Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001960.1 Hibiscus syriacus cultivar Beakdansim tig00003964_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: 89110
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3564 original size:14 final size:14
Alignment explanation
Indices: 3547--3618 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
3537 AAAATAATAT
3547 TATTATTATT-AAA
1 TATTATTATTAAAA
3560 -A-TATTA--AAAA
1 TATTATTATTAAAA
*
3570 TATT-TTATTTAATAC
1 TATTATTA-TTAA-AA
3585 TATTATTTATGT-AAA
1 TATTA-TTAT-TAAAA
3600 TATTATTATTAAAA
1 TATTATTATTAAAA
3614 TATTA
1 TATTA
3619 AAAATTATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 21
0.67 0.03 0.30
Matches are distributed among these distances:
10 3 0.07
11 9 0.20
12 2 0.04
13 1 0.02
14 14 0.30
15 11 0.24
16 2 0.04
17 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (14 bp):
TATTATTATTAAAA
Found at i:3573 original size:23 final size:23
Alignment explanation
Indices: 3495--3578 Score: 68
Period size: 23 Copynumber: 3.7 Consensus size: 23
3485 TAAATTATTT
3495 TAAAAA-ATTATTA-TAAAATAA
1 TAAAAATATTATTATTAAAATAA
**
3516 TACATCATATTATTTATTAACAA-AA
1 TA-AAAATATTA-TTATTAA-AATAA
* * *
3541 TAATATTATTATTATTAAAATAT
1 TAAAAATATTATTATTAAAATAA
3564 TAAAAATATT-TTATT
1 TAAAAATATTATTATT
3579 TAATACTATT
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
21 2 0.04
22 9 0.18
23 20 0.40
24 10 0.20
25 7 0.14
26 2 0.04
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAAAATATTATTATTAAAATAA
Found at i:3620 original size:21 final size:21
Alignment explanation
Indices: 3596--3654 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
3586 ATTATTTATG
3596 TAAATATTAT-TATTAAAATA
1 TAAATATTATATATTAAAATA
* *
3616 TTAAAAATTATAATATTGAAATA
1 -TAAATATTAT-ATATTAAAATA
*
3639 CAAATATTATATATTA
1 TAAATATTATATATTA
3655 TATTTTAAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 14 0.45
22 8 0.26
23 9 0.29
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
TAAATATTATATATTAAAATA
Found at i:3852 original size:30 final size:31
Alignment explanation
Indices: 3773--3852 Score: 85
Period size: 30 Copynumber: 2.6 Consensus size: 31
3763 ATATTATATT
* *
3773 ATATATATATAATAA-TATAATTATAACAATAA
1 ATATA-ATTTAATAATTAAAATTAT-ACAATAA
*
3805 ATATAATTGT-ATTATTAAAATTAT-CAATAA
1 ATATAATT-TAATAATTAAAATTATACAATAA
3835 ATATAATTTAATAATTAA
1 ATATAATTTAATAATTAA
3853 TTTTTTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
29 1 0.02
30 21 0.51
31 5 0.12
32 14 0.34
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (31 bp):
ATATAATTTAATAATTAAAATTATACAATAA
Found at i:4261 original size:3 final size:3
Alignment explanation
Indices: 4253--4292 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
4243 TTGTCCTGAC
*
4253 ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT TTT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4293 GGTTTCAGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:5352 original size:109 final size:108
Alignment explanation
Indices: 5153--5395 Score: 290
Period size: 109 Copynumber: 2.2 Consensus size: 108
5143 GTCCCCTAAC
** * * *
5153 TTTAGCGAATTTTTGCATGTTAGTCACATGTAAGGATCGAACTTGCTATTTAACCTTTTTATGCA
1 TTTAGCGTGTTTTTGCATGTTGGTCACATATAAGGATCGAACTTGCTATTTAACCTTTTGATGCA
* *
5218 TGTTATATATTTTTTAGGATATTTTCTGTTTAGTCCCCC-ATAG
66 TGTTATATATCTATTAGGATATTTTCTGTTTAGTCCCCCTAT-G
* * * * * *
5261 TTTTGCGTGTTTTTGCATGTTGGTCACATATAGGGATTGAAGTTGTTATTTACCCATTTTGATGC
1 TTTAGCGTGTTTTTGCATGTTGGTCACATATAAGGATCGAACTTGCTATTTAACC-TTTTGATGC
* * * *
5326 ATGTTATATGTCTATTAGGTTATTTTCTTTTTAGTCCCTCTATG
65 ATGTTATATATCTATTAGGATATTTTCTGTTTAGTCCCCCTATG
* *
5370 TTTAGCTTGTTTTTGCATTTTGGTCA
1 TTTAGCGTGTTTTTGCATGTTGGTCA
5396 TATGTAGTGA
Statistics
Matches: 113, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
108 45 0.40
109 66 0.58
110 2 0.02
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.49
Consensus pattern (108 bp):
TTTAGCGTGTTTTTGCATGTTGGTCACATATAAGGATCGAACTTGCTATTTAACCTTTTGATGCA
TGTTATATATCTATTAGGATATTTTCTGTTTAGTCCCCCTATG
Found at i:5791 original size:62 final size:60
Alignment explanation
Indices: 5658--5795 Score: 147
Period size: 61 Copynumber: 2.2 Consensus size: 60
5648 ATTAAAAATA
* *
5658 TTCATTTTAGTCACTTTTGCACTTTATTTTGTTTTAATTTTGACATGATTATTTATTTAT
1 TTCATTTTAGTCACTTTTGCACTTTATTTTATTTTAATTTTGACATGACTATTTATTTAT
* * * *
5718 TTACATTTTAGTC-CTTTTTTCATTTTGTTTTATTTTAATTTTTG-CATGTCACT-TTTATGTTG
1 TT-CATTTTAGTCAC-TTTTGCACTTTATTTTATTTTAA-TTTTGACATG--ACTATTTAT-TTA
5780 T
60 T
5781 TTCATTTTAGTCACT
1 TTCATTTTAGTCACT
5796 GATTAGTTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
60 3 0.05
61 33 0.51
62 21 0.32
63 8 0.12
ACGTcount: A:0.19, C:0.12, G:0.09, T:0.61
Consensus pattern (60 bp):
TTCATTTTAGTCACTTTTGCACTTTATTTTATTTTAATTTTGACATGACTATTTATTTAT
Found at i:6472 original size:127 final size:129
Alignment explanation
Indices: 6242--6601 Score: 492
Period size: 127 Copynumber: 2.8 Consensus size: 129
6232 TTAATATTGA
* * * * * * * *
6242 AAATAGTAATATCTTTTGATTTCGGTTGGAGTAATAAATGACTTCTTTAAGGCATGAGAGGTCAT
1 AAATAGTGACATCTCTTCATTTCGATCGGAGTAATAAA-GA-TGCTTTAAGGCATGATAGGTCAT
* *
6307 TTATTCTCGATTGGAAATAATTAGTTATTATCATTTTCTCTCTAATCAATATTG-ATTTTTAAGA
64 TTATTCTCGATTGGAAATAATTAGATATTATCATTTTCTCTCGAATCAATATTGTA-TTTTAAGA
6371 CG
128 CG
* * * * *
6373 AAATAGTGATATCTCTTCATTTCGATTGGAGTAA-CAA-CTGCTTTAAGGCATGATATGTCATTT
1 AAATAGTGACATCTCTTCATTTCGATCGGAGTAATAAAGATGCTTTAAGGCATGATAGGTCATTT
*
6436 ATTCTCGATTGGAAATAATTAGATATTATCGTTTTCTCTCGAATCAATATTGTATTTTAAGACG
66 ATTCTCGATTGGAAATAATTAGATATTATCATTTTCTCTCGAATCAATATTGTATTTTAAGACG
6500 AAATAGTGACATCTCTTCATTTCGATCGGAGTAATAAATGGATGCTTTAAGGCATGATAGGTCAT
1 AAATAGTGACATCTCTTCATTTCGATCGGAGTAATAAA--GATGCTTTAAGGCATGATAGGTCAT
* *
6565 TTATTCTCCATTGGAAATAATTAGATATTATTATTTT
64 TTATTCTCGATTGGAAATAATTAGATATTATCATTTT
6602 GTTTTTTGTA
Statistics
Matches: 204, Mismatches: 20, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
127 113 0.55
128 3 0.01
130 2 0.01
131 86 0.42
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (129 bp):
AAATAGTGACATCTCTTCATTTCGATCGGAGTAATAAAGATGCTTTAAGGCATGATAGGTCATTT
ATTCTCGATTGGAAATAATTAGATATTATCATTTTCTCTCGAATCAATATTGTATTTTAAGACG
Found at i:8725 original size:27 final size:26
Alignment explanation
Indices: 8686--8917 Score: 112
Period size: 26 Copynumber: 9.5 Consensus size: 26
8676 ATGCATTAAG
8686 GCATGAAAGGATGCCATAAACTAAAAT
1 GCATGAAAGGATGCCAT-AACTAAAAT
* *
8713 GCATGAAAAGATGCCATAATTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
*
8739 GCATGAAATGATG-CATTAAGGCATAAAA-
1 GCATGAAAGGATGCCA-TAA--C-TAAAAT
* *
8767 GGATG---CGAT---A-AACTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
* *
8786 GCATGAAATGATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
* *
8806 GCATGAAAGGATACCATAATTAAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
* *
8832 GCATGAAAGGATGTCATAAACTAATAT
1 GCATGAAAGGATGCCAT-AACTAAAAT
* *
8859 GCATGAAAGAATG-CAT---T--AAG
1 GCATGAAAGGATGCCATAACTAAAAT
* *
8879 GCATGAAAGGATGCCATAATTTAAAT
1 GCATGAAAGGATGCCATAACTAAAAT
8905 GCAT-AAATGGATG
1 GCATGAAA-GGATG
8918 TGTTAATACG
Statistics
Matches: 159, Mismatches: 21, Indels: 51
0.69 0.09 0.22
Matches are distributed among these distances:
18 5 0.03
19 5 0.03
20 26 0.16
21 8 0.05
22 5 0.03
23 1 0.01
24 3 0.02
25 8 0.05
26 54 0.34
27 35 0.22
28 4 0.03
29 5 0.03
ACGTcount: A:0.46, C:0.11, G:0.20, T:0.23
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAACTAAAAT
Found at i:8743 original size:26 final size:26
Alignment explanation
Indices: 8644--8752 Score: 113
Period size: 26 Copynumber: 4.3 Consensus size: 26
8634 GAACTGCTCT
*
8644 AAATCGATTCCATAATTAAAATGCATG
1 AAAT-GATGCCATAATTAAAATGCATG
*
8671 AAATGATG-C---ATT--AAGGCATG
1 AAATGATGCCATAATTAAAATGCATG
* *
8691 AAAGGATGCCATAAACTAAAATGCATG
1 AAATGATGCCAT-AATTAAAATGCATG
*
8718 AAAAGATGCCATAATTAAAATGCATG
1 AAATGATGCCATAATTAAAATGCATG
8744 AAATGATGC
1 AAATGATGC
8753 ATTAAGGCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
20 14 0.21
21 1 0.01
22 3 0.04
25 3 0.04
26 24 0.36
27 22 0.33
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (26 bp):
AAATGATGCCATAATTAAAATGCATG
Found at i:8743 original size:73 final size:73
Alignment explanation
Indices: 8653--8799 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
8643 TAAATCGATT
*
8653 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAACTAAAATGCATG
1 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAAACTAAAATGCATG
8718 AAAAGATG
66 AAAAGATG
*
8726 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGATGCGATAAACTAAAATGCATG
1 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAAACTAAAATGCATG
*
8791 AAATGATG
66 AAAAGATG
8799 C
1 C
8800 ATTAAGGCAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.46, C:0.12, G:0.19, T:0.22
Consensus pattern (73 bp):
CCATAATTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAAACTAAAATGCATG
AAAAGATG
Found at i:8772 original size:46 final size:46
Alignment explanation
Indices: 8713--8844 Score: 194
Period size: 47 Copynumber: 2.8 Consensus size: 46
8703 AAACTAAAAT
8713 GCATGAAAA-GATGCCATAATTAAAATGCATGAAATGATGCATTAAG
1 GCAT-AAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
* *
8759 GCATAAAAGGATGCGATAAACTAAAATGCATGAAATGATGCATTAAG
