Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 56
Found at i:2162 original size:26 final size:28
Alignment explanation
Indices: 2133--2194 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
2123 AAAAATTTTA
2133 AGCTC-GC-GAGTTTTCGAGTCGAGTCG
1 AGCTCTGCAGAGTTTTCGAGTCGAGTCG
*
2159 AGCTCCATTTCAGAGTTTTCGAGTCGAGTCG
1 AGCT-C--TGCAGAGTTTTCGAGTCGAGTCG
2190 AGCTC
1 AGCTC
2195 AGCAATACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
26 4 0.13
27 1 0.03
30 2 0.07
31 23 0.77
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCTCTGCAGAGTTTTCGAGTCGAGTCG
Found at i:11520 original size:15 final size:15
Alignment explanation
Indices: 11500--11530 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11490 TATACAGAGA
11500 TTTTTTCGCAGGGAT
1 TTTTTTCGCAGGGAT
*
11515 TTTTTTTGCAGGGAT
1 TTTTTTCGCAGGGAT
11530 T
1 T
11531 ACTGCCCATT
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:0.13, C:0.10, G:0.26, T:0.52
Consensus pattern (15 bp):
TTTTTTCGCAGGGAT
Found at i:12640 original size:35 final size:35
Alignment explanation
Indices: 12590--12665 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
12580 AATTGAATTT
* *
12590 AATTGAATTATTTTGGAATTTAGGGTTTAGAATAA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATAA
* *
12625 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATAA
12660 AATTGA
1 AATTGA
12666 GTACTGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.01, G:0.22, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATAA
Found at i:12831 original size:29 final size:30
Alignment explanation
Indices: 12767--12838 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
12757 ACGGTGGTTT
12767 AAGTTGGGGGACCATATTGCAACGGAATAA
1 AAGTTGGGGGACCATATTGCAACGGAATAA
* ** ***
12797 ATGTTGGGGGACTGTATTGCAA-GTTTTAA
1 AAGTTGGGGGACCATATTGCAACGGAATAA
12826 AAGTTGGGGGACC
1 AAGTTGGGGGACC
12839 TAAATGCAAG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.26
Consensus pattern (30 bp):
AAGTTGGGGGACCATATTGCAACGGAATAA
Found at i:14753 original size:11 final size:11
Alignment explanation
Indices: 14739--14772 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
14729 TTTAGGTATA
*
14739 ATTTAAATATT
1 ATTTAAATAAT
14750 ATTTAAATAAT
1 ATTTAAATAAT
*
14761 ATATAAATAAT
1 ATTTAAATAAT
14772 A
1 A
14773 AATAATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTTAAATAAT
Found at i:14776 original size:18 final size:18
Alignment explanation
Indices: 14753--14806 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
14743 AAATATTATT
14753 TAAATAATATATAAATAA
1 TAAATAATATATAAATAA
**
14771 TAAATAATATATATCTAA
1 TAAATAATATATAAATAA
*
14789 TAAATAAGATATATAATA
1 TAAATAATATATA-AATA
14807 TTATTCTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 28 0.93
19 2 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAATAATATATAAATAA
Found at i:18681 original size:25 final size:25
Alignment explanation
Indices: 18653--18702 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
18643 GGTCTAAAGG
18653 GATTTGGAGAAGTAATCTCTAATGA
1 GATTTGGAGAAGTAATCTCTAATGA
18678 GATTTGGAGAAGTAATCTCTAATGA
1 GATTTGGAGAAGTAATCTCTAATGA
18703 TAAGATTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (25 bp):
GATTTGGAGAAGTAATCTCTAATGA
Found at i:19647 original size:45 final size:46
Alignment explanation
Indices: 19597--19769 Score: 224
Period size: 47 Copynumber: 3.8 Consensus size: 46
19587 ATAAAATCTT
19597 TTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * *
19642 TTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTATACAAAATAC
1 TTACCATTT-AATCCCATAAGCTCGTAAGCTTATTTTA-CCAAAATAC
* * *
19690 TTACCATTTAATCTCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * * *
19736 TTGCCA-TTATTCCAAAAAGCTCGTAAGCTTATTT
1 TTACCATTTAATCCCATAAGCTCGTAAGCTTATTT
19770 GTATGCTTAC
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
45 33 0.30
46 11 0.10
47 50 0.45
48 17 0.15
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.38
Consensus pattern (46 bp):
TTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:19929 original size:40 final size:39
Alignment explanation
Indices: 19874--19995 Score: 217
Period size: 40 Copynumber: 3.1 Consensus size: 39
19864 ACCGTAATGC
19874 TACACATAAGGTCGTGCCCACCATATACATCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACA-CGAAGTGTAT
19914 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACAC-GAAGTGTAT
19954 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACA-CGAAGTGTAT
19994 TA
1 TA
19996 TAAACCTACA
Statistics
Matches: 80, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
39 1 0.01
40 78 0.98
41 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (39 bp):
TACACATAAGGTCGTGCCCACCATATACACGAAGTGTAT
Found at i:23979 original size:19 final size:20
Alignment explanation
Indices: 23957--24000 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
23947 CATCTCTCAT
23957 TTTTTTCTTCTTTA-T-TTTC
1 TTTTTTCTT-TTTATTCTTTC
23976 -TTTTTCTTTTTATTCTTTC
1 TTTTTTCTTTTTATTCTTTC
23995 TTTTTT
1 TTTTTT
24001 TCCTATTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.18
18 9 0.41
19 4 0.18
20 5 0.23
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTTCTTTTTATTCTTTC
Found at i:23986 original size:12 final size:13
