65110 T
1 T
65111 AAGCAATCTA
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
91 40 0.47
93 19 0.22
95 27 0.31
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGAAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:66874 original size:33 final size:33
Alignment explanation
Indices: 66817--66904 Score: 158
Period size: 33 Copynumber: 2.6 Consensus size: 33
66807 ACGAGATAAT
*
66817 GAGAATCGCAACGCGGAAATGACTATCGCAATGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
66851 GAGAATCGCAACGCGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
66884 GAGAATCGCAACGCGAAATGA
1 GAGAATCGCAACGCGAAATGA
66905 AAATCGTAAT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 39 0.74
34 14 0.26
ACGTcount: A:0.40, C:0.22, G:0.26, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:66879 original size:19 final size:17
Alignment explanation
Indices: 66819--66957 Score: 80
Period size: 19 Copynumber: 8.2 Consensus size: 17
66809 GAGATAATGA
66819 GAATCGCAACGCGGAAAT
1 GAATCGCAACGC-GAAAT
* *
66837 GACTATCGCAA--TGAGA-
1 GA--ATCGCAACGCGAAAT
66853 GAATCGCAACGCGAAAT
1 GAATCGCAACGCGAAAT
*
66870 GACTATCGCAA--CGAGA-
1 GA--ATCGCAACGCGAAAT
66886 GAATCGCAACGCGAAAT
1 GAATCGCAACGCGAAAT
* *
66903 GAAAATCGTAATGCGAAAT
1 G--AATCGCAACGCGAAAT
*
66922 GAGAATCGCAA--CGAGA-
1 --GAATCGCAACGCGAAAT
66938 GAATCGCAACGCGAAAT
1 GAATCGCAACGCGAAAT
66955 GAA
1 GAA
66958 AATCGCAATG
Statistics
Matches: 93, Mismatches: 11, Indels: 35
0.67 0.08 0.25
Matches are distributed among these distances:
14 23 0.25
16 15 0.16
17 17 0.18
18 2 0.02
19 28 0.30
20 7 0.08
21 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (17 bp):
GAATCGCAACGCGAAAT
Found at i:66923 original size:52 final size:52
Alignment explanation
Indices: 66854--66970 Score: 198
Period size: 52 Copynumber: 2.2 Consensus size: 52
66844 GCAATGAGAG
* *
66854 AATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGACAATCGCAACGAGAGAATCGCAACGCGAAATGAA
* *
66906 AATCGTAATGCGAAATGAGAATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGACAATCGCAACGAGAGAATCGCAACGCGAAATGAA
66958 AATCGCAATGCGA
1 AATCGCAATGCGA
66971 TTTTGGTTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 60 1.00
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.13
Consensus pattern (52 bp):
AATCGCAATGCGAAATGACAATCGCAACGAGAGAATCGCAACGCGAAATGAA
Found at i:66939 original size:14 final size:14
Alignment explanation
Indices: 66922--66948 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
66912 AATGCGAAAT
66922 GAGAATCGCAACGA
1 GAGAATCGCAACGA
66936 GAGAATCGCAACG
1 GAGAATCGCAACG
66949 CGAAATGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.22, G:0.30, T:0.07
Consensus pattern (14 bp):
GAGAATCGCAACGA
Found at i:66999 original size:19 final size:19
Alignment explanation
Indices: 66966--67031 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
66956 AAAATCGCAA
**
66966 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
66985 TGCGATTTTTATTTCTCGT
1 TGCGATTTTTATTTCGCGT
**
67004 TGCGATAGTTATTTCCGCG-
1 TGCGATTTTTATTT-CGCGT
67023 TGCGATTTT
1 TGCGATTTT
67032 CATTCTCGAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 35 0.92
20 3 0.08
ACGTcount: A:0.11, C:0.17, G:0.24, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:67619 original size:21 final size:21
Alignment explanation
Indices: 67593--67648 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
67583 TGCGATTTAT
67593 TGCGAATTAGGAAAATCGCAA
1 TGCGAATTAGGAAAATCGCAA
* *
67614 TGCGAA-TACGTAAATCGCAA
1 TGCGAATTAGGAAAATCGCAA
67634 TGCGAATTAGGAAAA
1 TGCGAATTAGGAAAA
67649 ATGTATTGCG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (21 bp):
TGCGAATTAGGAAAATCGCAA
Found at i:67762 original size:21 final size:22
Alignment explanation
Indices: 67710--67762 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
67700 ATTTACTTAT
67710 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
67731 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
67752 TCGCATTGCGA
1 TCGCATTGCGA
67763 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:69071 original size:104 final size:105
Alignment explanation
Indices: 68727--69412 Score: 1071
Period size: 105 Copynumber: 6.6 Consensus size: 105
68717 TTTGTCGGAT
* * * **
68727 GAGTTCTT-TCATTATG-ACTCTTCTGGAAATGTCGATTCACCTCCTTCTGGGGTTAATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
* *
68790 GGAACATGCTCTTCTCATTATGAACCTTCTCCTTTAAGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
*
68830 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCGTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
* *
68895 GGAACATACTCTTCTCATTACGAACCTTCTCCTTTAAGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
*
68935 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
*
69000 GG-ACATGCTCTTCTCATTACGTACCTTCTCCTTTAGGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* *
69039 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCCCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
*
69104 GGAACAGGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* *
69144 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGGTCACCTCCTTCTGTGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
* * *
69209 GGAACAAGTTCTTCTCATTATGAACCTTCT-CTTTAGGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* *
69248 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGGTCACCTCCTTCTGTGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
* *
69313 GGAACATG--CTTCTCATTACAAACCTTCACCTTTAGGAC
66 GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
* * * *
69351 GAGTTC-TCTCATTATGAACTGTTCTGGAAATATTGGGTCACCTCCTTCTGTGGTGGATTTGA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGA
69413 TTGTTGTTGA
Statistics
Matches: 550, Mismatches: 29, Indels: 9
0.94 0.05 0.02
Matches are distributed among these distances:
102 71 0.13
103 23 0.04
104 189 0.34
105 267 0.49
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (105 bp):
GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
GGAACATGCTCTTCTCATTACGAACCTTCTCCTTTAGGAC
Found at i:69095 original size:209 final size:209
Alignment explanation
Indices: 68727--69412 Score: 1078