1 GCATAAAAGGATGCCAT-AATTAAAATGCATGAAATGATGCATTAAG
* * *
8806 GCATGAAAGGATACCATAATTAAAATGCATGAAAGGATG
1 GCATAAAAGGATGCCATAATTAAAATGCATGAAATGATG
8845 TCATAAACTA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
45 4 0.05
46 31 0.40
47 42 0.55
ACGTcount: A:0.46, C:0.11, G:0.21, T:0.22
Consensus pattern (46 bp):
GCATAAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
Found at i:8811 original size:20 final size:20
Alignment explanation
Indices: 8739--8813 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 20
8729 TAATTAAAAT
8739 GCATGAAATGATGCATTAAG
1 GCATGAAATGATGCATTAAG
* * *
8759 GCATAAAAGGATGCGATAAACTAAAAT
1 GCATGAAATGATGC-AT----T--AAG
8786 GCATGAAATGATGCATTAAG
1 GCATGAAATGATGCATTAAG
8806 GCATGAAA
1 GCATGAAA
8814 GGATACCATA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
20 22 0.52
21 2 0.05
22 1 0.02
25 1 0.02
26 2 0.05
27 14 0.33
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.21
Consensus pattern (20 bp):
GCATGAAATGATGCATTAAG
Found at i:8836 original size:26 final size:27
Alignment explanation
Indices: 8806--8867 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
8796 ATGCATTAAG
*
8806 GCATGAAAGGATACCAT-AATTAAAAT
1 GCATGAAAGGATACCATAAACTAAAAT
** *
8832 GCATGAAAGGATGTCATAAACTAATAT
1 GCATGAAAGGATACCATAAACTAAAAT
8859 GCATGAAAG
1 GCATGAAAG
8868 AATGCATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 15 0.48
27 16 0.52
ACGTcount: A:0.47, C:0.11, G:0.19, T:0.23
Consensus pattern (27 bp):
GCATGAAAGGATACCATAAACTAAAAT
Found at i:8841 original size:73 final size:72
Alignment explanation
Indices: 8759--8918 Score: 234
Period size: 73 Copynumber: 2.2 Consensus size: 72
8749 ATGCATTAAG
8759 GCATAAAAGGATG-CGATAAACTAAAATGCATGAAATG-ATGCATTAAGGCATGAAAGGATACCA
1 GCAT-AAAGGATGTC-ATAAACTAAAATGCATGAAA-GAATGCATTAAGGCATGAAAGGATACCA
8822 TAATTAAAAT
63 TAATTAAAAT
* *
8832 GCATGAAAGGATGTCATAAACTAATATGCATGAAAGAATGCATTAAGGCATGAAAGGATGCCATA
1 GCAT-AAAGGATGTCATAAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGATACCATA
*
8897 ATTTAAAT
65 ATTAAAAT
8905 GCATAAATGGATGT
1 GCATAAA-GGATGT
8919 GTTAATACGT
Statistics
Matches: 80, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
72 4 0.05
73 75 0.94
74 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.24
Consensus pattern (72 bp):
GCATAAAGGATGTCATAAACTAAAATGCATGAAAGAATGCATTAAGGCATGAAAGGATACCATAA
TTAAAAT
Found at i:8873 original size:120 final size:119
Alignment explanation
Indices: 8653--8913 Score: 375
Period size: 120 Copynumber: 2.2 Consensus size: 119
8643 TAAATCGATT
* *
8653 CCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATGCCATAAACTAAAATGCATG
1 CCATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATACCATAAACTAAAATGCATG
*
8718 AAAAGATGCCATAATTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGATG
66 AAAAGATGCCATAACTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGATG
* *
8772 CGATAAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATACCAT-AATTAAAATGCAT
1 CCAT-AACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATACCATAAACTAAAATGCAT
* * * *
8836 GAAAGGATGTCATAAACTAATATGCATGAAA-GAATGCATTAAGGCATGAAAGGATG
65 GAAAAGATGCCAT-AACTAAAATGCATGAAATG-ATGCATTAAGGCATAAAAGGATG
* *
8892 CCATAATTTAAATGCAT-AAATG
1 CCATAACTAAAATGCATGAAATG
8914 GATGTGTTAA
Statistics
Matches: 127, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
118 5 0.04
119 38 0.30
120 84 0.66
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.23
Consensus pattern (119 bp):
CCATAACTAAAATGCATGAAATGATGCATTAAGGCATGAAAGGATACCATAAACTAAAATGCATG
AAAAGATGCCATAACTAAAATGCATGAAATGATGCATTAAGGCATAAAAGGATG
Found at i:10973 original size:20 final size:20
Alignment explanation
Indices: 10948--10994 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
10938 ACCAAGTTGG
10948 TTAGAACTAGAGGAATTCCT
1 TTAGAACTAGAGGAATTCCT
10968 TTAGAACTAGAGGAATTCCT
1 TTAGAACTAGAGGAATTCCT
10988 TTAGAAC
1 TTAGAAC
10995 CAATTTCTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (20 bp):
TTAGAACTAGAGGAATTCCT
Found at i:15098 original size:20 final size:20
Alignment explanation
Indices: 15078--15114 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
15068 GATACTGAAG
*
15078 GGGAA-GTATTGATACCAAA
1 GGGAATGTATCGATACCAAA
15097 GGGAATGTATCGATACCA
1 GGGAATGTATCGATACCA
15115 TTTTTGAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (20 bp):
GGGAATGTATCGATACCAAA
Found at i:15739 original size:26 final size:27
Alignment explanation
Indices: 15701--15767 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
15691 ATGCATTAAG
15701 GCATGAAAT-GATGCCATAAT-TAAAAT
1 GCATG-AATGGATGCCATAATCTAAAAT
*
15727 GCATGAATGGATGCCATACTCTAAAAT
1 GCATGAATGGATGCCATAATCTAAAAT
*
15754 GCATGAAAGGATGC
1 GCATGAATGGATGC
15768 ATTAAGGCAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 3 0.08
26 15 0.41
27 19 0.51
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (27 bp):
GCATGAATGGATGCCATAATCTAAAAT
Found at i:15767 original size:73 final size:72
Alignment explanation
Indices: 15676--15945 Score: 349
Period size: 73 Copynumber: 3.8 Consensus size: 72
15666 AATCCATAAT
* *
15676 TAAAATGCATG-AAGGATGCATTAAGGCATGAAATGATGCCATAATTAAAATGCATGAATGGATG
1 TAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAATGGATG
15740 CCATACTC
66 CCATA-TC
15748 TAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAAT-GAT
1 TAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATG-AATGGAT
15812 G-C--AT-
65 GCCATATC
* * * *
15816 T--AAGGCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAAGGAAG
1 TAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAATGGATG
* *
15879 CGATAAAC
66 CCAT-ATC
* * * *
15887 TAAAATGCATGAAATGATGAATTAAGTCATGAAAGGATGCCATAATTAAAATGCATGAA
1 TAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAA
15946 ATGATGCATT
Statistics
Matches: 176, Mismatches: 12, Indels: 19
0.85 0.06 0.09
Matches are distributed among these distances:
65 2 0.01
66 55 0.31
68 1 0.01
69 1 0.01
70 2 0.01
71 1 0.01
72 12 0.07
73 99 0.56
74 3 0.02
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (72 bp):
TAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAATGGATG
CCATATC
Found at i:15782 original size:20 final size:20
Alignment explanation
Indices: 15754--15853 Score: 101
Period size: 20 Copynumber: 4.7 Consensus size: 20
15744 ACTCTAAAAT
15754 GCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
* *
15774 GCATAAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATG-C---ATT--AAG
*
15800 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
15820 GCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCATTAAG
*
15840 GCATAAAAGGATGC
1 GCATGAAAGGATGC
15854 CATAATTAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
20 46 0.69
21 1 0.01
22 3 0.04
24 3 0.04
25 1 0.01
26 13 0.19
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (20 bp):
GCATGAAAGGATGCATTAAG
Found at i:15803 original size:46 final size:46
Alignment explanation
Indices: 15727--15977 Score: 253
Period size: 46 Copynumber: 5.4 Consensus size: 46
15717 TAATTAAAAT
* * *
15727 GCATGAATGGATGCCATACTCTAAAATGCATGAAAGGATGCATTAAG
1 GCATGAAAGGATGCCATAAT-TAAAATGCATGAAATGATGCATTAAG
*
15774 GCATAAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
* * * * *
15820 GCATGAAATGATG-C---ATT--AAGGCATAAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGATG-C---ATT--AAG
* * * *
15866 GCATGAAAGGAAGCGATAAACTAAAATGCATGAAATGATGAATTAAG
1 GCATGAAAGGATGCCAT-AATTAAAATGCATGAAATGATGCATTAAG
*
15913 TCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
*
15959 GCATGAAATGATGCCATAA
1 GCATGAAAGGATGCCATAA
15978 ACTAAGATAT
Statistics
Matches: 165, Mismatches: 26, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
40 13 0.08
41 1 0.01
42 3 0.02
44 3 0.02
45 1 0.01
46 93 0.56
47 33 0.20
49 3 0.02
51 2 0.01
53 13 0.08
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (46 bp):
GCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAG
Found at i:15860 original size:66 final size:66
Alignment explanation
Indices: 15754--15972 Score: 312
Period size: 66 Copynumber: 3.2 Consensus size: 66
15744 ACTCTAAAAT
*
15754 GCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAA
1 GCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAA
15819 G
66 G
* *
15820 GCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAAGGAAGCGATAA
1 GCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGATGC-AT--
*
15885 ACTAAAAT
63 --T--AAG
* * *
15893 GCATGAAATGATGAATTAAGTCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAA
1 GCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAA
15958 G
66 G
15959 GCATGAAATGATGC
1 GCATGAAATGATGC
15973 CATAAACTAA
Statistics
Matches: 135, Mismatches: 11, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
66 72 0.53
67 2 0.01
68 1 0.01
71 1 0.01
72 2 0.01
73 57 0.42
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.23
Consensus pattern (66 bp):
GCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAA
G
Found at i:15869 original size:26 final size:26
Alignment explanation
Indices: 15840--16024 Score: 117
Period size: 26 Copynumber: 7.5 Consensus size: 26
15830 ATGCATTAAG
*
15840 GCATAAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCCATAATTAAAAT
* * *
15866 GCATGAAAGGAAGCGATAAACTAAAAT
1 GCATGAAAGGATGCCAT-AATTAAAAT
* *