Alignment explanation
Indices: 23958--23999 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
23948 ATCTCTCATT
23958 TTTTTCTTCTTT-
1 TTTTTCTTCTTTC
*
23970 ATTTTCTT-TTTC
1 TTTTTCTTCTTTC
*
23982 TTTTTATTCTTTC
1 TTTTTCTTCTTTC
23995 TTTTT
1 TTTTT
24000 TTCCTATTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
11 3 0.12
12 13 0.52
13 9 0.36
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (13 bp):
TTTTTCTTCTTTC
Found at i:24015 original size:27 final size:27
Alignment explanation
Indices: 23956--24013 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 27
23946 TCATCTCTCA
*
23956 TTTTT-TTCTTCTTTATTTTCTTTTTC
1 TTTTTATTCTTCTTTATTTTCTATTTC
23982 TTTTTATTCTTTCTTT-TTTTCCTATTTC
1 TTTTTATTC-TTCTTTATTTT-CTATTTC
24010 TTTT
1 TTTT
24014 ATGTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 5 0.18
27 7 0.25
28 16 0.57
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTTATTCTTCTTTATTTTCTATTTC
Found at i:26324 original size:22 final size:23
Alignment explanation
Indices: 26299--26341 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
26289 GAATAGTTAT
*
26299 GAACAGTA-CCGTGAACAGTGAG
1 GAACAATACCCGTGAACAGTGAG
26321 GAACAATACCCGTGAACAGTG
1 GAACAATACCCGTGAACAGTG
26342 TACCGATGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.37, C:0.21, G:0.28, T:0.14
Consensus pattern (23 bp):
GAACAATACCCGTGAACAGTGAG
Found at i:26434 original size:21 final size:21
Alignment explanation
Indices: 26410--26458 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
26400 TTGTGTATCG
26410 ATGCACTGCTATAGTGCATCA
1 ATGCACTGCTATAGTGCATCA
26431 ATGCACTGCTATAGTGCATCA
1 ATGCACTGCTATAGTGCATCA
26452 ATGCACT
1 ATGCACT
26459 ACAGTGTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCACTGCTATAGTGCATCA
Found at i:26921 original size:47 final size:45
Alignment explanation
Indices: 26853--27024 Score: 211
Period size: 47 Copynumber: 3.8 Consensus size: 45
26843 ATAAAATCTT
* *
26853 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAAAATAC
*
26898 TTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTATACAAAATAC
1 TTACCATTT--ATTCCATAAGCTCATAAGCTTATTTTA-CCAAAATAC
* * * *
26946 TTACCATTTAATCTCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTTATTC-CATAAGCTCATAAGCTTATTTTACCAAAATAC
** *
26992 TTGTCA-TTATTCCAAAAGCTCATAAGCTTATTT
1 TTACCATTTATTCCATAAGCTCATAAGCTTATTT
27025 GTATGCTTAC
Statistics
Matches: 110, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
44 19 0.17
45 14 0.13
46 13 0.12
47 47 0.43
48 17 0.15
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCAAAATAC
Found at i:27184 original size:40 final size:40
Alignment explanation
Indices: 27129--27250 Score: 201
Period size: 40 Copynumber: 3.0 Consensus size: 40
27119 ACCGTAATGC
*
27129 TACACATAAGGTCGTGCCCACCATATACATTGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
*
27169 TACACATAAGATCGTGCCCACCATATACACCT-AAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACA-CTGAAGTGTAT
*
27209 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
27249 TA
1 TA
27251 TAAACCTACA
Statistics
Matches: 76, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
39 1 0.01
40 74 0.97
41 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACTGAAGTGTAT
Found at i:32122 original size:21 final size:21
Alignment explanation
Indices: 32098--32141 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
32088 GACTGCACTA
*
32098 TTGAAATAACTGGTGATGAGG
1 TTGAAATAACTAGTGATGAGG
*
32119 TTGAAGTAACTAGTGATGAGG
1 TTGAAATAACTAGTGATGAGG
32140 TT
1 TT
32142 CTTATATCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.32
Consensus pattern (21 bp):
TTGAAATAACTAGTGATGAGG
Found at i:32697 original size:25 final size:24
Alignment explanation
Indices: 32626--32699 Score: 69
Period size: 27 Copynumber: 2.9 Consensus size: 24
32616 TTAAATGTTA
*
32626 TAATAAATATTAATTATGATAATTAAT
1 TAATAAATA-TACTTAT-AT-ATTAAT
32653 TAATAAATATACTTAATATATTAAT
1 TAATAAATATACTT-ATATATTAAT
*
32678 TATGATAATTATACTT-TATATT
1 TA--ATAAATATACTTATATATT
32700 TAATACTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
25 14 0.33
26 6 0.14
27 22 0.52
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (24 bp):
TAATAAATATACTTATATATTAAT
Found at i:32726 original size:22 final size:22
Alignment explanation
Indices: 32702--32812 Score: 83
Period size: 22 Copynumber: 5.1 Consensus size: 22
32692 TTTATATTTA
32702 ATACT-TATA-TTTATATACTTT
1 ATACTATATAGTTTA-ATACTTT
*
32723 AATACTTTATA-TTTAATAC-TT
1 -ATACTATATAGTTTAATACTTT
*
32744 ATATTATATAGTTTAATACTTT
1 ATACTATATAGTTTAATACTTT
* *
32766 ATATTATATACTTTATATA-TATAT
1 ATACTATATAGTTTA-ATACT-T-T
*
32790 ATACT-TATAGTTT-ATAGTTT
1 ATACTATATAGTTTAATACTTT
32810 ATA
1 ATA
32813 GTTTATATAT
Statistics
Matches: 77, Mismatches: 5, Indels: 16
0.79 0.05 0.16
Matches are distributed among these distances:
20 12 0.16
21 14 0.18
22 27 0.35
23 19 0.25
24 5 0.06
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (22 bp):
ATACTATATAGTTTAATACTTT
Found at i:32729 original size:36 final size:36
Alignment explanation
Indices: 32688--32795 Score: 157
Period size: 36 Copynumber: 2.9 Consensus size: 36
32678 TATGATAATT