Period size: 209 Copynumber: 3.3 Consensus size: 209
68717 TTTGTCGGAT
* * ** * **
68727 GAGTTCTT-TCATTATG-ACTCTTCTGGAAATGTCGATTCACCTCCTTCTGGGGTTAATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGGTCACCTCCTTCTGTGGTGGATTTGAAA
*
68790 GGAACATGCTCTTCTCATTATGAACCTTCTCCTTTAAGACGAGTTCTTCTCATTATGAACTCTTC
66 GGAACATGCTCTTCTCATTATGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
*
68855 TGGAAATGTTGGTTCACCTCGTTCTGCGGTGGATTTGAAAGGAACATACTCTTCTCATTACGAAC
131 TGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAAGGAACAT-CTCTTCTCATTACGAAC
*
68920 CTTCTCCTTTAAGAC
195 CTTCTCCTTTAGGAC
* *
68935 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGTTCACCTCCTTCTGCGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGGTCACCTCCTTCTGTGGTGGATTTGAAA
* *
69000 GG-ACATGCTCTTCTCATTACGTACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
66 GGAACATGCTCTTCTCATTATGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
* * *
69064 TGGAAATATTGGTTCACCCCCTTCTGCGGTGGATTTGAAAGGAACAGGCTCTTCTCATTACGAAC
131 TGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAAGGAACA-TCTCTTCTCATTACGAAC
69129 CTTCTCCTTTAGGAC
195 CTTCTCCTTTAGGAC
*
69144 GAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGGTCACCTCCTTCTGTGGTGGATTTGAAA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGGTCACCTCCTTCTGTGGTGGATTTGAAA
* *
69209 GGAACAAGTTCTTCTCATTATGAACCTTCT-CTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
66 GGAACATGCTCTTCTCATTATGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
* * * *
69273 TGGAAATGTTGGGTCACCTCCTTCTGTGGTGGATTTGAAAGGAACAT-GCTTCTCATTACAAACC
131 TGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAAGGAACATCTCTTCTCATTACGAACC
*
69337 TTCACCTTTAGGAC
196 TTCTCCTTTAGGAC
*
69351 GAGTTC-TCTCATTATGAACTGTTCTGGAAATATTGGGTCACCTCCTTCTGTGGTGGATTTGA
1 GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGGTCACCTCCTTCTGTGGTGGATTTGA
69413 TTGTTGTTGA
Statistics
Matches: 443, Mismatches: 31, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
206 54 0.12
207 34 0.08
208 8 0.02
209 281 0.63
210 66 0.15
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (209 bp):
GAGTTCTTCTCATTATGAACTCTTCTGGAAATATTGGGTCACCTCCTTCTGTGGTGGATTTGAAA
GGAACATGCTCTTCTCATTATGAACCTTCTCCTTTAGGACGAGTTCTTCTCATTATGAACTCTTC
TGGAAATGTTGGTTCACCTCCTTCTGCGGTGGATTTGAAAGGAACATCTCTTCTCATTACGAACC
TTCTCCTTTAGGAC
Found at i:70335 original size:19 final size:18
Alignment explanation
Indices: 70313--70438 Score: 89
Period size: 19 Copynumber: 6.7 Consensus size: 18
70303 CGAACCCTCC
70313 TTTTTCTTTTTTCTTTTCA
1 TTTTT-TTTTTTCTTTTCA
**
70332 TTTTTTAATTT-TTTTCA
1 TTTTTTTTTTTCTTTTCA
70349 TTTTTTTTCATTT-TTTTCA
1 TTTTTTTT--TTTCTTTTCA
* *
70368 TTTTATTTTTTATTTT-A
1 TTTTTTTTTTTCTTTTCA
70385 TTTTTTATTTTTTCTTTTTCA
1 -TTTTT-TTTTTTC-TTTTCA
*
70406 CTTTTTCATTTTTTC-ATTCA
1 -TTTTT--TTTTTTCTTTTCA
70426 TTCTTTTTTTTTC
1 TT-TTTTTTTTTC
70439 AAGCATAGTA
Statistics
Matches: 89, Mismatches: 9, Indels: 19
0.76 0.08 0.16
Matches are distributed among these distances:
17 16 0.18
18 19 0.21
19 29 0.33
20 11 0.12
21 6 0.07
22 8 0.09
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTTTTTTCTTTTCA
Found at i:70337 original size:8 final size:8
Alignment explanation
Indices: 70326--70423 Score: 78
Period size: 8 Copynumber: 12.0 Consensus size: 8
70316 TTCTTTTTTC
70326 TTTTCATT
1 TTTTCATT
*
70334 TTTTAATTT
1 TTTTCA-TT
70343 TTTTCATTTT
1 TTTTCA--TT
70353 TTTTCATTT
1 TTTTCA-TT
70362 TTTTCATT
1 TTTTCATT
*
70370 TTATT-TTT
1 TT-TTCATT
*
70378 TATTTTATT
1 T-TTTCATT
70387 TTTT-ATT
1 TTTTCATT
70394 TTTTC--T
1 TTTTCATT
*
70400 TTTTCACT
1 TTTTCATT
70408 TTTTCATT
1 TTTTCATT
70416 TTTTCATT
1 TTTTCATT
70424 CATTCTTTTT
Statistics
Matches: 77, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
6 6 0.08
7 7 0.09
8 33 0.43
9 22 0.29
10 9 0.12
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTCATT
Found at i:70364 original size:41 final size:41
Alignment explanation
Indices: 70313--70419 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 41
70303 CGAACCCTCC
70313 TTTTTC-TTTTTTC-TTTTCATTTTTTAATTTT-TTTCATT-T
1 TTTTTCTTTTTTTCATTTTCATTTTTT-ATTTTATTT-ATTAT
*
70352 TTTTTCATTTTTTTCATTTT-ATTTTTTATTTTATTTTTTAT
1 TTTTTC-TTTTTTTCATTTTCATTTTTTATTTTATTTATTAT
** *
70393 TTTTTCTTTTTCACTTTTTCATTTTTT
1 TTTTTCTTTTTTTCATTTTCATTTTTT
70420 CATTCATTCT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
39 6 0.10
40 17 0.29
41 31 0.53
42 4 0.07
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.79
Consensus pattern (41 bp):
TTTTTCTTTTTTTCATTTTCATTTTTTATTTTATTTATTAT
Found at i:70437 original size:41 final size:38
Alignment explanation
Indices: 70313--70438 Score: 111
Period size: 36 Copynumber: 3.3 Consensus size: 38
70303 CGAACCCTCC
* *
70313 TTTTTCTTTTTTC-TTTTCATTTTTTAATTTTT-TTCAT
1 TTTTTATTTTTTCTTTTTCA-TTTTTATTTTTTATTCAT
** *
70350 TTTTT-TTCATT-TTTTTCA-TTTTATTTTTTATTTTAT
1 TTTTTATTTTTTCTTTTTCATTTTTATTTTTTA-TTCAT
70386 TTTTTATTTTTTCTTTTTCACTTTTTCATTTTTTCATTCAT
1 TTTTTATTTTTTCTTTTTCA-TTTTT-ATTTTTT-ATTCAT
*
70427 TCTTT-TTTTTTC
1 TTTTTATTTTTTC
70439 AAGCATAGTA
Statistics
Matches: 72, Mismatches: 8, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
34 10 0.14
36 19 0.26
37 9 0.12
38 7 0.10
40 11 0.15
41 15 0.21
42 1 0.01
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (38 bp):
TTTTTATTTTTTCTTTTTCATTTTTATTTTTTATTCAT
Found at i:73964 original size:14 final size:14
Alignment explanation
Indices: 73945--73971 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
73935 AAATGAATGT
73945 AAAGAATGAAGAAC
1 AAAGAATGAAGAAC
73959 AAAGAATGAAGAA
1 AAAGAATGAAGAA
73972 TGAAATGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.04, G:0.22, T:0.07
Consensus pattern (14 bp):
AAAGAATGAAGAAC
Found at i:85876 original size:41 final size:42
Alignment explanation
Indices: 85819--85926 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
85809 ACCCGAAGGT
* *
85819 CTTATAGATGGCCCGAAGGACTT-ATCATCT-TGCTCGAAAGA
1 CTTATAGATGACCCGAAGGACTTAAGCAT-TATGCTCGAAAGA
*
85860 CTTATAGATGACCCGAAGGATTTAAGCATTATGCTCGAAAGA
1 CTTATAGATGACCCGAAGGACTTAAGCATTATGCTCGAAAGA
*
85902 CTTACT-GATGACCCGAAGGATTTAA
1 CTTA-TAGATGACCCGAAGGACTTAA