15893 GCATGAAATGATG----AATT-AAGT
1 GCATGAAAGGATGCCATAATTAAAAT
15914 -CATGAAAGGATGCCATAATTAAAAT
1 GCATGAAAGGATGCCATAATTAAAAT
* *
15939 GCATGAAATGATG-C---ATT--AAG
1 GCATGAAAGGATGCCATAATTAAAAT
* * *
15959 GCATGAAATGATGCCATAAACTAAGAT
1 GCATGAAAGGATGCCAT-AATTAAAAT
** * *
15986 ATATGAAAGGATGTCATAATTTAAAT
1 GCATGAAAGGATGCCATAATTAAAAT
16012 GCAT-AAATGGATG
1 GCATGAAA-GGATG
16025 TGTTAATAAG
Statistics
Matches: 120, Mismatches: 24, Indels: 30
0.69 0.14 0.17
Matches are distributed among these distances:
20 26 0.22
21 4 0.03
22 6 0.05
24 4 0.03
25 9 0.08
26 38 0.32
27 33 0.28
ACGTcount: A:0.46, C:0.10, G:0.20, T:0.24
Consensus pattern (26 bp):
GCATGAAAGGATGCCATAATTAAAAT
Found at i:15940 original size:139 final size:139
Alignment explanation
Indices: 15682--15972 Score: 467
Period size: 139 Copynumber: 2.1 Consensus size: 139
15672 TAATTAAAAT
* * * * * *
15682 GCATG-AAGGATGCATTAAGGCATGAAATGATGCCATAATTAAAATGCATGAATGGATGCCATAC
1 GCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAAGGAAGCCATAA
* *
15746 TCTAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGA
66 ACTAAAATGCATGAAAGGATGAATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGA
15811 TGCATTAAG
131 TGCATTAAG
*
15820 GCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAAGGAAGCGATAA
1 GCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAAGGAAGCCATAA
* * *
15885 ACTAAAATGCATGAAATGATGAATTAAGTCATGAAAGGATGCCATAATTAAAATGCATGAAATGA
66 ACTAAAATGCATGAAAGGATGAATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGA
15950 TGCATTAAG
131 TGCATTAAG
15959 GCATGAAATGATGC
1 GCATGAAATGATGC
15973 CATAAACTAA
Statistics
Matches: 140, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
138 5 0.04
139 135 0.96
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.23
Consensus pattern (139 bp):
GCATGAAATGATGCATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAAGGAAGCCATAA
ACTAAAATGCATGAAAGGATGAATTAAGGCATAAAAGGATGCCATAATTAAAATGCATGAAATGA
TGCATTAAG
Found at i:15972 original size:20 final size:20
Alignment explanation
Indices: 15893--15972 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
15883 AAACTAAAAT
*
15893 GCATGAAATGATGAATTAAG
1 GCATGAAATGATGCATTAAG
* * *
15913 TCATGAAAGGATGCCATAATTAAAAT
1 GCATGAAATGATG-C---ATT--AAG
15939 GCATGAAATGATGCATTAAG
1 GCATGAAATGATGCATTAAG
15959 GCATGAAATGATGC
1 GCATGAAATGATGC
15973 CATAAACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
20 27 0.57
22 3 0.06
24 3 0.06
25 1 0.02
26 13 0.28
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (20 bp):
GCATGAAATGATGCATTAAG
Found at i:15993 original size:93 final size:93
Alignment explanation
Indices: 15727--15982 Score: 274
Period size: 93 Copynumber: 2.8 Consensus size: 93
15717 TAATTAAAAT
* * *
15727 GCATGAATGGATGCCATACTCTAAAATGCATGAAAGGATGCATTAAGGCATAAAAGGATGCCAT-
1 GCATGAAAGGATGCCATAAT-TAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATA
* *
15791 AATTAAAATGCATGAAATGATGCATTAAG
65 AACTAAAATGCATGAAATGATGAATTAAG
* * * * *
15820 GCATGAAATGATG-C---ATT--AAGGCATAAAAGGATGCCATAATTAAAATGCATGAAAGGAAG
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATG-C---ATT--AAGGCATGAAAGGATG
*
15879 CGATAAACTAAAATGCATGAAATGATGAATTAAG
60 CCATAAACTAAAATGCATGAAATGATGAATTAAG
* * *
15913 TCATGAAAGGATGCCATAATTAAAATGCATGAAATGATGCATTAAGGCATGAAATGATGCCATAA
1 GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
15978 ACTAA
66 ACTAA
15983 GATATATGAA
Statistics
Matches: 130, Mismatches: 20, Indels: 26
0.74 0.11 0.15
Matches are distributed among these distances:
86 14 0.11
87 1 0.01
88 1 0.01
89 1 0.01
90 3 0.02
92 17 0.13
93 72 0.55
94 1 0.01
95 3 0.02
97 3 0.02
98 1 0.01
99 13 0.10
ACGTcount: A:0.45, C:0.12, G:0.21, T:0.23
Consensus pattern (93 bp):
GCATGAAAGGATGCCATAATTAAAATGCATGAAAGGATGCATTAAGGCATGAAAGGATGCCATAA
ACTAAAATGCATGAAATGATGAATTAAG
Found at i:24249 original size:7 final size:7
Alignment explanation
Indices: 24234--24292 Score: 68
Period size: 7 Copynumber: 8.4 Consensus size: 7
24224 TCGCTTGAAT
24234 AAAGAAA
1 AAAGAAA
*
24241 AATGAAA
1 AAAGAAA
24248 AAAGAAA
1 AAAGAAA
24255 AAAGAAA
1 AAAGAAA
24262 AAAGGGAAA
1 AAA--GAAA
*
24271 AAA-AAG
1 AAAGAAA
24277 AAA-AAA
1 AAAGAAA
24283 AAAGAAA
1 AAAGAAA
24290 AAA
1 AAA
24293 AGGGATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
6 10 0.22
7 28 0.62
9 7 0.16
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (7 bp):
AAAGAAA
Found at i:24251 original size:14 final size:14
Alignment explanation
Indices: 24229--24265 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
24219 ATACTTCGCT
*
24229 TGAATAAAGAAAAA
1 TGAAAAAAGAAAAA
24243 TGAAAAAAGAAAAA
1 TGAAAAAAGAAAAA
*
24257 AGAAAAAAG
1 TGAAAAAAG
24266 GGAAAAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (14 bp):
TGAAAAAAGAAAAA
Found at i:24257 original size:9 final size:9
Alignment explanation
Indices: 24252--24293 Score: 57
Period size: 9 Copynumber: 4.6 Consensus size: 9
24242 ATGAAAAAAG
24252 AAAAAAGAA
1 AAAAAAGAA
**
24261 AAAAGGGAA
1 AAAAAAGAA
24270 AAAAAAGAAA
1 AAAAAAG-AA
24280 AAAAAAGAA
1 AAAAAAGAA
24289 AAAAA
1 AAAAA
24294 GGGATTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:25775 original size:133 final size:133
Alignment explanation
Indices: 25550--25884 Score: 444
Period size: 133 Copynumber: 2.5 Consensus size: 133
25540 GCAAATCGAA
* * *
25550 CTCGATTCAATATTCCCTGGAGAATAGTAGAATGAATCAAC-GCTTCTAGT-TCTGATTTTCCCT
1 CTCGATTCAATATTCCCTGAAGAATAGTGGAATGAATCAACATC-TCTA-TATCTGATTTTCCCT
* *
25613 GAAGAAGTAGCGGAACATATCCCCTCTTTCCAGACTTGATCTTCCCTGAGTAGCAGT-GAAGCAA
64 GAAGAAGTAGCGGAACAGATCCCCTCTTTCCAGACTTGATCTTCCCTGAGTAGAAGTGGAA-CAA
*
25677 GTCTTC
128 GTCTAC
* *
25683 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACATCTCTATATCTGATTTTCCCTGA
1 CTCGATTCAATATTCCCTGAAGAATAGTGGAATGAATCAACATCTCTATATCTGATTTTCCCTGA
* * * *
25748 AGAAGTAGTGGAATAGATCCCCTCTTTCCAGATTTGATCTTCCTTGAGTAGAAGTGGAACAAGTC
66 AGAAGTAGCGGAACAGATCCCCTCTTTCCAGACTTGATCTTCCCTGAGTAGAAGTGGAACAAGTC
25813 TAC
131 TAC
* * * * * * *
25816 CTCGATTCAATTTTCCCTAAAGATTAGTGGAATTAATCAACATTTCTAGATCTGA-TTACCCTGA
1 CTCGATTCAATATTCCCTGAAGAATAGTGGAATGAATCAACATCTCTATATCTGATTTTCCCTGA
25880 AGAAG
66 AGAAG
25885 CACTGGAACA
Statistics
Matches: 179, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
132 14 0.08
133 161 0.90
134 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (133 bp):
CTCGATTCAATATTCCCTGAAGAATAGTGGAATGAATCAACATCTCTATATCTGATTTTCCCTGA
AGAAGTAGCGGAACAGATCCCCTCTTTCCAGACTTGATCTTCCCTGAGTAGAAGTGGAACAAGTC
TAC
Found at i:26096 original size:3 final size:3
Alignment explanation
Indices: 26088--26145 Score: 95
Period size: 3 Copynumber: 20.3 Consensus size: 3
26078 TCATCCTGAC
26088 ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT -TT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
26134 ATT ATT -TT ATT A
1 ATT ATT ATT ATT A
26146 GTTGCAGGCC
Statistics
Matches: 52, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
2 6 0.12
3 46 0.88
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:26124 original size:25 final size:26
Alignment explanation
Indices: 26089--26145 Score: 107
Period size: 25 Copynumber: 2.2 Consensus size: 26
26079 CATCCTGACA
26089 TTATTATTATTATTATTATTATTATT
1 TTATTATTATTATTATTATTATTATT
26115 TTATT-TTATTATTATTATTATTATT
1 TTATTATTATTATTATTATTATTATT
26140 TTATTA
1 TTATTA
26146 GTTGCAGGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 25 0.83
26 5 0.17
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (26 bp):
TTATTATTATTATTATTATTATTATT
Found at i:27638 original size:61 final size:62
Alignment explanation
Indices: 27572--27710 Score: 162
Period size: 61 Copynumber: 2.3 Consensus size: 62
27562 ATTAAAAATG
* *
27572 TTCATTTTAGTCACT-TTTGCACTTTATTTTGTTTTAA-TTTTGACATGATGA-TTTAT-TTGTT
1 TTCATTTTAGTCACTATTTGCACTTTATTTTATTTTAATTTTTG-CATG-TCACTTTATGTTG-T
** *
27633 TTCATTTTAGTC-CTATTTGCGTTTTGTTTTATTTTAATTTTTGCATGTCACTTTTATGTTGT
1 TTCATTTTAGTCACTATTTGCACTTTATTTTATTTTAATTTTTGCATGTCAC-TTTATGTTGT
27695 TTCATTTTAGTCACTA
1 TTCATTTTAGTCACTA
27711 ATTAGTTTTG
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
60 4 0.06
61 34 0.51
62 23 0.34
63 6 0.09
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.59
Consensus pattern (62 bp):
TTCATTTTAGTCACTATTTGCACTTTATTTTATTTTAATTTTTGCATGTCACTTTATGTTGT
Found at i:29349 original size:60 final size:60
Alignment explanation
Indices: 29234--29352 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 60
29224 TTGGCCATGG
* * *
29234 AATTTGAATGTTCAAAAGTTTAAGGACTAATTTAAAAGGAAAGTCATAGCCTAGGGATAA
1 AATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAAGGAAAGTCATAACCTAGGGATAA
* **
29294 AATTAGAATATTCAAAAGTTTAAGGA-TCAATTTAAAATGAGAA-TCATAATTTAGGGATA
1 AATTAGAATATTCAAAAGTTTAAGGACT-AATTTAAAAGGA-AAGTCATAACCTAGGGATA
29353 TATGATACAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
59 1 0.02
60 48 0.94
61 2 0.04
ACGTcount: A:0.45, C:0.07, G:0.18, T:0.30
Consensus pattern (60 bp):
AATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAAGGAAAGTCATAACCTAGGGATAA
Found at i:30358 original size:34 final size:34
Alignment explanation
Indices: 30302--30384 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 34
30292 ATTATATATA
* *
30302 TATATATAATAATATTTTATATTTTTTATATTAAT
1 TATATAT-ATAATATATGATATTTTTTATATTAAT
*