32688 ATACTTTATATTTAATACTTATATTTATATACTTTA
1 ATACTTTATATTTAATACTTATATTTATATACTTTA
*
32724 ATACTTTATATTTAATACTTATA-TTATATAGTTTA
1 ATACTTTATATTTAATACTTATATTTATATACTTTA
32759 ATACTTTATA-TTATATACTTTATATATATATATACTT
1 ATACTTTATATTTA-ATAC-TTATAT-T-TATATACTT
32796 ATAGTTTATA
Statistics
Matches: 65, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
34 3 0.05
35 25 0.38
36 28 0.43
38 1 0.02
39 8 0.12
ACGTcount: A:0.37, C:0.07, G:0.01, T:0.55
Consensus pattern (36 bp):
ATACTTTATATTTAATACTTATATTTATATACTTTA
Found at i:32782 original size:7 final size:7
Alignment explanation
Indices: 32686--32819 Score: 75
Period size: 7 Copynumber: 18.7 Consensus size: 7
32676 ATTATGATAA
32686 TTATACT
1 TTATACT
32693 TTATA-T
1 TTATACT
32699 TTAATAC-
1 TT-ATACT
*
32706 TTATATT
1 TTATACT
32713 TATATACT
1 T-TATACT
32721 TTAATACT
1 TT-ATACT
32729 TTATA-T
1 TTATACT
32735 TTAATAC-
1 TT-ATACT
32742 TTATA-T
1 TTATACT
*
32748 TATATAGT
1 T-TATACT
32756 TTAATACT
1 TT-ATACT
32764 TTATA-T
1 TTATACT
32770 TATATACT
1 T-TATACT
*
32778 TTATATAT
1 TTATA-CT
32786 ATATATAC-
1 -T-TATACT
*
32794 TTATAGT
1 TTATACT
*
32801 TTATAGT
1 TTATACT
*
32808 TTATAGT
1 TTATACT
32815 TTATA
1 TTATA
32820 TATGTATATG
Statistics
Matches: 104, Mismatches: 6, Indels: 34
0.72 0.04 0.24
Matches are distributed among these distances:
6 19 0.18
7 56 0.54
8 24 0.23
9 1 0.01
10 4 0.04
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (7 bp):
TTATACT
Found at i:33854 original size:19 final size:21
Alignment explanation
Indices: 33825--33863 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
33815 AAAAATGGAT
33825 TTTGCAATTTTTA-TTTAGAG
1 TTTGCAATTTTTAGTTTAGAG
33845 TTTG-AATTTTTAGTTTAGA
1 TTTGCAATTTTTAGTTTAGA
33864 AGCAAAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (21 bp):
TTTGCAATTTTTAGTTTAGAG
Found at i:38651 original size:80 final size:80
Alignment explanation
Indices: 38513--38811 Score: 490
Period size: 80 Copynumber: 3.7 Consensus size: 80
38503 CGGCAAAAAG
* * * *
38513 GGGAGCCAACCTAAGGATATACCTTGGGTCTACCCGAGGACATCCTTAAATCCGTAGGGTTACCT
1 GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCT
* **
38578 TAAACACACAGTTAA
66 TAAGCACACAGCAAA
* *
38593 GGAAACCAACCTAAGGATATACCTTGGTTCTACCCAATGACATCCTTAGATCCGTAGGGTTACCT
1 GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCT
38658 TAAGCACACAGCAAA
66 TAAGCACACAGCAAA
* *
38673 GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGATATCCTTAGATTCGTAGGGTTACCT
1 GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCT
38738 TAAGCACACAGCAAA
66 TAAGCACACAGCAAA
*
38753 GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATCTGTAGGG
1 GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATCCGTAGGG
38812 ACTTATAACC
Statistics
Matches: 203, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 203 1.00
ACGTcount: A:0.32, C:0.25, G:0.20, T:0.23
Consensus pattern (80 bp):
GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCT
TAAGCACACAGCAAA
Found at i:43569 original size:20 final size:20
Alignment explanation
Indices: 43544--43583 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
43534 TGCAAAATAG
43544 GTATCGATACCT-CTACAGTA
1 GTATCGATA-CTGCTACAGTA
43564 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
43584 AAATCAAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (20 bp):
GTATCGATACTGCTACAGTA
Found at i:47498 original size:20 final size:20
Alignment explanation
Indices: 47447--47500 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
47437 TTTGAGTTAA
*
47447 CGAA-CCCTATTGTACAACT
1 CGAAGCCCTATTTTACAACT
*
47466 CAAAGCCCTATTTTACAACT
1 CGAAGCCCTATTTTACAACT
47486 CGAAGCCCTATTTTA
1 CGAAGCCCTATTTTA
47501 TAATTCGGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 3 0.10
20 28 0.90
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.30
Consensus pattern (20 bp):
CGAAGCCCTATTTTACAACT
Found at i:47973 original size:24 final size:24
Alignment explanation
Indices: 47940--47990 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
47930 TTTTTTGCTA
* *
47940 GGAGACGAACTTATACGATTTTAG
1 GGAGACGAACTTATACAAGTTTAG
*
47964 GGAGATGAACTTATACAAGTTTAG
1 GGAGACGAACTTATACAAGTTTAG
47988 GGA
1 GGA
47991 TCGAAAATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.27, T:0.27
Consensus pattern (24 bp):
GGAGACGAACTTATACAAGTTTAG
Found at i:48407 original size:21 final size:21
Alignment explanation
Indices: 48381--48521 Score: 180
Period size: 21 Copynumber: 6.8 Consensus size: 21
48371 GTTTTCAGAT
* *
48381 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
48402 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
*
48423 TAGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
48444 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
48465 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* *
48485 TCGCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
48506 TCGCAATGCGAACTTG
1 TCGCAATGCGAACTTG
48522 CGAACTTGGA
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
20 16 0.15
21 88 0.85
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:48616 original size:19 final size:20
Alignment explanation
Indices: 48578--48616 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