85927 AAATCAAGAA
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
41 22 0.36
42 38 0.62
43 1 0.02
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (42 bp):
CTTATAGATGACCCGAAGGACTTAAGCATTATGCTCGAAAGA
Found at i:86066 original size:90 final size:90
Alignment explanation
Indices: 85908--86285 Score: 535
Period size: 90 Copynumber: 4.2 Consensus size: 90
85898 AAGACTTACT
* * * *
85908 GATGACCCGAAGGATTTAAAAATCAAGAAACCCCTGAAGGCTTAGTTT-TTAAAATCTCATTTGG
1 GATGACCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTT-AAATCTCATTTGA
85972 AAACATCCTGCACTGAAGGTCTTATG
65 AAACATCCTGCACTGAAGGTCTTATG
* *
85998 GATAACCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTTATTTGAA
1 GATGACCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAA
** * *
86063 AACATTATGTACTAAAGGTCTTATG
66 AACATCCTGCACTGAAGGTCTTATG
* * * *
86088 GATGGCCCGAAGGACTTATAAATCAAGAAACCCCCAAAGGCTTAGTTTCTAAAATCTCATTTGAA
1 GATGACCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAA
*
86153 AACATCCTGCACTGAAAGTCTTATG
66 AACATCCTGCACTGAAGGTCTTATG
* *
86178 GATGGCCTGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAA
1 GATGACCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAA
* *
86243 AACATCCTGCACT-ATAGGTATTATA
66 AACATCCTGCACTGA-AGGTCTTATG
* *
86268 GATGGCCTGAAGGACTTA
1 GATGACCCGAAGGACTTA
86286 TCATCTTGCT
Statistics
Matches: 258, Mismatches: 28, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
89 1 0.00
90 255 0.99
91 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (90 bp):
GATGACCCGAAGGACTTACAAATCAAGAAACCCCCGAAGGCTTAGTTTCTTAAATCTCATTTGAA
AACATCCTGCACTGAAGGTCTTATG
Found at i:86347 original size:42 final size:42
Alignment explanation
Indices: 86287--86406 Score: 143
Period size: 42 Copynumber: 2.9 Consensus size: 42
86277 AAGGACTTAT
* *** **
86287 CATCTTGCTCGAAAGACTTA-TAGATGAGTTAAAGGATTTACG
1 CATCATGCTCGAAAGACTTACT-GATGACCCAAAGGATTTAAA
*
86329 CATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTAAA
1 CATCATGCTCGAAAGACTTACTGATGACCCAAAGGATTTAAA
* *
86371 CATCATGCTCGAAAGACTTACTGTTGGCCCAAAGGA
1 CATCATGCTCGAAAGACTTACTGATGACCCAAAGGA
86407 CTACTCATCA
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 66 0.99
43 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (42 bp):
CATCATGCTCGAAAGACTTACTGATGACCCAAAGGATTTAAA
Found at i:86349 original size:22 final size:21
Alignment explanation
Indices: 86324--86391 Score: 50
Period size: 22 Copynumber: 3.2 Consensus size: 21
86314 GTTAAAGGAT
86324 TTACGCATCATGCTCGAAAGAC
1 TTAC-CATCATGCTCGAAAGAC
* * * *
86346 TTA-C-TGATGACCCGAAGGAT
1 TTACCATCATG-CTCGAAAGAC
*
86366 TTAAACATCATGCTCGAAAGAC
1 TT-ACCATCATGCTCGAAAGAC
86388 TTAC
1 TTAC
86392 TGTTGGCCCA
Statistics
Matches: 33, Mismatches: 9, Indels: 9
0.65 0.18 0.18
Matches are distributed among these distances:
19 4 0.12
20 10 0.30
21 2 0.06
22 13 0.39
23 4 0.12
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.25
Consensus pattern (21 bp):
TTACCATCATGCTCGAAAGAC
Found at i:86604 original size:43 final size:43
Alignment explanation
Indices: 86445--86829 Score: 573
Period size: 43 Copynumber: 9.0 Consensus size: 43
86435 AGTTTCTTAG
* *
86445 TTGTCACCAAGGAACCCCTACATATCACGTTGGTCCCTCAAG-
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
*
86487 -TGTTCATCAAGGAA-CCCTACATATCACGTTGGT-CCTCAAGC
1 TTG-TCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
* *
86528 TTATCATCAAGG-ACCCCTACATATCACGTTGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
* *
86570 TTGTCATCAAAGAACCCCTACATATCACAATGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
* **
86613 TTGTTATCAAGGAACCCCTACATATCACTTTGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
* *
86656 TTATCATCAAGGAACCCCTACATATCACGATGGTCCCTTAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
* * * *
86699 TTGTCATTAAGGAACCCTTACCTATCACGATGTTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
86742 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
*
86785 TTGTCATCAAGGAACCCCTACATATCATGATGGTCCCTCAAGC
1 TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
86828 TT
1 TT
86830 AGTTTCTTAT
Statistics
Matches: 311, Mismatches: 26, Indels: 11
0.89 0.07 0.03
Matches are distributed among these distances:
40 8 0.03
41 49 0.16
42 29 0.09
43 225 0.72
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (43 bp):
TTGTCATCAAGGAACCCCTACATATCACGATGGTCCCTCAAGC
Found at i:86812 original size:21 final size:21
Alignment explanation
Indices: 86745--86812 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
86735 CTCAAGCTTG
86745 TCATCAAGGAACCCCTACATA
1 TCATCAAGGAACCCCTACATA
* * * * *
86766 TCA-CGATGG-TCCCTCAAGCTTG
1 TCATC-AAGGAACCC-CTA-CATA
86788 TCATCAAGGAACCCCTACATA
1 TCATCAAGGAACCCCTACATA
86809 TCAT
1 TCAT
86813 GATGGTCCCT
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
20 4 0.12
21 14 0.44
22 10 0.31
23 4 0.12
ACGTcount: A:0.31, C:0.32, G:0.13, T:0.24
Consensus pattern (21 bp):
TCATCAAGGAACCCCTACATA
Found at i:88443 original size:52 final size:52
Alignment explanation
Indices: 88367--88558 Score: 280
Period size: 52 Copynumber: 3.7 Consensus size: 52
88357 TATCCCAACC
* * *
88367 TTTTCATGCTGGTGTGAGCCTTCAAGATGCCCCACATGGATTACTTTTGTCT
1 TTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTATCT
* * *
88419 TTTTTATGCTGATGTGACCCTTCAAGATGCCCCACGTGGATTACTTCTATCT
1 TTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTATCT
* *
88471 TTTTCATGTTGATGTGAGCCTTCAAGATGCCCCCACATGGATTAATTCTATC-
1 TTTTCATGCTGATGTGAGCCTTCAAGATG-CCCCACATGGATTACTTCTATCT
*
88523 TTTTCATGCTGATGTGAGCCTTCAAGAT-ACCCACAT
1 TTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACAT
88559 AGATAATATG
Statistics
Matches: 126, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
50 7 0.06
52 99 0.79
53 20 0.16
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (52 bp):
TTTTCATGCTGATGTGAGCCTTCAAGATGCCCCACATGGATTACTTCTATCT
Found at i:89755 original size:18 final size:17
Alignment explanation
Indices: 89735--89799 Score: 78
Period size: 17 Copynumber: 3.7 Consensus size: 17
89725 ACTTATTCTT
89735 TTTTTCTTTTTTCTTT-C
1 TTTTTCTTTTTT-TTTAC
89752 TTTTTCTTTTTTTATTAC
1 TTTTTCTTTTTTT-TTAC
* *