30337 TATATATATGATATATGATATTTTTTATATTAAT
1 TATATATATAATATATGATATTTTTTATATTAAT
*
30371 TATATATAAAATAT
1 TATATATATAATAT
30385 TTTCGGGTTC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 36 0.84
35 7 0.16
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.55
Consensus pattern (34 bp):
TATATATATAATATATGATATTTTTTATATTAAT
Found at i:32468 original size:23 final size:22
Alignment explanation
Indices: 32438--32542 Score: 115
Period size: 23 Copynumber: 4.7 Consensus size: 22
32428 TCGAGGGTTC
32438 TATGTGGTCCTTCGGGATAAAAT
1 TATGTGGTCCTTCGGGA-AAAAT
*
32461 TATGTGGTCCTTCGGGAAAAACC
1 TATGTGGTCCTTCGGGAAAAA-T
*
32484 TATGTGGTCCTTCGAGACAAAAT
1 TATGTGGTCCTTCGGGA-AAAAT
* * *
32507 TATGTGATCATTCGGG-ACAAT
1 TATGTGGTCCTTCGGGAAAAAT
32528 TATGTGG-CACTTCGG
1 TATGTGGTC-CTTCGG
32543 TGCAAATTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
20 1 0.01
21 15 0.21
22 4 0.06
23 46 0.66
24 4 0.06
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (22 bp):
TATGTGGTCCTTCGGGAAAAAT
Found at i:33301 original size:25 final size:24
Alignment explanation
Indices: 33251--33341 Score: 73
Period size: 24 Copynumber: 3.9 Consensus size: 24
33241 TTTATTTTTT
**
33251 TTAAAAATA-AAAATTATTTTAAA
1 TTAAAAATATAAAATTATTAAAAA
*
33274 TTACAAATATAAAATTATTAAAATA
1 TTAAAAATATAAAATTATTAAAA-A
*
33299 TTAAAAAT-TTAAA-TA-TAAAAA
1 TTAAAAATATAAAATTATTAAAAA
* * * *
33320 CTAAAAAAATTAAATTACTAAA
1 TTAAAAATATAAAATTATTAAA
33342 TAAATGAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
21 7 0.12
22 10 0.18
23 12 0.21
24 19 0.34
25 8 0.14
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (24 bp):
TTAAAAATATAAAATTATTAAAAA
Found at i:33729 original size:25 final size:25
Alignment explanation
Indices: 33701--33749 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
33691 GTAAGTTTGA
*
33701 CTAATCCAAAATTTGTAAGTCTTAG
1 CTAATCCAAAATTTATAAGTCTTAG
** *
33726 CTAATTTAAATTTTATAAGTCTTA
1 CTAATCCAAAATTTATAAGTCTTA
33750 ATTAATCAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.43
Consensus pattern (25 bp):
CTAATCCAAAATTTATAAGTCTTAG
Found at i:34092 original size:20 final size:19
Alignment explanation
Indices: 34068--34122 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
34058 AATCAGTTTC
*
34068 CAAAATCGCAACGCGAATA
1 CAAAATCGCAACGCGAACA
* *
34087 TGAAAATCACAACGCGAACA
1 -CAAAATCGCAACGCGAACA
34107 CATAAATCGCAACGCG
1 CA-AAATCGCAACGCG
34123 TATCCGTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.45, C:0.27, G:0.16, T:0.11
Consensus pattern (19 bp):
CAAAATCGCAACGCGAACA
Found at i:34132 original size:20 final size:20
Alignment explanation
Indices: 34109--34263 Score: 213
Period size: 20 Copynumber: 7.7 Consensus size: 20
34099 CGCGAACACA
34109 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
34129 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACGCGTATCCG
**
34149 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACGCGTATCCG
*
34169 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACGCGTATCCG
*
34189 TATATCGCAACGCGTATCCG
1 TAAATCGCAACGCGTATCCG
* * *
34209 TAAATCGCAACG-ATAATACA
1 TAAATCGCAACGCGT-ATCCG
34229 TAAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCGTATCCG
34250 TAAATCGCAACGCG
1 TAAATCGCAACGCG
34264 ATATTTAAAG
Statistics
Matches: 116, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 99 0.85
21 15 0.13
22 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (20 bp):
TAAATCGCAACGCGTATCCG
Found at i:34134 original size:40 final size:39
Alignment explanation
Indices: 34070--34264 Score: 192
Period size: 40 Copynumber: 4.9 Consensus size: 39
34060 TCAGTTTCCA
* ** * *
34070 AAATCGCAACGCGAATATGAAAATCACAACGCGAACACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CAT
* * *
34110 AAATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
** * * *
34150 AAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCAT
* ** *
34190 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACAT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT
34230 AAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
34265 TATTTAAAGC
Statistics
Matches: 128, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.73
41 33 0.26
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAACCAT
Found at i:34134 original size:60 final size:60
Alignment explanation
Indices: 34070--34264 Score: 237
Period size: 60 Copynumber: 3.2 Consensus size: 60
34060 TCAGTTTCCA
** * * *
34070 AAATCGCAACGCGAATATGAAAATCACAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * * *** *
34130 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * **
34190 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
34251 AAATCGCAACGCGA
1 AAATCGCAACGCGA
34265 TATTTAAAGC
Statistics
Matches: 111, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGAATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:34685 original size:33 final size:33
Alignment explanation
Indices: 34646--34716 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
34636 TTCACTTAGA
*
34646 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
34679 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
34712 TTTCA
1 TTTCA
34717 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:34840 original size:20 final size:20
Alignment explanation
Indices: 34796--34905 Score: 108
Period size: 21 Copynumber: 5.8 Consensus size: 20
34786 TGCAGAAGAG
*
34796 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGA-GAATGAAAA
***
34817 TCGCAACGAGAGAATGACTG
1 TCGCAACGAGAGAATGAAAA
34837 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAG-AATGAAAA
34858 TCGCAAC--GAG-A-G--AA
1 TCGCAACGAGAGAATGAAAA
*
34872 TCGCAACGCGA-AATGAAAA
1 TCGCAACGAGAGAATGAAAA
34891 TCGCAACGAGAGAAT
1 TCGCAACGAGAGAAT
34906 CGCAACGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 17
0.74 0.08 0.17
Matches are distributed among these distances:
14 9 0.12
16 4 0.05
17 2 0.03
19 15 0.21
20 20 0.27
21 23 0.32
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (20 bp):
TCGCAACGAGAGAATGAAAA
Found at i:34853 original size:41 final size:38
Alignment explanation
Indices: 34789--34905 Score: 145
Period size: 41 Copynumber: 3.1 Consensus size: 38
34779 TTCAATTTGC
* *
34789 AGAAGAGTCGCAACGAGATAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
34827 AGAATGACTGTCGCAACGAGAGAAATGAAAATCGCAACGAG
1 AGAAT-A--GTCGCAACGAGAGAAATGAAAATCGCAACGAG
*
34868 AG-A-A-TCGCAAC--GCGAAATGAAAATCGCAACGAG
1 AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
34901 AGAAT
1 AGAAT
34906 CGCAACGCGA
Statistics
Matches: 71, Mismatches: 3, Indels: 13
0.82 0.03 0.15
Matches are distributed among these distances:
33 23 0.32
34 1 0.01
35 7 0.10
38 5 0.07
39 1 0.01
40 1 0.01
41 33 0.46
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (38 bp):
AGAATAGTCGCAACGAGAGAAATGAAAATCGCAACGAG
Found at i:34875 original size:14 final size:14
Alignment explanation
Indices: 34856--34912 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
34846 GAGAAATGAA
34856 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
34870 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
34889 AATCGCAACGAGAG
1 AATCGCAACGAGAG
34903 AATCGCAACG
1 AATCGCAACG
34913 CGAAACCAAA
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:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:34888 original size:33 final size:33
Alignment explanation
Indices: 34848--34928 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
34838 CGCAACGAGA
34848 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
34881 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
34914 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
34929 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:34946 original size:19 final size:19
Alignment explanation
Indices: 34924--34988 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
34914 GAAACCAAAA
*
34924 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
34943 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
34957 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
34976 TCGCGTTGCGATT
1 TCGCGTTGCGATT
34989 CTCTCGTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
16 3 0.08
17 3 0.08
19 22 0.58
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:34965 original size:14 final size:14
Alignment explanation
Indices: 34946--35002 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
34936 TTTCATTTCG
34946 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
34960 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
34979 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
34993 CGTTGCGATT
1 CGTTGCGATT
35003 TTCATTTCAA
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:34971 original size:33 final size:33
Alignment explanation
Indices: 34929--35010 Score: 164
Period size: 33 Copynumber: 2.5 Consensus size: 33
34919 CAAAATCGCA
34929 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
34962 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
34995 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
35011 AACCAAAAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.10, C:0.23, G:0.20, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:36867 original size:93 final size:93
Alignment explanation
Indices: 36708--37362 Score: 1276