48568 GTCGAAGTTC
*
48578 TCGTTGCGATTTATTCCAAAT
1 TCGTTGCGA-TTAGTCCAAAT
48599 TCGTTGCGA-TAGTCCAAA
1 TCGTTGCGATTAGTCCAAA
48617 ATCGCAACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
21 9 0.53
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.36
Consensus pattern (20 bp):
TCGTTGCGATTAGTCCAAAT
Found at i:48742 original size:5 final size:6
Alignment explanation
Indices: 48705--48741 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
48695 GACACGTATT
48705 ACCACG ACCACG ACCACG ACCACG ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
48742 CCAGACGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 10 0.32
6 21 0.68
ACGTcount: A:0.30, C:0.54, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:49439 original size:21 final size:20
Alignment explanation
Indices: 49412--49631 Score: 205
Period size: 21 Copynumber: 10.6 Consensus size: 20
49402 GATTTACATA
*
49412 TTCGCATTGCGATAGTCGAC
1 TTCGCATTGCGATAGTCGAG
* *
49432 TATCGCATTGCGAT-TTAC-ATA
1 T-TCGCATTGCGATAGT-CGA-G
49453 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCG-AG
49474 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCG-AG
* *
49495 TTCGCGTTGCGATAGTCCAAG
1 TTCGCATTGCGATAGT-CGAG
*
49516 TTCGCATTGCGATAGTCGAC
1 TTCGCATTGCGATAGTCGAG
* *
49536 TATCGCATTGCGAT-TTAC-ATA
1 T-TCGCATTGCGATAGT-CGA-G
*
49557 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGT-CGAG
49578 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCG-AG
*
49599 TTCGCATTGCGATAGTCAAAG
1 TTCGCATTGCGATAGTC-GAG
*
49620 TTCGCGTTGCGA
1 TTCGCATTGCGA
49632 ATCTGGAAAC
Statistics
Matches: 169, Mismatches: 17, Indels: 27
0.79 0.08 0.13
Matches are distributed among these distances:
20 34 0.20
21 132 0.78
22 3 0.02
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (20 bp):
TTCGCATTGCGATAGTCGAG
Found at i:49445 original size:41 final size:41
Alignment explanation
Indices: 49386--49486 Score: 159
Period size: 41 Copynumber: 2.5 Consensus size: 41
49376 AACGCGAACT
* *
49386 TCGATTATCACATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
49427 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
*
49468 TCGAAGT-TCGCATTGCGAT
1 TCG-ACTATCGCATTGCGAT
49487 AGTCGAAGTT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 54 0.96
42 2 0.04
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.35
Consensus pattern (41 bp):
TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
Found at i:49517 original size:42 final size:42
Alignment explanation
Indices: 49412--49631 Score: 238
Period size: 42 Copynumber: 5.3 Consensus size: 42
49402 GATTTACATA
* * *
49412 TTCGCATTGCGATAGT-CGACTATCGCATTGCGAT-TTAC-ATA-
1 TTCGCATTGCGATAGTCCAAGT-TCGCATTGCGATAGT-CGA-AG
*
49453 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
* *
49495 TTCGCGTTGCGATAGTCCAAGTTCGCATTGCGATAGTCG-AC
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
* * *
49536 TATCGCATTGCGAT-TTACATA-TTCGCATTGCGATAGTCCAAG
1 T-TCGCATTGCGATAGTCCA-AGTTCGCATTGCGATAGTCGAAG
* *
49578 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCAAAG
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
*
49620 TTCGCGTTGCGA
1 TTCGCATTGCGA
49632 ATCTGGAAAC
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
41 65 0.42
42 88 0.58
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (42 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAAG
Found at i:49542 original size:104 final size:104
Alignment explanation
Indices: 49412--49631 Score: 404
Period size: 104 Copynumber: 2.1 Consensus size: 104
49402 GATTTACATA
*
49412 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGTTC
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
* *
49477 GCATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCCAAG
66 GCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCAAAG
49516 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
1 TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
49581 GCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCAAAG
66 GCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCAAAG
*
49620 TTCGCGTTGCGA
1 TTCGCATTGCGA
49632 ATCTGGAAAC
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 112 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (104 bp):
TTCGCATTGCGATAGTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTC
GCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCAAAG
Found at i:49612 original size:83 final size:86
Alignment explanation
Indices: 49412--49615 Score: 264
Period size: 83 Copynumber: 2.4 Consensus size: 86
49402 GATTTACATA
* *
49412 TTCGCATTGCGATAGTCG-ACTATCGCATTGCGAT--T-TACATATTCGCATTGCGATAGTCGAA
1 TTCGCATTGCGATAGTCGAAGT-TCGCATTGCGATAGTCGACATATTCGCATTGCGATAGTCGAA
*
49473 GTTCGCATTGCGATAGTCGAAG
65 GTTCGCATTGCGATAGTCCAAG
* * *
49495 TTCGCGTTGCGATAGTCCAAGTTCGCATTGCGATAGTCGAC-TA-TCGCATTGCGAT-TTAC-AT
1 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGACATATTCGCATTGCGATAGT-CGA-
49556 A-TTCGCATTGCGATAGTCCAAG
64 AGTTCGCATTGCGATAGTCCAAG
49578 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTC
1 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTC
49616 AAAGTTCGCG
Statistics
Matches: 107, Mismatches: 8, Indels: 12
0.84 0.06 0.09