89770 TTATTCTTTTTTTTTCC
1 TTTTTCTTTTTTTTTAC
89787 TTTTTCCTTTTTT
1 TTTTT-CTTTTTT
89800 CCTCCTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
16 1 0.02
17 21 0.50
18 20 0.48
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTTTTTTTAC
Found at i:89799 original size:43 final size:43
Alignment explanation
Indices: 89717--89800 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
89707 TTCCTAATTC
* *
89717 TTTTTATTACTTATTCTTTTTTTCTTTTTTCTTTCTTTTTCTT
1 TTTTTATTACTTATTCTTTTTTTCCTTTTTCTCTCTTTTTCTT
89760 TTTTTATTACTTATTCTTTTTTTTTCCTTTTTC-CT-TTTTTC
1 TTTTTATTACTTATTC--TTTTTTTCCTTTTTCTCTCTTTTTC
89801 CTCCTTTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
43 22 0.59
44 1 0.03
45 14 0.38
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.77
Consensus pattern (43 bp):
TTTTTATTACTTATTCTTTTTTTCCTTTTTCTCTCTTTTTCTT
Found at i:89805 original size:18 final size:18
Alignment explanation
Indices: 89734--89809 Score: 73
Period size: 18 Copynumber: 4.3 Consensus size: 18
89724 TACTTATTCT
* *
89734 TTTTTTCTTTTTTCTTTC
1 TTTTTCCTTTTTTCTTCC
* * *
89752 TTTTTCTTTTTTTATTAC
1 TTTTTCCTTTTTTCTTCC
* *
89770 TTATT-CTTTTTTTTTCC
1 TTTTTCCTTTTTTCTTCC
*
89787 TTTTTCCTTTTTTCCTCC
1 TTTTTCCTTTTTTCTTCC
89805 TTTTT
1 TTTTT
89810 GAGTGTCGTA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
17 13 0.28
18 33 0.72
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCCTTTTTTCTTCC
Found at i:99688 original size:32 final size:31
Alignment explanation
Indices: 99652--99737 Score: 93
Period size: 32 Copynumber: 2.7 Consensus size: 31
99642 TTTCTGTTAC
* *
99652 GCATTATCTAAATGCGACACTGA-TACTCTTGT
1 GCATTATCTGAATGC-ACACTGACTA-TATTGT
* *
99684 GCATTATTTGAATGCATACCTGACTATATTGT
1 GCATTATCTGAATGCACA-CTGACTATATTGT
99716 GCATTATCTGAATGCAACACTG
1 GCATTATCTGAATGC-ACACTG
99738 GCTTTGCTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
31 2 0.04
32 39 0.87
33 4 0.09
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (31 bp):
GCATTATCTGAATGCACACTGACTATATTGT
Found at i:103721 original size:34 final size:34
Alignment explanation
Indices: 103683--103909 Score: 113
Period size: 34 Copynumber: 6.7 Consensus size: 34
103673 CTCCAACCAG
103683 ATATATTTTAATATTCAAATTTAAATAGATAATA
1 ATATATTTTAATATTCAAATTTAAATAGATAATA
*
103717 ATATATTTTAAT-TTGAAATATTTAAA-AGAT-ATA
1 ATATATTTTAATATT-CAA-ATTTAAATAGATAATA
* * ** **
103750 AGTACATTTTACTATTCAAACATAAA-A-A-GGT-
1 A-TATATTTTAATATTCAAATTTAAATAGATAATA
* *
103781 AT-TATTTTAAT-TTAAAATATTTAATAGGAT-ATA
1 ATATATTTTAATATTCAAAT-TTAAATA-GATAATA
*
103814 AT-TATCCTTTAATATTCAAAGTTAAATAGATAATAA
1 ATATAT--TTTAATATTCAAATTTAAATAGATAAT-A
* * *
103850 ATACATTTTAAT-TTGACATATTTAAAAAGA-AA-A
1 ATATATTTTAATATT--CAAATTTAAATAGATAATA
**
103883 ATTATACTACTAATATTCAAATTTAAA
1 A-TATA-TTTTAATATTCAAATTTAAA
103910 ACATCTTTTA
Statistics
Matches: 146, Mismatches: 25, Indels: 44
0.68 0.12 0.20
Matches are distributed among these distances:
28 5 0.03
29 10 0.07
30 2 0.01
31 1 0.01
32 4 0.03
33 19 0.13
34 46 0.32
35 36 0.25
36 21 0.14
37 2 0.01
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (34 bp):
ATATATTTTAATATTCAAATTTAAATAGATAATA
Found at i:108743 original size:94 final size:94
Alignment explanation
Indices: 108582--109275 Score: 1329
Period size: 94 Copynumber: 7.4 Consensus size: 94
108572 TCTATTTGGG
*
108582 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATTGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
108647 TCATGGGGGTAGCGACGGTTAAGACGCTT
66 TCATGGGGGTAGCGACGGTTAAGACGCTT
108676 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
108741 TCAT-GGGGTAGCGACGGTTAAGACGCTT
66 TCATGGGGGTAGCGACGGTTAAGACGCTT
108769 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
108834 TCATGGGGGTAGCGACGGTTAAGACGCTT
66 TCATGGGGGTAGCGACGGTTAAGACGCTT
108863 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
108928 TCATGGGGGTAGCGACGGTTAAGACGCTT
66 TCATGGGGGTAGCGACGGTTAAGACGCTT
108957 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
109022 TCAT-GGGGTAGCGACGGTTAAGACGCTT
66 TCATGGGGGTAGCGACGGTTAAGACGCTT
*
109050 TTGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
109115 TCATGGGGGTAGCGACGGTTAAGACGCTT
66 TCATGGGGGTAGCGACGGTTAAGACGCTT
*
109144 TTGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
109209 TCATGGGGGTAGCGACGGTTAAGACGCTGGT
66 TCATGGGGGTAGCGACGGTTAAGACGCT--T
109240 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
109276 TATATATATA
Statistics
Matches: 593, Mismatches: 3, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
93 185 0.31
94 372 0.63
96 36 0.06
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (94 bp):
TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
TCATGGGGGTAGCGACGGTTAAGACGCTT
Found at i:108897 original size:187 final size:188
Alignment explanation
Indices: 108582--109275 Score: 1329
Period size: 187 Copynumber: 3.7 Consensus size: 188
108572 TCTATTTGGG
*
108582 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATTGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
108647 TCATGGGGGTAGCGACGGTTAAGACGCTTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
66 TCATGGGGGTAGCGACGGTTAAGACGCTTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
108712 CGATGGACAGACGATGTGATTACTAGGTTTCAT-GGGGTAGCGACGGTTAAGACGCTT
131 CGATGGACAGACGATGTGATTACTAGGTTTCATGGGGGTAGCGACGGTTAAGACGCTT
108769 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
108834 TCATGGGGGTAGCGACGGTTAAGACGCTTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
66 TCATGGGGGTAGCGACGGTTAAGACGCTTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
108899 CGATGGACAGACGATGTGATTACTAGGTTTCATGGGGGTAGCGACGGTTAAGACGCTT
131 CGATGGACAGACGATGTGATTACTAGGTTTCATGGGGGTAGCGACGGTTAAGACGCTT
108957 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
*
109022 TCAT-GGGGTAGCGACGGTTAAGACGCTTTTGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
66 TCATGGGGGTAGCGACGGTTAAGACGCTTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
109086 CGATGGACAGACGATGTGATTACTAGGTTTCATGGGGGTAGCGACGGTTAAGACGCTT
131 CGATGGACAGACGATGTGATTACTAGGTTTCATGGGGGTAGCGACGGTTAAGACGCTT
*
109144 TTGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