Period size: 93 Copynumber: 7.1 Consensus size: 93
36698 TAGATTGCTT
*
36708 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
36773 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
36801 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
36866 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
36894 AGTAAATTTGTTCGGTTGTTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
36959 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
36987 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
37052 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
37080 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
37145 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
37173 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
37238 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
37266 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACAGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
37331 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
37358 AGTAA
1 AGTAA
37363 TGCAATCCAT
Statistics
Matches: 558, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.01
93 552 0.99
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:37450 original size:19 final size:19
Alignment explanation
Indices: 37410--37519 Score: 105
Period size: 19 Copynumber: 6.3 Consensus size: 19
37400 TAGTTTACTT
* *
37410 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
37430 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
37449 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
37463 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
37482 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
37496 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
37515 TCGCA
1 TCGCA
37520 TTGCGATTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 21
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.27
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 29 0.39
20 13 0.18
ACGTcount: A:0.45, C:0.30, G:0.16, T:0.08
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:37470 original size:33 final size:32
Alignment explanation
Indices: 37427--37519 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 32
37417 ACGAAACTTA
37427 AAATCGCAACGCGAAACCAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
37459 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
37492 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
37520 TTGCGATTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
32 2 0.03
33 57 0.97
ACGTcount: A:0.46, C:0.30, G:0.17, T:0.06
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:37537 original size:19 final size:19
Alignment explanation
Indices: 37515--37671 Score: 154
Period size: 19 Copynumber: 8.8 Consensus size: 19
37505 GAAACCAAAA
*
37515 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
37534 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
37550 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
37567 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
37583 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
37600 TCGCGTTGTGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
**
37619 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
* *
37638 TCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATT
37657 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
37672 AAGTTTCGTG
Statistics
Matches: 113, Mismatches: 15, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
14 15 0.13
16 11 0.10
17 11 0.10
19 76 0.67
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:37556 original size:14 final size:14
Alignment explanation
Indices: 37537--37593 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
37527 TTTCATTTCG
37537 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
37551 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
37568 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
37584 CGTTGCGATT
1 CGTTGCGATT
37594 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:37562 original size:33 final size:33
Alignment explanation
Indices: 37520--37612 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
37510 CAAAATCGCA
*
37520 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
37553 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
37586 TTGCGATTTTCATTTCGCGTTGTGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
37613 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.11, C:0.19, G:0.22, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:37645 original size:38 final size:38
Alignment explanation
Indices: 37515--37671 Score: 154
Period size: 33 Copynumber: 4.4 Consensus size: 38
37505 GAAACCAAAA
*
37515 TCGCATTGCGATTTTCATTTCGCGTTGCGA-T-TC-TT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* *
37550 T--CGTTGCGATTTTCATTTCGCATTGCGA-T-TC-TG
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
* * **
37583 T--CGTTGCGATTTTCATTTCGCGTTGTGATTTTGGTT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
** *
37619 TCGCGTTGCGATTTTGGTTTCTCGTTGCGATTATCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
37657 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
37672 AAGTTTCGTG
Statistics
Matches: 103, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
33 55 0.53
34 1 0.01
35 2 0.02
36 2 0.02
38 43 0.42
ACGTcount: A:0.10, C:0.19, G:0.23, T:0.48
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTATCATT
Found at i:39630 original size:14 final size:14
Alignment explanation
Indices: 39611--39646 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
39601 ATTGTTTAAT
39611 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
39625 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
39639 TGATTTGT
1 TGATTTGT
39647 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:39769 original size:19 final size:19
Alignment explanation
Indices: 39753--39850 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
39743 AAAAATGACT
39753 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
39772 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
39791 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
39805 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
39824 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
39844 ATCGCAA
1 ATCGCAA
39851 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:39882 original size:53 final size:53
Alignment explanation
Indices: 39753--39869 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
39743 AAAAATGACT
39753 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
39805 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
39858 ATCGCAATGCGA
1 ATCGCAATGCGA
39870 TTTTAATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:39887 original size:19 final size:19
Alignment explanation
Indices: 39859--40041 Score: 172
Period size: 19 Copynumber: 10.7 Consensus size: 19
39849 AACGAGAGAA
* *
39859 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
39878 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
39894 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
39911 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
39930 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
39946 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
39963 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
39982 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
39998 TCG--TTGCGATTTTCA--
1 TCGCATTGCGATTTTCATT
*
40013 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
40029 TCGCATTGCGATT
1 TCGCATTGCGATT
40042 CTCTCGTTGC
Statistics
Matches: 137, Mismatches: 9, Indels: 36
0.75 0.05 0.20
Matches are distributed among these distances:
14 30 0.22
15 1 0.01
16 22 0.16
17 17 0.12
19 67 0.49
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:39902 original size:33 final size:33
Alignment explanation
Indices: 39865--40013 Score: 142
Period size: 33 Copynumber: 4.4 Consensus size: 33
39855 AGAATCGCAA
*
39865 TGCGATTTTAATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
39898 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--T
* * * * *
39936 TGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCAT
1 TGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCGT
39969 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
40002 TGCGATTTTCAT
1 TGCGATTTTCAT
40014 GTTGGGATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 22
0.72 0.10 0.17
Matches are distributed among these distances:
31 9 0.10
32 5 0.05
33 47 0.51
35 5 0.05
36 4 0.04
37 2 0.02
38 8 0.09
39 3 0.03
40 9 0.10
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.46
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
Found at i:39922 original size:52 final size:52
Alignment explanation
Indices: 39859--40055 Score: 332
Period size: 52 Copynumber: 3.9 Consensus size: 52
39849 AACGAGAGAA
* *
39859 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
39911 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
39963 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCA--
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
40013 T-G--TTGGGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATT
40056 GTAATTTCCG
Statistics