Matches are distributed among these distances:
83 86 0.80
84 16 0.15
85 3 0.03
86 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.31
Consensus pattern (86 bp):
TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCGACATATTCGCATTGCGATAGTCGAAG
TTCGCATTGCGATAGTCCAAG
Found at i:50733 original size:20 final size:20
Alignment explanation
Indices: 50708--50774 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
50698 GTTTCCAAAT
*
50708 TCGCAACGCAAATATGTAAA
1 TCGCAACGCGAATATGTAAA
*
50728 TCGCAACGCGAATCTGTAAA
1 TCGCAACGCGAATATGTAAA
*
50748 TCGCAACGCGAATATGTAAT
1 TCGCAACGCGAATATGTAAA
50768 TCGCAAC
1 TCGCAAC
50775 ACATAAATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATATGTAAA
Found at i:50788 original size:20 final size:20
Alignment explanation
Indices: 50765--50813 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
50755 GCGAATATGT
50765 AATTCGCAACACATAAATCA
1 AATTCGCAACACATAAATCA
* *
50785 AATTCGTAACACATAAGTCA
1 AATTCGCAACACATAAATCA
50805 AATTCGCAA
1 AATTCGCAA
50814 AGCGCGTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (20 bp):
AATTCGCAACACATAAATCA
Found at i:50831 original size:19 final size:19
Alignment explanation
Indices: 50807--50851 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
50797 ATAAGTCAAA
50807 TTCGCAAAGCGCGTTTATC
1 TTCGCAAAGCGCGTTTATC
50826 TTCGCAAAGCGCGTTTATC
1 TTCGCAAAGCGCGTTTATC
50845 TTCGCAA
1 TTCGCAA
50852 TGCGAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (19 bp):
TTCGCAAAGCGCGTTTATC
Found at i:51012 original size:22 final size:22
Alignment explanation
Indices: 50987--51034 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
50977 CTACGGCAAC
*
50987 ATCCGTCCCCATCTCC-GACGAA
1 ATCCATCCCCATCTCCAG-CGAA
51009 ATCCATCCCCATCTCCAGCGAA
1 ATCCATCCCCATCTCCAGCGAA
51031 ATCC
1 ATCC
51035 TTCTATCTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.25, C:0.46, G:0.10, T:0.19
Consensus pattern (22 bp):
ATCCATCCCCATCTCCAGCGAA
Found at i:51414 original size:19 final size:19
Alignment explanation
Indices: 51392--51494 Score: 154
Period size: 19 Copynumber: 5.4 Consensus size: 19
51382 AAATCGCAAC
51392 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCA-TTTCGCGTT
*
51411 GCGATTTTCATTCCGCGTT
1 GCGATTTTCATTTCGCGTT
*
51430 GCGATTTTCATTTCACGTT
1 GCGATTTTCATTTCGCGTT
*
51449 GCGATTTTCATTCCGCGTT
1 GCGATTTTCATTTCGCGTT
*
51468 GCGATTTTCATTTCGCATT
1 GCGATTTTCATTTCGCGTT
51487 GCGATTTT
1 GCGATTTT
51495 AAGTTTCAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
19 75 0.99
20 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.46
Consensus pattern (19 bp):
GCGATTTTCATTTCGCGTT
Found at i:51449 original size:38 final size:38
Alignment explanation
Indices: 51392--51494 Score: 172
Period size: 38 Copynumber: 2.7 Consensus size: 38
51382 AAATCGCAAC
51392 GCGATTTT-AGTTTCGCGTTGCGATTTTCATTCCGCGTT
1 GCGATTTTCA-TTTCGCGTTGCGATTTTCATTCCGCGTT
*
51430 GCGATTTTCATTTCACGTTGCGATTTTCATTCCGCGTT
1 GCGATTTTCATTTCGCGTTGCGATTTTCATTCCGCGTT
*
51468 GCGATTTTCATTTCGCATTGCGATTTT
1 GCGATTTTCATTTCGCGTTGCGATTTT
51495 AAGTTTCAGA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
38 60 0.98
39 1 0.02
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.46
Consensus pattern (38 bp):
GCGATTTTCATTTCGCGTTGCGATTTTCATTCCGCGTT
Found at i:53147 original size:21 final size:21
Alignment explanation
Indices: 53123--53172 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
53113 GTTAGGGGAG
* *
53123 TTACGTGATGAGGTCAATGCT
1 TTACGTGAGGAGGTCAATACT
**
53144 TTACGTGAGGAGGTCGGTACT
1 TTACGTGAGGAGGTCAATACT
53165 TTACGTGA
1 TTACGTGA
53173 AGACAATGGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.14, G:0.32, T:0.32
Consensus pattern (21 bp):
TTACGTGAGGAGGTCAATACT
Found at i:53588 original size:21 final size:21
Alignment explanation
Indices: 53559--53677 Score: 148
Period size: 21 Copynumber: 5.7 Consensus size: 21
53549 ATTCACCTAT
* * *
53559 CATCATTCAAGAGGCCTCTCT
1 CATCGTTCAAGAGGCCCCTCC
* **
53580 TATCGTTCAAGAGGCCCCTAT
1 CATCGTTCAAGAGGCCCCTCC
*
53601 CATCCTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
53622 CATCGTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
*
53643 CACCGTTCAAGAGGCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
* *
53664 TACCGTTCAAGAGG
1 CATCGTTCAAGAGG
53678 TCCTTTCCAC
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 87 1.00
ACGTcount: A:0.22, C:0.38, G:0.18, T:0.22
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:53601 original size:42 final size:42
Alignment explanation
Indices: 53554--53677 Score: 167
Period size: 42 Copynumber: 3.0 Consensus size: 42
53544 GCTCGATTCA
* *
53554 CCTATCATCATTCAAGAGGCCTCTCTTATCGTTCAAGAGGCC
1 CCTATCATCATTCAAGAGGCCCCTCCTATCGTTCAAGAGGCC
* *
53596 CCTATCATCCTTCAAGAGGCCCCTCCCATCGTTCAAGAGGCC
1 CCTATCATCATTCAAGAGGCCCCTCCTATCGTTCAAGAGGCC
** * * *
53638 CCTCCCACCGTTCAAGAGGCCCCTCCTACCGTTCAAGAGG
1 CCTATCATCATTCAAGAGGCCCCTCCTATCGTTCAAGAGG
53678 TCCTTTCCAC
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 72 1.00
ACGTcount: A:0.22, C:0.38, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCATTCAAGAGGCCCCTCCTATCGTTCAAGAGGCC
Found at i:53689 original size:21 final size:21