109209 TCATGGGGGTAGCGACGGTTAAGACGCTGGTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATC
66 TCATGGGGGTAGCGACGGTTAAGACGCT--TTGGAAGAAGCTCCTCGTTGGGTCATACACCAATC
109274 GA
129 GA
109276 TATATATATA
Statistics
Matches: 499, Mismatches: 4, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
187 347 0.70
188 116 0.23
190 36 0.07
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (188 bp):
TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
TCATGGGGGTAGCGACGGTTAAGACGCTTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
CGATGGACAGACGATGTGATTACTAGGTTTCATGGGGGTAGCGACGGTTAAGACGCTT
Found at i:109085 original size:281 final size:281
Alignment explanation
Indices: 108582--109275 Score: 1343
Period size: 281 Copynumber: 2.5 Consensus size: 281
108572 TCTATTTGGG
*
108582 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATTGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
108647 TCATGGGGGTAGCGACGGTTAAGACGCTTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
66 TCATGGGGGTAGCGACGGTTAAGACGCTTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
108712 CGATGGACAGACGATGTGATTACTAGGTTTCATGGGGTAGCGACGGTTAAGACGCTTTGGAAGAA
131 CGATGGACAGACGATGTGATTACTAGGTTTCATGGGGTAGCGACGGTTAAGACGCTTTGGAAGAA
108777 GCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTTTCATGGGG
196 GCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTTTCATGGGG
108842 GTAGCGACGGTTAAGACGCTT
261 GTAGCGACGGTTAAGACGCTT
108863 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
108928 TCATGGGGGTAGCGACGGTTAAGACGCTTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
66 TCATGGGGGTAGCGACGGTTAAGACGCTTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
*
108993 CGATGGACAGACGATGTGATTACTAGGTTTCATGGGGTAGCGACGGTTAAGACGCTTTTGAAGAA
131 CGATGGACAGACGATGTGATTACTAGGTTTCATGGGGTAGCGACGGTTAAGACGCTTTGGAAGAA
109058 GCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTTTCATGGGG
196 GCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTTTCATGGGG
109123 GTAGCGACGGTTAAGACGCTT
261 GTAGCGACGGTTAAGACGCTT
*
109144 TTGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
1 TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
109209 TCATGGGGGTAGCGACGGTTAAGACGCTGGTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATC
66 TCATGGGGGTAGCGACGGTTAAGACGCT--TTGGAAGAAGCTCCTCGTTGGGTCATACACCAATC
109274 GA
129 GA
109276 TATATATATA
Statistics
Matches: 408, Mismatches: 3, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
281 371 0.91
283 37 0.09
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (281 bp):
TGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTT
TCATGGGGGTAGCGACGGTTAAGACGCTTTGGAAGAAGCTCCTCGTTGGGTCATACACCAATCGA
CGATGGACAGACGATGTGATTACTAGGTTTCATGGGGTAGCGACGGTTAAGACGCTTTGGAAGAA
GCTCCTCGTTGGGTCATACACCAATCGACGATGGACAGACGATGTGATTACTAGGTTTCATGGGG
GTAGCGACGGTTAAGACGCTT
Found at i:109282 original size:2 final size:2
Alignment explanation
Indices: 109275--109304 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
109265 ACACCAATCG
109275 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
109305 TATTCTCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:109419 original size:26 final size:28
Alignment explanation
Indices: 109390--109463 Score: 75
Period size: 27 Copynumber: 2.7 Consensus size: 28
109380 TATGATTTTA
109390 AATATTTATTTATTTTTAA-A-AAATCT
1 AATATTTATTTATTTTTAATATAAATCT
* *
109416 AATAGTATT-TTTATTTTTAATATAATTTT
1 AATA-T-TTATTTATTTTTAATATAAATCT
*
109445 AATATTTATTT-TTTATAAT
1 AATATTTATTTATTTTTAAT
109464 TTTTTAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
26 4 0.10
27 21 0.52
28 7 0.17
29 8 0.20
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (28 bp):
AATATTTATTTATTTTTAATATAAATCT
Found at i:109457 original size:24 final size:23
Alignment explanation
Indices: 109425--109476 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
109415 TAATAGTATT
109425 TTTATTTTTAATATAA-TTTTAATA
1 TTTATTTTT--TATAATTTTTAATA
109449 TTTATTTTTTATAATTTTTTAATA
1 TTTATTTTTTATAA-TTTTTAATA
109473 TTTA
1 TTTA
109477 AAGTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.19
24 21 0.81
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTATTTTTTATAATTTTTAATA
Found at i:117275 original size:21 final size:21
Alignment explanation
Indices: 117249--117299 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 21
117239 TTATTATTTT
117249 AAATTTATATACTTTTTAATA
1 AAATTTATATACTTTTTAATA
* *
117270 AAATTTATATATATTTTTTTATA
1 AAA-TT-TATATACTTTTTAATA
117293 AAATTTA
1 AAATTTA
117300 AAAGATAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 5 0.19
22 4 0.15
23 17 0.65
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATTTATATACTTTTTAATA
Found at i:120240 original size:3 final size:3
Alignment explanation
Indices: 120232--120274 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
120222 TCACCATTGG
120232 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
120275 GATGATGATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:121921 original size:28 final size:29
Alignment explanation
Indices: 121868--121949 Score: 139
Period size: 28 Copynumber: 2.9 Consensus size: 29
121858 CGACCCAGTA
121868 ATATTCTGGGAATTTTTGTGAAAAAGGTG
1 ATATTCTGGGAATTTTTGTGAAAAAGGTG
*
121897 ATATTCTGGGAA-TTTTGTGGAAAAGGTG
1 ATATTCTGGGAATTTTTGTGAAAAAGGTG
*
121925 ACATTCTGGGAATTTTTGTGAAAAA
1 ATATTCTGGGAATTTTTGTGAAAAA
121950 ATGACAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
28 26 0.53
29 23 0.47
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.37
Consensus pattern (29 bp):
ATATTCTGGGAATTTTTGTGAAAAAGGTG
Found at i:121954 original size:28 final size:28
Alignment explanation
Indices: 121870--121968 Score: 130
Period size: 28 Copynumber: 3.5 Consensus size: 28
121860 ACCCAGTAAT
*
121870 ATTCTGGGAATTTTTGTGAAAAAGGTGAT
1 ATTCTGGGAATTTTTGTGAAAAA-GTGAC
*
121899 ATTCTGGGAA-TTTTGTGGAAAAGGTGAC
1 ATTCTGGGAATTTTTGT-GAAAAAGTGAC
*
121927 ATTCTGGGAATTTTTGTGAAAAAATGAC
1 ATTCTGGGAATTTTTGTGAAAAAGTGAC
121955 AATT-TGGGAATTTT
1 -ATTCTGGGAATTTT
121969 CGAACGTGAC
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
28 39 0.62
29 24 0.38