Matches: 142, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
47 40 0.28
49 1 0.01
50 1 0.01
52 100 0.70
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:40006 original size:14 final size:14
Alignment explanation
Indices: 39987--40055 Score: 50
Period size: 14 Copynumber: 4.6 Consensus size: 14
39977 TCATTTCGCA
39987 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
40001 TTGCGATTTTCAT-G
1 TTGCGATTCTC-TCG
* *
40015 TTGGGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
40032 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
40048 TTGCGATT
1 TTGCGATT
40056 GTAATTTCCG
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
14 24 0.57
15 1 0.02
16 7 0.17
17 5 0.12
19 5 0.12
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:40063 original size:33 final size:33
Alignment explanation
Indices: 39916--40055 Score: 153
Period size: 33 Copynumber: 4.2 Consensus size: 33
39906 TCATTTCGCA
39916 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
39949 TTGCGATTTTCATTTCGCATTGCGATT-T-TCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* * * * *
39980 TTTCGCA-TTGCGATTCTCTCGTTGCGATTTTCAT-G
1 TTGCG-ATTTTC-ATT-TCGCATTGCGATTCTC-TCG
*
40015 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
40048 TTGCGATT
1 TTGCGATT
40056 GTAATTTCCG
Statistics
Matches: 86, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
31 9 0.10
32 6 0.07
33 59 0.69
34 5 0.06
35 6 0.07
36 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.19, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:42354 original size:12 final size:12
Alignment explanation
Indices: 42337--42361 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42327 TCTTCGGGGA
42337 CTTTTTCTTCTT
1 CTTTTTCTTCTT
42349 CTTTTTCTTCTT
1 CTTTTTCTTCTT
42361 C
1 C
42362 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:43293 original size:20 final size:20
Alignment explanation
Indices: 43265--43454 Score: 186
Period size: 20 Copynumber: 9.5 Consensus size: 20
43255 AAATTTCAGT
* * * *
43265 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
43285 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
43305 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
43325 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
43345 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
* **
43365 GTTGCGATTTATGGATACAT
1 GTTGCGATTTACGGATACGC
43385 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
43405 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
43425 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
43445 GTTGCGATTT
1 GTTGCGATTT
43455 TGGAAAATCG
Statistics
Matches: 142, Mismatches: 24, Indels: 8
0.82 0.14 0.05
Matches are distributed among these distances:
19 2 0.01
20 138 0.97
21 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:43471 original size:21 final size:21
Alignment explanation
Indices: 43441--43523 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
43431 ATTTTCATAT
*
43441 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
43462 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
43483 TCGCATTGCGATTTT-TAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
43504 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
43524 CTGATTTGCG
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
20 2 0.04
21 44 0.92
22 2 0.04
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:43514 original size:42 final size:43
Alignment explanation
Indices: 43421--43519 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
43411 ATTTATGTGT
*
43421 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGGAAAA
** *
43462 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-TAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGGAA-AA
*
43504 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
43520 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGGAAAA
Found at i:45345 original size:62 final size:61
Alignment explanation
Indices: 45272--45388 Score: 189
Period size: 62 Copynumber: 1.9 Consensus size: 61
45262 TAAATATATT
* *
45272 TTAAATTCATATATTAAATTTAATTCACATCTTAACATTGAGAAATAAATTTTATTTTTACC
1 TTAAATACATATATTAAATTTAATTCACATCTTAACATT-AAAAATAAATTTTATTTTTACC
* *
45334 TTAAATACATATATTAAATTTAATTCACATCTTAATATTAAAAATATATTTTATT
1 TTAAATACATATATTAAATTTAATTCACATCTTAACATTAAAAATAAATTTTATT
45389 CTTATATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
61 14 0.27
62 37 0.73
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (61 bp):
TTAAATACATATATTAAATTTAATTCACATCTTAACATTAAAAATAAATTTTATTTTTACC
Found at i:45368 original size:31 final size:31
Alignment explanation
Indices: 45272--45368 Score: 97
Period size: 31 Copynumber: 3.1 Consensus size: 31
45262 TAAATATATT
45272 TTAAATTCATATATTAAATTTAATTCACATC
1 TTAAATTCATATATTAAATTTAATTCACATC
* * * * *** *
45303 TTAACATTGAGA-AATAAATTTTATTTTTACC
1 TTAA-ATTCATATATTAAATTTAATTCACATC
*
45334 TTAAATACATATATTAAATTTAATTCACATC
1 TTAAATTCATATATTAAATTTAATTCACATC
45365 TTAA
1 TTAA
45369 TATTAAAAAT
Statistics
Matches: 47, Mismatches: 17, Indels: 4
0.69 0.25 0.06
Matches are distributed among these distances:
30 4 0.09
31 38 0.81
32 5 0.11
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.44
Consensus pattern (31 bp):
TTAAATTCATATATTAAATTTAATTCACATC
Found at i:45793 original size:21 final size:21
Alignment explanation
Indices: 45768--45821 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
45758 TTTTTAAGTG
45768 GGTTTTGAAACCTCCTATAGT
1 GGTTTTGAAACCTCCTATAGT
*
45789 GGTTTTGAAACCTCCTCTAGT
1 GGTTTTGAAACCTCCTATAGT
45810 GGTTTTGAAACC
1 GGTTTTGAAACC
45822 GCTGTGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (21 bp):
GGTTTTGAAACCTCCTATAGT
Found at i:50594 original size:23 final size:23
Alignment explanation
Indices: 50567--50675 Score: 155
Period size: 23 Copynumber: 4.7 Consensus size: 23
50557 TGCTACATAA
* *
50567 TTGTCCCGACGGACCACATAGGT
1 TTGTCCCGAAGGACCACATAGTT
*
50590 TTGTCCCAAAGGACCACATAGTT
1 TTGTCCCGAAGGACCACATAGTT
50613 TTGTCCCGAAGGACCACATAGTT
1 TTGTCCCGAAGGACCACATAGTT
**
50636 TTGTCTTGAAGGACCACATAGTT
1 TTGTCCCGAAGGACCACATAGTT
* *
50659 TTATCCCGAATGACCAC
1 TTGTCCCGAAGGACCAC
50676 TTAGAACCCT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 76 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (23 bp):
TTGTCCCGAAGGACCACATAGTT
Found at i:55602 original size:20 final size:22
Alignment explanation
Indices: 55577--55616 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
55567 TGTTGTATAT
55577 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
55597 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
55617 TCTACTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:55960 original size:29 final size:29
Alignment explanation
Indices: 55928--55990 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
55918 GAAACTTTTT
55928 AAAACTTTGAATAAATTCAATT-AAGTCCAA
1 AAAACTTTG--TAAATTCAATTCAAGTCCAA
*
55958 AAATATTTTGTAAATTCAATTCAAGTCCAA
1 AAA-ACTTTGTAAATTCAATTCAAGTCCAA
55988 AAA
1 AAA
55991 CATTTTACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 11 0.37
30 14 0.47
31 5 0.17
ACGTcount: A:0.49, C:0.13, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAACTTTGTAAATTCAATTCAAGTCCAA
Found at i:55986 original size:30 final size:29
Alignment explanation
Indices: 55939--55996 Score: 98
Period size: 30 Copynumber: 2.0 Consensus size: 29
55929 AAACTTTGAA
*
55939 TAAATTCAATTAAGTCCAAAAATATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
55968 TAAATTCAATTCAAGTCCAAAAACATTTT
1 TAAATTCAATT-AAGTCCAAAAACATTTT
55997 ACCTTAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.45, C:0.14, G:0.05, T:0.36
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:59072 original size:20 final size:22
Alignment explanation
Indices: 59047--59086 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
59037 TGTTGTATAT
59047 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
59067 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
59087 TCTACTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:59312 original size:13 final size:13
Alignment explanation
Indices: 59287--59314 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
59277 TTAGTGCAGA
59287 TGCATGGATGCAC
1 TGCATGGATGCAC
59300 TGCATGGATGCAC
1 TGCATGGATGCAC
59313 TG
1 TG
59315 GATGCACTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.25
Consensus pattern (13 bp):
TGCATGGATGCAC
Found at i:59423 original size:29 final size:29
Alignment explanation
Indices: 59391--59453 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 29
59381 GAAACCTTTT
59391 AAAACTTTGAATAAATTCAATT-AAGTCCAA
1 AAAACTTTG--TAAATTCAATTCAAGTCCAA
* *
59421 AAATATTTTGTAAATTTAATTCAAGTCCAA
1 AAA-ACTTTGTAAATTCAATTCAAGTCCAA
59451 AAA
1 AAA
59454 CATTTTGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 10 0.34
30 14 0.48
31 5 0.17
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.33
Consensus pattern (29 bp):
AAAACTTTGTAAATTCAATTCAAGTCCAA
Found at i:59449 original size:30 final size:29
Alignment explanation
Indices: 59402--59460 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
59392 AAACTTTGAA
*
59402 TAAATTCAATTAAGTCCAAAAATATTTTG
1 TAAATTCAATTAAGTCCAAAAACATTTTG
*
59431 TAAATTTAATTCAAGTCCAAAAACATTTTG
1 TAAATTCAATT-AAGTCCAAAAACATTTTG