Alignment explanation
Indices: 53564--53697 Score: 144
Period size: 21 Copynumber: 6.4 Consensus size: 21
53554 CCTATCATCA
* ** *
53564 TTCAAGAGGCCTCTCTTATCG
1 TTCAAGAGGCCCCTCCCACCG
**
53585 TTCAAGAGGCCCCTATCATCC-
1 TTCAAGAGGCCCCTCCCA-CCG
*
53606 TTCAAGAGGCCCCTCCCATCG
1 TTCAAGAGGCCCCTCCCACCG
53627 TTCAAGAGGCCCCTCCCACCG
1 TTCAAGAGGCCCCTCCCACCG
*
53648 TTCAAGAGGCCCCTCCTACCG
1 TTCAAGAGGCCCCTCCCACCG
* * *
53669 TTCAAGAGGTCCTTTCCACCG
1 TTCAAGAGGCCCCTCCCACCG
*
53690 TTCGAGAG
1 TTCAAGAG
53698 CCTGATTCAT
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
20 1 0.01
21 95 0.98
22 1 0.01
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.23
Consensus pattern (21 bp):
TTCAAGAGGCCCCTCCCACCG
Found at i:55002 original size:18 final size:18
Alignment explanation
Indices: 54976--55022 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
54966 GTCATAACTC
54976 GACCCGACCCGACCCGTT
1 GACCCGACCCGACCCGTT
* *
54994 GACCGGACCTGACCCGTT
1 GACCCGACCCGACCCGTT
55012 GACCCGACCCG
1 GACCCGACCCG
55023 TTGACTGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.47, G:0.26, T:0.11
Consensus pattern (18 bp):
GACCCGACCCGACCCGTT
Found at i:57454 original size:24 final size:24
Alignment explanation
Indices: 57328--57442 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
57318 TCGATTTGAT
*
57328 TTCTGATCTGATACTTGACATGGA
1 TTCTGATATGATACTTGACATGGA
*
57352 TTCTGATATGATA-TCTAACATGGA
1 TTCTGATATGATACT-TGACATGGA
* *
57376 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATATGATACTTGACATGGA
*
57400 TTCTGATATGATACTTGACCTGGA
1 TTCTGATATGATACTTGACATGGA
*
57424 TTTTGATATGATACTTGAC
1 TTCTGATATGATACTTGAC
57443 GTGAATTATG
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 1 0.01
24 79 0.98
25 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (24 bp):
TTCTGATATGATACTTGACATGGA
Found at i:57459 original size:24 final size:24
Alignment explanation
Indices: 57331--57459 Score: 125
Period size: 24 Copynumber: 5.4 Consensus size: 24
57321 ATTTGATTTC
* * *
57331 TGATCTGATACTTGACATGGATTC
1 TGATATGATACTTGACCTGGATTA
* * *
57355 TGATATGATA-TCTAACATGGATTC
1 TGATATGATACT-TGACCTGGATTA
* * *
57379 TGATCTGATACTTGACTTGGATTC
1 TGATATGATACTTGACCTGGATTA
*
57403 TGATATGATACTTGACCTGGATTT
1 TGATATGATACTTGACCTGGATTA
* *
57427 TGATATGATACTTGACGTGAATTA
1 TGATATGATACTTGACCTGGATTA
*
57451 TGATTTGAT
1 TGATATGAT
57460 TTTTGATATA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 1 0.01
24 89 0.98
25 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.40
Consensus pattern (24 bp):
TGATATGATACTTGACCTGGATTA
Found at i:59575 original size:13 final size:13
Alignment explanation
Indices: 59557--59586 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
59547 GTCATAACCC
59557 GACCCGACCCGTT
1 GACCCGACCCGTT
*
59570 GACCCGTCCCGTT
1 GACCCGACCCGTT
59583 GACC
1 GACC
59587 AAAACTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.47, G:0.23, T:0.17
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:62136 original size:24 final size:24
Alignment explanation
Indices: 62005--62119 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
61995 TCGATTTGAT
*
62005 TTCTGATCTGATACTTGACATGGA
1 TTCTGATATGATACTTGACATGGA
*
62029 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATATGATACT-TGACATGGA
*
62053 TTCTGATATGATACTTGACCTGGA
1 TTCTGATATGATACTTGACATGGA
* *
62077 TTTTGATATGATACTTGACCTGGA
1 TTCTGATATGATACTTGACATGGA
*
62101 TTTTGATATGATACTTGAC
1 TTCTGATATGATACTTGAC
62120 GTGAATTATG
Statistics
Matches: 86, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
23 1 0.01
24 84 0.98
25 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (24 bp):
TTCTGATATGATACTTGACATGGA
Found at i:63767 original size:17 final size:17
Alignment explanation
Indices: 63745--63779 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
63735 GAAATTTATG
63745 TATTTGTAAAAGTTGAT
1 TATTTGTAAAAGTTGAT
63762 TATTTGTAAAAGTTGAT
1 TATTTGTAAAAGTTGAT
63779 T
1 T
63780 TGTTTAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (17 bp):
TATTTGTAAAAGTTGAT
Found at i:63782 original size:14 final size:15
Alignment explanation
Indices: 63743--63782 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
63733 GTGAAATTTA
63743 TGTATTTGTAAAAGT
1 TGTATTTGTAAAAGT
63758 TGATTATTTGTAAAAGT
1 TG--TATTTGTAAAAGT
63775 TG-ATTTGT
1 TGTATTTGT
63783 TTAATTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.26
15 2 0.09
17 15 0.65
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (15 bp):
TGTATTTGTAAAAGT
Found at i:63851 original size:65 final size:64
Alignment explanation
Indices: 63763--63912 Score: 228
Period size: 65 Copynumber: 2.3 Consensus size: 64
63753 AAAGTTGATT
*
63763 ATTTGTAAAAGTTGATTTGTTTAATTGTTGAGGAAATAAGAATCATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATCATTTTTTGCTTGTTTAATTG
* * *** *
63827 ATTTGTAAAAGTTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAG-TTGATTTGTTTAATTGATGAGGAAATAAGAATCATTTTTTGCTTGTTTAATTG
63892 ATTTGTAAAAGTTGATTTGTT
1 ATTTGTAAAAGTTGATTTGTT
63913 GTATTAAATT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
64 21 0.27
65 57 0.73
ACGTcount: A:0.28, C:0.03, G:0.17, T:0.52
Consensus pattern (64 bp):
ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATCATTTTTTGCTTGTTTAATTG
Found at i:64151 original size:19 final size:20
Alignment explanation
Indices: 64124--64176 Score: 99
Period size: 19 Copynumber: 2.7 Consensus size: 20
64114 TCGCAACGCG
64124 AATTTGACTTTCGCGTTGCA
1 AATTTGACTTTCGCGTTGCA
64144 AA-TTGACTTTCGCGTTGCA
1 AATTTGACTTTCGCGTTGCA
64163 AATTTGACTTTCGC
1 AATTTGACTTTCGC
64177 AACAATCGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 19 0.59
20 13 0.41
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGCA
Found at i:64863 original size:20 final size:20
Alignment explanation
Indices: 64838--64905 Score: 86
Period size: 20 Copynumber: 3.4 Consensus size: 20
64828 TAAAATTCGT
64838 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTCGAAAATCGA
64858 GTTGCGAATTC-AGAAATCGA
1 GTTGCGAATTCGA-AAATCGA
* *
64878 GTTGCGAATTTGGAAA-CTGA
1 GTTGCGAATTCGAAAATC-GA
64898 GTTGCGAA
1 GTTGCGAA
64906 ATTGGAGTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.05
20 41 0.95
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.26
Consensus pattern (20 bp):
GTTGCGAATTCGAAAATCGA
Found at i:65790 original size:15 final size:15
Alignment explanation
Indices: 65752--65781 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
65742 CCTTTGCAGC
65752 ACTATTGGAAATTCA
1 ACTATTGGAAATTCA
65767 ACTATTGGAAATTCA
1 ACTATTGGAAATTCA
65782 GCCTTTGGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.33
Consensus pattern (15 bp):
ACTATTGGAAATTCA
Found at i:66949 original size:17 final size:18
Alignment explanation
Indices: 66923--66968 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 18
66913 ATGCAAAATA
* *
66923 GGTACTAATACCTAAA-G
1 GGTACCAATACCCAAAGG
66940 GGTACCAATACCCAAAGG
1 GGTACCAATACCCAAAGG
66958 GGTACCAATAC
1 GGTACCAATAC
66969 TACTTTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 14 0.54
18 12 0.46
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (18 bp):
GGTACCAATACCCAAAGG
Found at i:72516 original size:78 final size:74
Alignment explanation
Indices: 72411--72571 Score: 171
Period size: 74 Copynumber: 2.1 Consensus size: 74
72401 TTAAAAATAA
* * * * * * * *
72411 GTGTCTAACATTTTTTTCGTTACACTTTGAGGTGCCTATATTTTCTTTTTGATTTTTTAATGCTT
1 GTGTCTAAAATTTTTTTCATTACACTTTGAGATACC-A-ATTAT-TATAT-ATTTTTTAAGGCTT
72476 AATACACTTTTAG
62 AATACACTTTTAG
* *
72489 GTGTCTAAAA-TTTTTTCTATTATACTTTTAGATACCAATTATTATATATTTTTTAAGGCTTAAT
1 GTGTCTAAAATTTTTTTC-ATTACACTTTGAGATACCAATTATTATATATTTTTTAAGGCTTAAT
72553 ACACTTTTAG
65 ACACTTTTAG
*
72563 GTGCCTAAA
1 GTGTCTAAA
72572 TTATACCTCA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
74 34 0.48
75 3 0.04
76 4 0.06
77 8 0.11
78 22 0.31
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.50
Consensus pattern (74 bp):
GTGTCTAAAATTTTTTTCATTACACTTTGAGATACCAATTATTATATATTTTTTAAGGCTTAATA
CACTTTTAG
Found at i:73798 original size:23 final size:23
Alignment explanation
Indices: 73772--73841 Score: 140
Period size: 23 Copynumber: 3.0 Consensus size: 23
73762 CTCGTATAAA
73772 TGCACCGAAGTGCCCGTAGAATT
1 TGCACCGAAGTGCCCGTAGAATT
73795 TGCACCGAAGTGCCCGTAGAATT
1 TGCACCGAAGTGCCCGTAGAATT
73818 TGCACCGAAGTGCCCGTAGAATT
1 TGCACCGAAGTGCCCGTAGAATT
73841 T
1 T
73842 TGTCCATAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (23 bp):
TGCACCGAAGTGCCCGTAGAATT
Found at i:74174 original size:29 final size:29
Alignment explanation
Indices: 74132--74203 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
74122 TTTTCTGCAT
*
74132 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACGA
* *
74161 ATTCATGTCATGTAATACCTTTAATACGA
1 ATTCATGTCATGTAATACATATAATACGA
74190 ATTCATGTCATGTA
1 ATTCATGTCATGTA
74204 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACGA
Found at i:74611 original size:68 final size:68
Alignment explanation
Indices: 74492--74660 Score: 211
Period size: 68 Copynumber: 2.5 Consensus size: 68
74482 TCATGGGGAA
* * *
74492 CGGTTCCCCCCCTTAGGGGTATCGATTCCCCTAAGCAGTCTGGAATTTCATATACGATGAGGGGG
1 CGGTTCCCCCCCTTAGGGGTACCGATTCCCCTAAGCAGTCTGGAATATCATATACGATGAAGGGG
74557 TAT
66 TAT
* * * *
74560 CGGTTCCCCCCCTTAGGGGTACCGATTCCCCTCTAGCATTCTGGAA-ATCATATTCGTTGAAGGG
1 CGGTTCCCCCCCTTAGGGGTACCGATTCCCCT-AAGCAGTCTGGAATATCATATACGATGAAGGG
74624 GTAT
65 GTAT
*
74628 CGGTT---CCCCTTGAATGGGTACCGATTCCCCTAA
1 CGGTTCCCCCCCTT--AGGGGTACCGATTCCCCTAA
74661 CCCAGAATTC
Statistics
Matches: 89, Mismatches: 9, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
65 6 0.07
66 1 0.01
67 17 0.19
68 54 0.61
69 11 0.12
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (68 bp):
CGGTTCCCCCCCTTAGGGGTACCGATTCCCCTAAGCAGTCTGGAATATCATATACGATGAAGGGG
TAT
Found at i:74646 original size:21 final size:21
Alignment explanation
Indices: 74616--74658 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
74606 ATCATATTCG
* *
74616 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
74637 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
74658 T
1 T
74659 AACCCAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:80647 original size:23 final size:23
Alignment explanation
Indices: 80621--80691 Score: 142
Period size: 23 Copynumber: 3.1 Consensus size: 23
80611 CTCGTATAAA
80621 TGCACCGAAGTGCCCGTAGAATT