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.37
Consensus pattern (28 bp):
ATTCTGGGAATTTTTGTGAAAAAGTGAC
Found at i:126380 original size:10 final size:10
Alignment explanation
Indices: 126365--126399 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
126355 TTAGACATAT
126365 AAAATTAAAA
1 AAAATTAAAA
126375 AAAATTAAAA
1 AAAATTAAAA
126385 AAAATTAAAA
1 AAAATTAAAA
126395 AAAAT
1 AAAAT
126400 GATTTTGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATTAAAA
Found at i:131266 original size:66 final size:66
Alignment explanation
Indices: 131160--131292 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
131150 AAATTGAAAG
131160 TAATTGCACAGCGATTTACAGTGGTTCGACTTTCTCAAACAAAGTCTACGTCCACTACCTTAGCT
1 TAATTGCACAGCGATTTACAGTGGTTCGACTTTCTCAAACAAAGTCTACGTCCACTACCTTAGCT
131225 A
66 A
131226 TAATTGCACAGCGATTTACAGTGGTTCGACTTTCTCAAACAAAGTCTACGTCCACTACCTTAGCT
1 TAATTGCACAGCGATTTACAGTGGTTCGACTTTCTCAAACAAAGTCTACGTCCACTACCTTAGCT
131291 A
66 A
131292 T
1 T
131293 CCACACTAAG
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (66 bp):
TAATTGCACAGCGATTTACAGTGGTTCGACTTTCTCAAACAAAGTCTACGTCCACTACCTTAGCT
A
Found at i:132916 original size:58 final size:58
Alignment explanation
Indices: 132826--132941 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
132816 CCATAAAGAT
132826 TGAAAATATGGAGGCATTTGAGTCGATTGTTGTGCTTGCTCTTCGGGCTGCTCCTCGG
1 TGAAAATATGGAGGCATTTGAGTCGATTGTTGTGCTTGCTCTTCGGGCTGCTCCTCGG
132884 TGAAAATATGGAGGCATTTGAGTCGATTGTTGTGCTTGCTCTTCGGGCTGCTCCTCGG
1 TGAAAATATGGAGGCATTTGAGTCGATTGTTGTGCTTGCTCTTCGGGCTGCTCCTCGG
132942 CTGCTCAGGT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (58 bp):
TGAAAATATGGAGGCATTTGAGTCGATTGTTGTGCTTGCTCTTCGGGCTGCTCCTCGG
Found at i:134539 original size:20 final size:20
Alignment explanation
Indices: 134510--134547 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
134500 CAGAACCCCA
*
134510 GGGGGTATCGATTCCCCTGT
1 GGGGGAATCGATTCCCCTGT
*
134530 GGGGGAATCGGTTCCCCT
1 GGGGGAATCGATTCCCCT
134548 TCAAAGGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.26, G:0.37, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCCTGT
Found at i:152347 original size:15 final size:14
Alignment explanation
Indices: 152327--152387 Score: 51
Period size: 15 Copynumber: 4.5 Consensus size: 14
152317 TTCGCTTGAA
152327 GAAAAATGATAAAAT
1 GAAAAATGA-AAAAT
*
152342 GAAAAATGAAAAAA
1 GAAAAATGAAAAAT
152356 GAAGAAA--AAAGAA-
1 GAA-AAATGAAA-AAT
152369 G-AAAA-GAAAAAT
1 GAAAAATGAAAAAT
152381 GAAAAAT
1 GAAAAAT
152388 TATGAAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
11 5 0.13
12 5 0.13
13 8 0.21
14 9 0.23
15 12 0.31
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (14 bp):
GAAAAATGAAAAAT
Found at i:152363 original size:32 final size:32
Alignment explanation
Indices: 152324--152386 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
152314 TATTTCGCTT
* *
152324 GAAGAAAAATGATA-AAATGAAAAATGAAAAAA
1 GAAGAAAAAAGA-AGAAAAGAAAAATGAAAAAA
152356 GAAGAAAAAAGAAGAAAAGAAAAATGAAAAA
1 GAAGAAAAAAGAAGAAAAGAAAAATGAAAAA
152387 TTATGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (32 bp):
GAAGAAAAAAGAAGAAAAGAAAAATGAAAAAA
Found at i:152373 original size:18 final size:17
Alignment explanation
Indices: 152342--152376 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
152332 ATGATAAAAT
*
152342 GAAAAATGAAAAAAGAA
1 GAAAAAAGAAAAAAGAA
152359 GAAAAAAGAAGAAAAGAA
1 GAAAAAAGAA-AAAAGAA
152377 AAATGAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (17 bp):
GAAAAAAGAAAAAAGAA
Found at i:152395 original size:32 final size:32
Alignment explanation
Indices: 152324--152406 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 32
152314 TATTTCGCTT
**
152324 GAAGAAAAATGAT-AAAATGAAAAATGAAAAAA
1 GAAGAAAAAAAATGAAAA-GAAAAATGAAAAAA
*
152356 GAAGAAAAAAGAA-GAAAAGAAAAATGAAAAAT
1 GAAGAAAAAA-AATGAAAAGAAAAATGAAAAAA
* *
152388 TATGAAAAAAAATGAAAAG
1 GAAGAAAAAAAATGAAAAG
152407 GAGAAAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
31 2 0.05
32 36 0.84
33 5 0.12
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.11
Consensus pattern (32 bp):
GAAGAAAAAAAATGAAAAGAAAAATGAAAAAA
Found at i:152402 original size:10 final size:10
Alignment explanation
Indices: 152343--152405 Score: 58
Period size: 10 Copynumber: 6.1 Consensus size: 10
152333 TGATAAAATG
152343 AAAAATGAAA
1 AAAAATGAAA
152353 AAAGAA-GAAA
1 AAA-AATGAAA
152363 AAAGAA-GAAAA
1 AAA-AATG-AAA
152374 GAAAAATGAAA
1 -AAAAATGAAA
**
152385 AATTATGAAA
1 AAAAATGAAA
152395 AAAAATGAAA
1 AAAAATGAAA
152405 A
1 A
152406 GGAGAAAAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
10 31 0.69
11 10 0.22
12 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (10 bp):
AAAAATGAAA
Found at i:152405 original size:7 final size:7
Alignment explanation
Indices: 152327--152387 Score: 51
Period size: 7 Copynumber: 9.0 Consensus size: 7
152317 TTCGCTTGAA
152327 GAAAAAT
1 GAAAAAT
152334 GATAAAAT
1 GA-AAAAT
152342 GAAAAAT
1 GAAAAAT
*
152349 GAAAAAA
1 GAAAAAT
152356 GAAGAAA-
1 GAA-AAAT
152363 -AAAGAA-
1 GAAA-AAT
152369 G-AAAA-
1 GAAAAAT
152374 GAAAAAT
1 GAAAAAT
152381 GAAAAAT
1 GAAAAAT
152388 TATGAAAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
5 4 0.09
6 10 0.21
7 23 0.49
8 10 0.21
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (7 bp):
GAAAAAT
Found at i:152470 original size:22 final size:24
Alignment explanation
Indices: 152342--152485 Score: 84
Period size: 26 Copynumber: 5.8 Consensus size: 24
152332 ATGATAAAAT
*
152342 GAAAAATGAAAAAAGAAGAAA-A-AA
1 GAAAAAAG-AAAAAGAA-AAATAGAA
152366 GAAGAAAAGAAAAATGAAAAATTATGAA
1 GAA-AAAAGAAAAA-GAAAAA-TA-GAA
*
152394 -AAAAAATGAAAAGGAGAAAAA-AGGA
1 GAAAAAA-GAAAA--AGAAAAATAGAA
** * *
152419 GAAAATGGGAAAATGGGAAAATAGAA
1 GAAAA-AAGAAAA-AGAAAAATAGAA
*
152445 GAAAAAAG-AAAAGAAAAAT-GAT
1 GAAAAAAGAAAAAGAAAAATAGAA
152467 GAAAAAAGAAAAAGAAAAA
1 GAAAAAAGAAAAAGAAAAA
152486 GAAATAAAGG
Statistics
Matches: 94, Mismatches: 13, Indels: 27
0.70 0.10 0.20
Matches are distributed among these distances:
22 10 0.11
23 16 0.17
24 14 0.15
25 15 0.16
26 23 0.24
27 7 0.07
28 8 0.09
29 1 0.01
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.08
Consensus pattern (24 bp):