59461 CCTTAAATTG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (29 bp):
TAAATTCAATTAAGTCCAAAAACATTTTG
Found at i:61011 original size:23 final size:23
Alignment explanation
Indices: 60928--60998 Score: 115
Period size: 23 Copynumber: 3.1 Consensus size: 23
60918 TGCCACACAA
* *
60928 TTGTCTCGAAGGACCACATAGGT
1 TTGTCCCGAAGGACCACATAGTT
*
60951 TTGTCCCGACGGACCACATAGTT
1 TTGTCCCGAAGGACCACATAGTT
60974 TTGTCCCGAAGGACCACATAGTT
1 TTGTCCCGAAGGACCACATAGTT
60997 TT
1 TT
60999 ATCTCGAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (23 bp):
TTGTCCCGAAGGACCACATAGTT
Found at i:61017 original size:23 final size:23
Alignment explanation
Indices: 60934--61011 Score: 102
Period size: 23 Copynumber: 3.4 Consensus size: 23
60924 ACAATTGTCT
* *
60934 CGAAGGACCACATAGGTTTGTCC
1 CGAAGGACCACATAGTTTTATCC
* *
60957 CGACGGACCACATAGTTTTGTCC
1 CGAAGGACCACATAGTTTTATCC
*
60980 CGAAGGACCACATAGTTTTATCT
1 CGAAGGACCACATAGTTTTATCC
*
61003 CGAATGACC
1 CGAAGGACC
61012 TAATAGAACC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (23 bp):
CGAAGGACCACATAGTTTTATCC
Found at i:68677 original size:20 final size:19
Alignment explanation
Indices: 68654--68697 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
68644 GTTTTGAAAC
68654 CCCCTGAATGGTTTCTAAA
1 CCCCTGAATGGTTTCTAAA
***
68673 TCCCCTTTTTGGTTTCTAAA
1 -CCCCTGAATGGTTTCTAAA
68693 CCCCT
1 CCCCT
68698 TGTTTCAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.18, C:0.32, G:0.11, T:0.39
Consensus pattern (19 bp):
CCCCTGAATGGTTTCTAAA
Found at i:69347 original size:11 final size:11
Alignment explanation
Indices: 69331--69392 Score: 55
Period size: 11 Copynumber: 6.2 Consensus size: 11
69321 CGAGCCTAAC
69331 AATATATTTAA
1 AATATATTTAA
69342 AATATATTT--
1 AATATATTTAA
* * *
69351 -TTATTTTTAT
1 AATATATTTAA
69361 AA--TATTTAA
1 AATATATTTAA
69370 AATATATTT-A
1 AATATATTTAA
69380 AATATATTTAA
1 AATATATTTAA
69391 AA
1 AA
69393 ATAATAATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
8 6 0.15
9 7 0.17
10 10 0.25
11 17 0.43
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
AATATATTTAA
Found at i:69407 original size:21 final size:20
Alignment explanation
Indices: 69361--69407 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
69351 TTATTTTTAT
*
69361 AATATTTAAAATATATTTAA
1 AATATTTAAAATATATATAA
69381 ATATATTTAAAA-ATAATAATAA
1 A-ATATTTAAAATAT-AT-ATAA
69403 AATAT
1 AATAT
69408 ATGAATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 3 0.13
21 16 0.70
22 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATTTAAAATATATATAA
Found at i:69426 original size:34 final size:34
Alignment explanation
Indices: 69403--69506 Score: 145
Period size: 34 Copynumber: 3.1 Consensus size: 34
69393 ATAATAATAA
*
69403 AATATATGAATTTAAAAAATAAAAATATGAATTT
1 AATATATGAATTTAAAAAATAAAAATATAAATTT
* * * *
69437 AAGATATAAATTTAGAAAATAAAAATGTAAATTT
1 AATATATGAATTTAAAAAATAAAAATATAAATTT
**
69471 AATATATGAATTTAAAAAATAAAAATACGAATTT
1 AATATATGAATTTAAAAAATAAAAATATAAATTT
69505 AA
1 AA
69507 GACTAAAATA
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.60, C:0.01, G:0.07, T:0.33
Consensus pattern (34 bp):
AATATATGAATTTAAAAAATAAAAATATAAATTT
Found at i:69432 original size:21 final size:21
Alignment explanation
Indices: 69398--69506 Score: 76
Period size: 21 Copynumber: 4.9 Consensus size: 21
69388 TAAAAATAAT
69398 AATAAAATATATGAATTTAAAA
1 AATAAAA-ATATGAATTTAAAA
*
69420 AATAAAAATATGAATTTAAGA
1 AATAAAAATATGAATTTAAAA
* ** **
69441 TATAAATTTA-GAAAATAAAA
1 AATAAAAATATGAATTTAAAA
*
69461 ATGTAAATTTAATATATGAATTTAAAA
1 A-AT-AA---AA-ATATGAATTTAAAA
*
69488 AATAAAAATACGAATTTAA
1 AATAAAAATATGAATTTAA
69507 GACTAAAATA
Statistics
Matches: 65, Mismatches: 15, Indels: 15
0.68 0.16 0.16
Matches are distributed among these distances:
20 7 0.11
21 32 0.49
22 11 0.17
25 3 0.05
26 3 0.05
27 9 0.14
ACGTcount: A:0.61, C:0.01, G:0.06, T:0.32
Consensus pattern (21 bp):
AATAAAAATATGAATTTAAAA
Found at i:73626 original size:43 final size:43
Alignment explanation
Indices: 73565--73651 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
73555 TATAAAATAC
73565 ATAAACTACTAATAAAACCATAGTAGTATACCACCCTCATATT
1 ATAAACTACTAATAAAACCATAGTAGTATACCACCCTCATATT
73608 ATAAACTACTAATAAAACCATAGTAGTATACCACCCTCATATT
1 ATAAACTACTAATAAAACCATAGTAGTATACCACCCTCATATT
73651 A
1 A
73652 GTACTATTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (43 bp):
ATAAACTACTAATAAAACCATAGTAGTATACCACCCTCATATT
Found at i:76317 original size:20 final size:20
Alignment explanation
Indices: 76292--76344 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
76282 GATTTTCCAG
* *
76292 AATCGCATCGCGAATATGA-A
1 AATCGCAACGCGAACAT-ATA
76312 AATCGCAACGCGAACATATA
1 AATCGCAACGCGAACATATA
76332 AATCGCAACGCGA
1 AATCGCAACGCGA
76345 TTCTGACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.42, C:0.25, G:0.19, T:0.15
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:76344 original size:40 final size:40
Alignment explanation
Indices: 76292--76480 Score: 136
Period size: 40 Copynumber: 4.8 Consensus size: 40
76282 GATTTTCCAG
* * *
76292 AATCGCATCGCGAATATGAAAATCGCAACGCGAACATATA
1 AATCGCAACGCGAATCTGAAAATCGCAACGAGAACATATA
* ** * *
76332 AATCGCAACGCGATTCTGACTATCGC-ACGAGTATCCGTA-A
1 AATCGCAACGCGAATCTGAAAATCGCAACGAG-A-ACATATA
* * *
76372 AATCGCAACGCGTATCCGTAAATCGCAACGAG-A-ATAGTA
1 AATCGCAACGCGAATCTGAAAATCGCAACGAGAACATA-TA
* * * **
76411 AATCGCAACGCGTATCTGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCTGAAAATCGCAACGAGAACATATA
* * * *
76451 AATCGCAATGCG-TTCCGTAAATCGCAACGA
1 AATCGCAACGCGAATCTGAAAATCGCAACGA
76481 CAATACGTAA
Statistics
Matches: 120, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
37 2 0.02
39 52 0.43
40 57 0.47
41 9 0.08
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGAATCTGAAAATCGCAACGAGAACATATA
Found at i:76376 original size:20 final size:20
Alignment explanation
Indices: 76353--76518 Score: 171
Period size: 20 Copynumber: 8.4 Consensus size: 20
76343 GATTCTGACT
76353 ATCGC-ACGAGTATCCGTAAA
1 ATCGCAACGAGTATCCGT-AA
*
76373 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
* *
76393 ATCGCAACGAGAAT-AGTAA
1 ATCGCAACGAGTATCCGTAA
* *
76412 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGTATCCGTAA
* *
76432 ATCGCAACGAGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
* *
76452 ATCGCAATGCGT-TCCGTAA
1 ATCGCAACGAGTATCCGTAA
** *
76471 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
76492 ATCGCAAC--GTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
76510 ATCGCAACG
1 ATCGCAACG
76519 CATTTTTAAA
Statistics
Matches: 118, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
18 10 0.08
19 35 0.30
20 52 0.44
21 21 0.18
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (20 bp):
ATCGCAACGAGTATCCGTAA
Found at i:76423 original size:39 final size:40
Alignment explanation
Indices: 76353--76518 Score: 234
Period size: 39 Copynumber: 4.2 Consensus size: 40
76343 GATTCTGACT
* *
76353 ATCGC-ACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
*
76393 ATCGCAACGAGAATA-GTAAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
*
76432 ATCGCAACGAGAATACGTAAATCGCAATGCGT-TCCGTAA
1 ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
*
76471 ATCGCAACGACAATACGTAAAATCGCAA--CGTATCCGTAA
1 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCCGTAA
76510 ATCGCAACG
1 ATCGCAACG
76519 CATTTTTAAA
Statistics
Matches: 116, Mismatches: 6, Indels: 9
0.89 0.05 0.07
Matches are distributed among these distances:
38 3 0.03
39 75 0.65
40 31 0.27
41 7 0.06
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (40 bp):
ATCGCAACGAGAATACGTAAATCGCAACGCGTATCCGTAA
Found at i:77211 original size:14 final size:14
Alignment explanation
Indices: 77192--77248 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
77182 TTTCATTTCG
77192 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
77206 CGTTGCGATTTTAATTTCG
1 CGTTGCGA---T--TCTCT
77225 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
77239 CGTTGCGATT
1 CGTTGCGATT
77249 TTCATTCGCG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 21 0.62
16 1 0.03
17 1 0.03
19 11 0.32
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:77217 original size:33 final size:33
Alignment explanation
Indices: 77175--77265 Score: 166
Period size: 33 Copynumber: 2.8 Consensus size: 33
77165 CAAAATCACA
77175 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
77208 TTGCGATTTTAATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
77241 TTGCGATTTTCA-TTCGCGTTGCGAT
1 TTGCGATTTTCATTTCGCGTTGCGAT
77266 AGTCATTTCC
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
32 13 0.23
33 43 0.77
ACGTcount: A:0.11, C:0.22, G:0.22, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:79323 original size:21 final size:21
Alignment explanation
Indices: 79299--79364 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
79289 TCATTCCTCG
79299 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
79320 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
79341 AGAGT-CCCTCCCACCATTCA
1 AGAGTCCCCTCCCACCGTTCA
79361 AGAG
1 AGAG
79365 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 1
0.70 0.28 0.02
Matches are distributed among these distances:
20 13 0.41
21 19 0.59
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.20
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:79323 original size:42 final size:42
Alignment explanation
Indices: 79247--79364 Score: 114
Period size: 42 Copynumber: 2.8 Consensus size: 42
79237 GACTCGCCTG
* * * * * * *
79247 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
79289 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
79331 TCA-TCGTTGAAGAGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGAGTCCCCTCCCACCGTTCAAGAG
79365 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 22 0.34
42 42 0.66
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:80708 original size:14 final size:14
Alignment explanation
Indices: 80689--80724 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
80679 ATTGTTTAAT
80689 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
80703 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
80717 TGATTTGT
1 TGATTTGT
80725 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:80877 original size:33 final size:32
Alignment explanation
Indices: 80835--80923 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 32
80825 ATTACTATCA
* *
80835 CAATGCGAAATGAAAATCGCAACAAGAGAATCG
1 CAATGCGAAAT-AAAATCGCAACAACAAAATCG
* *
80868 CAATGCGAAATTAAAATCGCAACGACAAAATTG
1 CAATGCGAAA-TAAAATCGCAACAACAAAATCG
*
80901 CAACGCGAAACTAAAATCGCAAC
1 CAATGCGAAA-TAAAATCGCAAC
80924 GCAAAACTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
33 48 0.98
34 1 0.02
ACGTcount: A:0.48, C:0.21, G:0.17, T:0.13
Consensus pattern (32 bp):
CAATGCGAAATAAAATCGCAACAACAAAATCG
Found at i:80922 original size:19 final size:19
Alignment explanation
Indices: 80863--80934 Score: 73
Period size: 19 Copynumber: 4.1 Consensus size: 19
80853 GCAACAAGAG
* *
80863 AATCGCAATGCGAAATTAA
1 AATCGCAACGCGAAACTAA
80882 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
*
80896 AATTGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
80915 AATCGCAACGCAAAACTAA
1 AATCGCAACGCGAAACTAA
80934 A
1 A
80935 TTCGTGTGCG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
14 9 0.20
15 1 0.02
16 2 0.05
17 2 0.05
18 2 0.05
19 28 0.64
ACGTcount: A:0.50, C:0.22, G:0.14, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:80965 original size:19 final size:19
Alignment explanation
Indices: 80941--81032 Score: 87
Period size: 19 Copynumber: 5.4 Consensus size: 19
80931 TAAATTCGTG
80941 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
**
80960 TGCGA--TTC-CCTCG--T
1 TGCGATTTTCATTTCGCAT
80974 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
*
80993 TGCGA--TTC-TCTCG--T
1 TGCGATTTTCATTTCGCAT
81007 TGCGATTTTCATTTCGCAT
1 TGCGATTTTCATTTCGCAT
81026 TGCGATT
1 TGCGATT
81033 GCGATAGTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 20
0.69 0.07 0.24
Matches are distributed among these distances:
14 12 0.21
16 13 0.23
17 13 0.23
19 19 0.33
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCAT
Found at i:80978 original size:33 final size:33
Alignment explanation
Indices: 80936--81032 Score: 176
Period size: 33 Copynumber: 2.9 Consensus size: 33
80926 AAAACTAAAT
80936 TCGTGTGCGATTTTCATTTCGCATTGCGATTCCC
1 TCGT-TGCGATTTTCATTTCGCATTGCGATTCCC
*
80970 TCGTTGCGATTTTCATTTCGCATTGCGATTCTC
1 TCGTTGCGATTTTCATTTCGCATTGCGATTCCC
81003 TCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGTTGCGATTTTCATTTCGCATTGCGATT
81033 GCGATAGTAA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
33 58 0.94
34 4 0.06
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (33 bp):
TCGTTGCGATTTTCATTTCGCATTGCGATTCCC
Found at i:83324 original size:14 final size:14
Alignment explanation
Indices: 83305--83340 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
83295 TCCCGTGGTA
83305 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
* *
83319 TTTTCTTTGGGGAT
1 TTTTCTTCGGGGAC
83333 TTTTCTTC
1 TTTTCTTC
83341 TTCTTTTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.17, G:0.22, T:0.56
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:83348 original size:13 final size:13
Alignment explanation
Indices: 83332--83356 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
83322 TCTTTGGGGA
83332 TTTTTCTTCTTCT
1 TTTTTCTTCTTCT
83345 TTTTTCTTCTTC
1 TTTTTCTTCTTC
83357 AGTGTTATAT
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTCTTCTTCT
Found at i:83558 original size:24 final size:24
Alignment explanation
Indices: 83524--83577 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
83514 CTGAAAAATC
83524 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
83548 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
83572 ATCAAA
1 ATCAAA
83578 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:83591 original size:24 final size:24
Alignment explanation
Indices: 83524--83591 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
83514 CTGAAAAATC
* * *
83524 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
83548 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
83572 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
83592 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:84443 original size:20 final size:20
Alignment explanation
Indices: 84418--84627 Score: 180
Period size: 20 Copynumber: 10.6 Consensus size: 20
84408 GTCAGAATCT
*
84418 CGTTGCGATTTACATATTTG
1 CGTTGCGATTTACGTATTTG
* *
84438 CATTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTTG
*
84458 CATTGCGATTTACGTATTTG
1 CGTTGCGATTTACGTATTTG
* * *
84478 CATTGAGATTTACGTATTCG
1 CGTTGCGATTTACGTATTTG
* * *
84498 CATTGCGATTTACATATCT-
1 CGTTGCGATTTACGTATTTG
**
84517 CGTTGCGATTTACAG-ATACG
1 CGTTGCGATTTAC-GTATTTG
84537 CGTTGCGA-TTACGTATTCT-
1 CGTTGCGATTTACGTATT-TG
**
84556 CGTTGCGATTTACAG-ATACG
1 CGTTGCGATTTAC-GTATTTG
84576 CGTTGCGATTTTACGTA-TTG
1 CGTTGCGA-TTTACGTATTTG
* **
84596 TCGTTGCGATTTACGGATACG
1 -CGTTGCGATTTACGTATTTG
84617 CGTTGCGATTT
1 CGTTGCGATTT
84628 TACGGATACT
Statistics
Matches: 156, Mismatches: 23, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
18 1 0.01
19 28 0.18
20 111 0.71
21 16 0.10
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (20 bp):
CGTTGCGATTTACGTATTTG
Found at i:84464 original size:40 final size:39
Alignment explanation
Indices: 84418--84627 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 39
84408 GTCAGAATCT
* * *
84418 CGTTGCGATTTACATATTTGCATTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTTGCGTTGCGATTTACG-ATACG
* * * *
84458 CATTGCGATTTACGTATTTGCATTGAGATTTACGTATTCG
1 CGTTGCGATTTACGTATTTGCGTTGCGATTTACG-ATACG
* * *
84498 CATTGCGATTTACATATCT-CGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGTATTTGCGTTGCGATTTAC-GATACG
84537 CGTTGCGA-TTACGTATTCT-CGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGTATT-TGCGTTGCGATTTAC-GATACG
84576 CGTTGCGATTTTACGTA-TTGTCGTTGCGATTTACGGATACG
1 CGTTGCGA-TTTACGTATTTG-CGTTGCGATTTAC-GATACG
84617 CGTTGCGATTT
1 CGTTGCGATTT
84628 TACGGATACT
Statistics
Matches: 152, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
38 7 0.05
39 52 0.34
40 59 0.39
41 34 0.22
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (39 bp):
CGTTGCGATTTACGTATTTGCGTTGCGATTTACGATACG
Found at i:84602 original size:41 final size:40
Alignment explanation
Indices: 84418--84704 Score: 256
Period size: 41 Copynumber: 7.2 Consensus size: 40
84408 GTCAGAATCT
* * *
84418 CGTTGCGATTTACATATT-TGCATTGCGATTTAC-GTATTCG
1 CGTTGCGATTTACGTATTCT-CGTTGCGATTTACAG-ATACG
* * * *
84458 CATTGCGATTTACGTATT-TGCATTGAGATTTAC-GTATTCG
1 CGTTGCGATTTACGTATTCT-CGTTGCGATTTACAG-ATACG
* *
84498 CATTGCGATTTACATA-TCTCGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACAGATACG
84537 CGTTGCGA-TTACGTATTCTCGTTGCGATTTACAGATACG
1 CGTTGCGATTTACGTATTCTCGTTGCGATTTACAGATACG
* *
84576 CGTTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACG
1 CGTTGCGA-TTTACGTATTCTCGTTGCGATTTACAGATACG
* * *
84617 CGTTGCGATTTTACGGATACTCGTTGCGATAGT-CAGA-ATCG
1 CGTTGCGA-TTTACGTATTCTCGTTGCGAT-TTACAGATA-CG
* * *
84658 CGTTGCGATTTA--TATGTCGCGTTGCGA-TT-CATATTCG
1 CGTTGCGATTTACGTAT-TCTCGTTGCGATTTACAGATACG
84695 CGTTGCGATT
1 CGTTGCGATT
84705 CTGGAAAATC
Statistics
Matches: 216, Mismatches: 22, Indels: 21
0.83 0.08 0.08
Matches are distributed among these distances:
37 16 0.07
38 8 0.04
39 63 0.29
40 59 0.27
41 69 0.32
42 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.38
Consensus pattern (40 bp):
CGTTGCGATTTACGTATTCTCGTTGCGATTTACAGATACG
Found at i:84697 original size:18 final size:19
Alignment explanation
Indices: 84655--84705 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
84645 ATAGTCAGAA
*
84655 TCGCGTTGCGATTTATATG
1 TCGCGTTGCGATTCATATG
84674 TCGCGTTGCGATTCATAT-
1 TCGCGTTGCGATTCATATG
84692 TCGCGTTGCGATTC
1 TCGCGTTGCGATTC
84706 TGGAAAATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.14, C:0.22, G:0.25, T:0.39
Consensus pattern (19 bp):
TCGCGTTGCGATTCATATG
Found at i:86401 original size:22 final size:23
Alignment explanation
Indices: 86357--86403 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
86347 TATAATATTT
*
86357 TATTTTTTTTATTAATTAGATTAA
1 TATTTTTTATATT-ATTAGATTAA
*
86381 TATTTTTTATATT-TTATATTAA
1 TATTTTTTATATTATTAGATTAA
86403 T
1 T
86404 TATATATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
24 12 0.57
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (23 bp):
TATTTTTTATATTATTAGATTAA
Done.