GAAAAAAGAAAAAGAAAAATAGAA
Found at i:153876 original size:55 final size:55
Alignment explanation
Indices: 153817--154130 Score: 359
Period size: 55 Copynumber: 5.7 Consensus size: 55
153807 TTTATGAAGA
*
153817 TCGAGTCCTATACTCTCTGATA-GAATAGGGAGTGGACCCGTTTGTTGAAGATTGT
1 TCGAGTCCTATACTCTCTGA-ACGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
* * *
153872 TCGAGTTCTATACTCTCTGATA-GAAGAGGGAGC-GAGCCCGTTTTTTGAAGATTGT
1 TCGAGTCCTATACTCTCTGA-ACGAATAGGGAGCGGA-CCCGTTTGTTGAAGATTGT
* * * * * *
153927 TCGAGTTCTATACTCTCTGAAGGAATAGAGTGTGGACTCGTTT-TATGAAGATTGT
1 TCGAGTCCTATACTCTCTGAACGAATAGGGAGCGGACCCGTTTGT-TGAAGATTGT
* * * *
153982 TCGAGTTCTATACTCCCTGAACGAATAGGGAGCGTACCCGTTTATTGAAGATTGT
1 TCGAGTCCTATACTCTCTGAACGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
* * * * *
154037 TCGAGTCTTATACTCCCTGAACGAATAGGGAGCAGACACGTTTGCTGAAGATTGT
1 TCGAGTCCTATACTCTCTGAACGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
* *
154092 TCGAGTCTTATACTCTCTGAAGGAAT-GAGGAGCGGACCC
1 TCGAGTCCTATACTCTCTGAACGAATAG-GGAGCGGACCC
154131 ATCATTCGAA
Statistics
Matches: 226, Mismatches: 27, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
54 5 0.02
55 218 0.96
56 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (55 bp):
TCGAGTCCTATACTCTCTGAACGAATAGGGAGCGGACCCGTTTGTTGAAGATTGT
Found at i:154096 original size:165 final size:165
Alignment explanation
Indices: 153817--154117 Score: 432
Period size: 165 Copynumber: 1.8 Consensus size: 165
153807 TTTATGAAGA
* * *
153817 TCGAGTCCTATACTCTCTGATAGAATAGGGAGTGGACCCGTTTGTTGAAGATTGTTCGAGTTCTA
1 TCGAGTCCTATACTCCCTGATAGAATAGGGAGCGGACCCGTTTATTGAAGATTGTTCGAGTTCTA
* * **
153882 TACTCTCTGATAGAAGAGGGAGCGAGCCCGTTTTTTGAAGATTGTTCGAGT-TCTATACTCTCTG
66 TACTCCCTGATAGAAGAGGGAGCGAGCACGTTTGCTGAAGATTGTTCGAGTCT-TATACTCTCTG
153946 AAGGAATAGAGTGTGGACTCGTTTTATGAAGATTGT
130 AAGGAATAGAGTGTGGACTCGTTTTATGAAGATTGT
* *
153982 TCGAGTTCTATACTCCCTGA-ACGAATAGGGAGCGTACCCGTTTATTGAAGATTGTTCGAG-TCT
1 TCGAGTCCTATACTCCCTGATA-GAATAGGGAGCGGACCCGTTTATTGAAGATTGTTCGAGTTC-
*
154045 TATACTCCCTGA-ACGAATAGGGAGC-AGACACGTTTGCTGAAGATTGTTCGAGTCTTATACTCT
64 TATACTCCCTGATA-GAAGAGGGAGCGAG-CACGTTTGCTGAAGATTGTTCGAGTCTTATACTCT
154108 CTGAAGGAAT
127 CTGAAGGAAT
154118 GAGGAGCGGA
Statistics
Matches: 121, Mismatches: 10, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
164 6 0.05
165 114 0.94
166 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (165 bp):
TCGAGTCCTATACTCCCTGATAGAATAGGGAGCGGACCCGTTTATTGAAGATTGTTCGAGTTCTA
TACTCCCTGATAGAAGAGGGAGCGAGCACGTTTGCTGAAGATTGTTCGAGTCTTATACTCTCTGA
AGGAATAGAGTGTGGACTCGTTTTATGAAGATTGT
Found at i:154144 original size:165 final size:165
Alignment explanation
Indices: 153817--154152 Score: 400
Period size: 165 Copynumber: 2.0 Consensus size: 165
153807 TTTATGAAGA
* * *
153817 TCGAGTCCTATACTCTCTGATAGAATAGGGAGTGGACCCGTTTGTTGAAGATTGTTCGAGTTCTA
1 TCGAGTCCTATACTCCCTGATAGAATAGGGAGCGGACCCGTTTATTGAAGATTGTTCGAGTTCTA
* * **
153882 TACTCTCTGATAGAAGAGGGAGCGAGCCCGTTTTTTGAAGATTGTTCGAGTTCTATACTCTCTGA
66 TACTCCCTGATAGAAGAGGGAGCGAGCACGTTTGCTGAAGATTGTTCGAGTTCTATACTCTCTGA
* * * * * *
153947 AGGAATAGAGTGTGGACTCGTTTTATGAAGATTGT
131 AGGAATAGAGAGCGGACCCATATTACGAAGATTGT
* *
153982 TCGAGTTCTATACTCCCTGA-ACGAATAGGGAGCGTACCCGTTTATTGAAGATTGTTCGAG-TCT
1 TCGAGTCCTATACTCCCTGATA-GAATAGGGAGCGGACCCGTTTATTGAAGATTGTTCGAGTTC-
*
154045 TATACTCCCTGA-ACGAATAGGGAGC-AGACACGTTTGCTGAAGATTGTTCGAG-TCTTATACTC
64 TATACTCCCTGATA-GAAGAGGGAGCGAG-CACGTTTGCTGAAGATTGTTCGAGTTC-TATACTC
154107 TCTGAAGGAAT-GAGGAGCGGACCCATCATT-CGAAGATT-T
126 TCTGAAGGAATAGA-GAGCGGACCCAT-ATTACGAAGATTGT
*
154146 TCAAGTC
1 TCGAGTC
154153 TCATTTATGC
Statistics
Matches: 146, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
164 16 0.11
165 128 0.88
166 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (165 bp):
TCGAGTCCTATACTCCCTGATAGAATAGGGAGCGGACCCGTTTATTGAAGATTGTTCGAGTTCTA
TACTCCCTGATAGAAGAGGGAGCGAGCACGTTTGCTGAAGATTGTTCGAGTTCTATACTCTCTGA
AGGAATAGAGAGCGGACCCATATTACGAAGATTGT
Found at i:156876 original size:20 final size:21
Alignment explanation
Indices: 156839--156877 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
156829 GAAAAACTAG
*
156839 TTAATTTATTAATTAAATTTT
1 TTAATTTATTAATAAAATTTT
156860 TTAATTT-TTAATAAAATT
1 TTAATTTATTAATAAAATT
156878 AAAAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTAATTTATTAATAAAATTTT
Found at i:157619 original size:41 final size:41
Alignment explanation
Indices: 157570--157652 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
157560 AAAAATTCAC
* * *
157570 ATAACATTTTA-AGTTGTAACCTGAAATGTTACCAAAAACAT
1 ATAACATTTTAGA-TTGCAACCTAAAATATTACCAAAAACAT
*
157611 ATAACATTTTAGATTGCAACCTAAAATATTACCAAAATCAT
1 ATAACATTTTAGATTGCAACCTAAAATATTACCAAAAACAT
157652 A
1 A
157653 AAAAATTATG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 36 0.97
42 1 0.03
ACGTcount: A:0.46, C:0.16, G:0.07, T:0.31
Consensus pattern (41 bp):
ATAACATTTTAGATTGCAACCTAAAATATTACCAAAAACAT
Found at i:167561 original size:2 final size:2
Alignment explanation
Indices: 167554--167583 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
167544 GCAGTAAAAG
*
167554 AT AT AT AT CT 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
167584 GACCTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:179828 original size:7 final size:7
Alignment explanation
Indices: 179810--179838 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
179800 TTCAACAAAT
179810 ATATAT-
1 ATATATG
179816 ATATATG
1 ATATATG
179823 ATATATG
1 ATATATG
179830 ATATATG
1 ATATATG
179837 AT
1 AT
179839 TATAGTAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (7 bp):
ATATATG
Found at i:179835 original size:14 final size:13
Alignment explanation
Indices: 179810--179842 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
179800 TTCAACAAAT
179810 ATATATATATATG
1 ATATATATATATG
179823 ATATATGATATATG
1 ATATAT-ATATATG
179837 AT-TATA
1 ATATATA
179843 GTAAACCGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 9 0.47
14 9 0.47
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (13 bp):
ATATATATATATG
Found at i:180526 original size:23 final size:22
Alignment explanation
Indices: 180494--180537 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
180484 AATAACAATA
180494 ATTTTTAATAAATTTAA-AAATT
1 ATTTTTAAT-AATTTAATAAATT
180516 ATTTTATAATAATTTAATAAAT
1 ATTTT-TAATAATTTAATAAAT
180538 CTAAAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTTTTAATAATTTAATAAATT
Found at i:180535 original size:31 final size:31
Alignment explanation
Indices: 180497--180566 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
180487 AACAATAATT
* * *
180497 TTTAATAAATTTAAAAATTATTTTATAATAA
1 TTTAATAAATCTAAAAATTATTTTAAAACAA
180528 TTTAATAAATCTAAAAATTATTTTAAAACAA
1 TTTAATAAATCTAAAAATTATTTTAAAACAA
*
180559 TTCAATAA
1 TTTAATAA
180567 TTTTTAATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTAATAAATCTAAAAATTATTTTAAAACAA
Found at i:182198 original size:27 final size:26
Alignment explanation
Indices: 182141--182197 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 26
182131 CTCAACACAT
182141 TATTATTTTATATATTTAATATTAATA
1 TATTATTTTATATATTTAATA-TAATA
*
182168 TATTATTTTAGTATCATATTAATAAAATA
1 TATTATTTTA-TAT-AT-TTAATATAATA
182197 T
1 T
182198 TTAATTATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 10 0.38
28 3 0.12
29 7 0.27
30 6 0.23
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
TATTATTTTATATATTTAATATAATA
Found at i:182268 original size:38 final size:37
Alignment explanation
Indices: 182193--182268 Score: 84
Period size: 38 Copynumber: 2.0 Consensus size: 37
182183 ATATTAATAA
* *
182193 AATATTTAATTATTAAATCATATTTATTGATAATTTT
1 AATAATTAATTATTAAATCATATATATTGATAATTTT
*
182230 AATAATTATATTATTATAAT-ATATAATATT-ATACTTTT
1 AATAATTA-ATTATTA-AATCATAT-ATATTGATAATTTT
182268 A
1 A
182269 TTTTAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
37 7 0.21
38 19 0.58
39 7 0.21
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (37 bp):
AATAATTAATTATTAAATCATATATATTGATAATTTT
Found at i:182473 original size:37 final size:36
Alignment explanation
Indices: 182423--182532 Score: 132
Period size: 37 Copynumber: 2.9 Consensus size: 36
182413 TAATGTTTTA
182423 ATAATATTATTATTTTAATAAATAAATAATATAATTT
1 ATAATATT-TTATTTTAATAAATAAATAATATAATTT
* * *
182460 ATAATAATTTTATTTTAATAAATGATTTATATAATTT
1 ATAAT-ATTTTATTTTAATAAATAAATAATATAATTT
182497 ATAATTATTTTATTTT-ATAAAATATAATAATTATAA
1 ATAA-TATTTTATTTTAAT-AAATA-AATAA-TATAA
182533 AATTGTTATT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
36 2 0.03
37 48 0.77
38 7 0.11
39 5 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (36 bp):
ATAATATTTTATTTTAATAAATAAATAATATAATTT
Found at i:182476 original size:16 final size:16
Alignment explanation
Indices: 182457--182516 Score: 57
Period size: 16 Copynumber: 3.4 Consensus size: 16
182447 AATAATATAA
182457 TTTATAATAATTTTAT
1 TTTATAATAATTTTAT
*
182473 TTTAATAAATGATTTATAT
1 TTT-AT-AATAATTT-TAT
*
182492 AATTTATAATTATTTTAT
1 --TTTATAATAATTTTAT
182510 TTTATAA
1 TTTATAA
182517 AATATAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 10 0.27
17 2 0.05
18 10 0.27
19 10 0.27
20 2 0.05
21 3 0.08
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
TTTATAATAATTTTAT
Found at i:182531 original size:32 final size:32
Alignment explanation
Indices: 182450--182550 Score: 102
Period size: 37 Copynumber: 3.1 Consensus size: 32
182440 ATAAATAAAT
182450 AATATAAT--TTATAATAATTTTATTTTAATAA
1 AATATAATAATTATAATAATTTTATTTT-ATAA
* *
182481 ATGATTTATATAATTTATAATTATTTTATTTTATAA
1 A--ATATA-ATAA-TTATAATAATTTTATTTTATAA
182517 AATATAATAATTATAA-AATTGTTA-TTTATAA
1 AATATAATAATTATAATAATT-TTATTTTATAA
182548 AAT
1 AAT
182551 TGTAGATATA
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
31 14 0.24
32 9 0.15
33 8 0.14
34 6 0.10
36 5 0.08
37 17 0.29
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (32 bp):
AATATAATAATTATAATAATTTTATTTTATAA
Found at i:182601 original size:14 final size:14
Alignment explanation
Indices: 182558--182602 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
182548 AATTGTAGAT
*
182558 ATAATATTTTAAT-A
1 ATAATA-TTAAATAA
182572 ATAATATTAATATAA
1 ATAATATTAA-ATAA
182587 ATAATATTAAATAA
1 ATAATATTAAATAA
182601 AT
1 AT
182603 TATTCTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 3 0.11
14 14 0.50
15 11 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAATATTAAATAA
Found at i:185837 original size:20 final size:23
Alignment explanation
Indices: 185811--185859 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
185801 TTTGAAATTA
*
185811 CTCCCCCTT-AC-TTTAACACTT
1 CTCCCCCTTAACACTTAACACTT
185832 -TCCCCCTTAACACTTAACACTT
1 CTCCCCCTTAACACTTAACACTT
185854 CTCCCC
1 CTCCCC
185860 TTTTTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.33
21 2 0.08
22 9 0.38
23 5 0.21
ACGTcount: A:0.20, C:0.47, G:0.00, T:0.33
Consensus pattern (23 bp):
CTCCCCCTTAACACTTAACACTT
Found at i:191903 original size:3 final size:3
Alignment explanation
Indices: 191895--191954 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
191885 TTTCAACATC
* *
191895 ATT ATT ATT ACT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
191943 ATT ATT ATT ATT
1 ATT ATT ATT ATT
191955 GCATAATGCA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:205943 original size:35 final size:36
Alignment explanation
Indices: 205879--205947 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
205869 TATTTAAATC
*
205879 TTTAAATATCTGATTTAGTTATTGATTAAAATAACA
1 TTTAAATATCTGATTTAATTATTGATTAAAATAACA
* * *
205915 TTTAAATGTTTGA-TTAATTATTGGTTAAAATAA
1 TTTAAATATCTGATTTAATTATTGATTAAAATAA
205948 TAACTAAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 18 0.62
36 11 0.38
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (36 bp):
TTTAAATATCTGATTTAATTATTGATTAAAATAACA
Found at i:209300 original size:20 final size:21
Alignment explanation
Indices: 209271--209321 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
209261 CCACCTTTGG
209271 GTATCAATACCCAACGAACAA
1 GTATCAATACCCAACGAACAA
* * *
209292 -TATCGATACTCAATGAACAA
1 GTATCAATACCCAACGAACAA
209312 GTATCAATAC
1 GTATCAATAC
209322 TACTAGCAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 17 0.68
21 8 0.32
ACGTcount: A:0.45, C:0.24, G:0.10, T:0.22
Consensus pattern (21 bp):
GTATCAATACCCAACGAACAA
Done.