1 TGCACCGAAGTGCCCGTAGAATT
80644 TGCACCGAAGTGCCCGTAGAATT
1 TGCACCGAAGTGCCCGTAGAATT
80667 TGCACCGAAGTGCCCGTAGAATT
1 TGCACCGAAGTGCCCGTAGAATT
80690 TG
1 TG
80692 TCCATAAGGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (23 bp):
TGCACCGAAGTGCCCGTAGAATT
Found at i:81019 original size:29 final size:29
Alignment explanation
Indices: 80977--81048 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
80967 TTTTCTGCAT
*
80977 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACGA
* *
81006 ATTCATGTCATGTAATACCTTTAATACGA
1 ATTCATGTCATGTAATACATATAATACGA
81035 ATTCATGTCATGTA
1 ATTCATGTCATGTA
81049 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACGA
Found at i:81464 original size:66 final size:66
Alignment explanation
Indices: 81349--81519 Score: 220
Period size: 66 Copynumber: 2.6 Consensus size: 66
81339 TTTTCTCATG
* * *
81349 GGGGAATCGGTTCCCCCCTTAGGGGTATCGATTCCCCTCAAGCAGTCTGGAATTTCATATACGAT
1 GGGGTATCGGTT-CCCCCTTAGGGGTACCGATTCCCCTCAAGCAGTCTGGAA-ATCATATACGAT
81414 G-A
64 GAA
* * * *
81416 GGGGTATCGGTTCCCCCTTAGGGGTACCGATTCCCCTCTAGCATTCTGGAAATCATATTCGTTGA
1 GGGGTATCGGTTCCCCCTTAGGGGTACCGATTCCCCTCAAGCAGTCTGGAAATCATATACGATGA
81481 A
66 A
*
81482 GGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGTATCGGTTCCCCCTT--AGGGGTACCGATTCCCCT
81520 AACCCAGAAT
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
65 16 0.17
66 49 0.53
67 28 0.30
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.29
Consensus pattern (66 bp):
GGGGTATCGGTTCCCCCTTAGGGGTACCGATTCCCCTCAAGCAGTCTGGAAATCATATACGATGA
A
Found at i:81507 original size:21 final size:21
Alignment explanation
Indices: 81477--81519 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
81467 ATCATATTCG
* *
81477 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
81498 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
81519 T
1 T
81520 AACCCAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.26, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:85897 original size:22 final size:20
Alignment explanation
Indices: 85867--85910 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
85857 GTTTTGTTGC
85867 TTTTATGATATTTTTTCTTATCA
1 TTTTATGAT-TTTTTT-TTA-CA
85890 TTTT-TGATTTTTTTTTACA
1 TTTTATGATTTTTTTTTACA
85909 TT
1 TT
85911 GGGCGTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.19
20 3 0.14
21 6 0.29
22 4 0.19
23 4 0.19
ACGTcount: A:0.18, C:0.07, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTATGATTTTTTTTTACA
Found at i:88479 original size:23 final size:23
Alignment explanation
Indices: 88449--88503 Score: 101
Period size: 23 Copynumber: 2.3 Consensus size: 23
88439 ACTATACATG
88449 TTGATCATCGGATTTAACCTACT
1 TTGATCATCGGATTTAACCTACT
88472 TTGATCATCGGATTTAACCTACT
1 TTGATCATCGGATTTAACCTACT
88495 TCTGATCAT
1 T-TGATCAT
88504 TTAGCTTCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 24 0.77
24 7 0.23
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (23 bp):
TTGATCATCGGATTTAACCTACT
Found at i:89812 original size:21 final size:21
Alignment explanation
Indices: 89786--89836 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
89776 ACAGCAAGAT
89786 TTTGGGAAGGGAAGAAGGCAG
1 TTTGGGAAGGGAAGAAGGCAG
89807 TTTGGGAAGGGAAGAAGGCAG
1 TTTGGGAAGGGAAGAAGGCAG
*
89828 TTTGTGAAG
1 TTTGGGAAG
89837 AGAGGAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.04, G:0.45, T:0.20
Consensus pattern (21 bp):
TTTGGGAAGGGAAGAAGGCAG
Found at i:89844 original size:21 final size:21
Alignment explanation
Indices: 89786--89844 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
89776 ACAGCAAGAT
*
89786 TTTGGGAAGGGAAGAAGGCAG
1 TTTGGGAAGAGAAGAAGGCAG
*
89807 TTTGGGAAGGGAAGAAGGCAG
1 TTTGGGAAGAGAAGAAGGCAG
* *
89828 TTTGTGAAGAGAGGAAG
1 TTTGGGAAGAGAAGAAG
89845 AAAACCTTCC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.34, C:0.03, G:0.46, T:0.17
Consensus pattern (21 bp):
TTTGGGAAGAGAAGAAGGCAG
Found at i:90138 original size:15 final size:15
Alignment explanation
Indices: 90118--90147 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
90108 CTCTTTAAAC
90118 AATCACTCCTTTTGT
1 AATCACTCCTTTTGT
90133 AATCACTCCTTTTGT
1 AATCACTCCTTTTGT
90148 TCAATTTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.07, T:0.47
Consensus pattern (15 bp):
AATCACTCCTTTTGT
Found at i:92363 original size:3 final size:3
Alignment explanation
Indices: 92355--92406 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
92345 TAATTATTTT
* * *
92355 TAA TAA TAA TAA TAA TAA TATA TAG TAA TAA TAA TTA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
92401 TAA TAA
1 TAA TAA
92407 ATAAATAAAG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 41 0.93
4 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:93622 original size:339 final size:337
Alignment explanation
Indices: 92774--93764 Score: 1547
Period size: 339 Copynumber: 2.9 Consensus size: 337
92764 TCGAACAAGC
* * * **
92774 TCTTCTTATTATGAA-CTTCTTCTTTCTTCAGATGAGTTCTTCTCATGATGAACTCT-CTCT-GA
1 TCTTCTCATTATGAATCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TGAACTGGA
* * * * *
92836 AAAAGTTG-ATCCATCGAGTGATAAATTCGAGCGAAAAATTGAACAAGTTCTTCTTATTATGAAC
65 AATA-TTGAAT-CATCGAATGATGAATTCAAGCGAAAAATTGAACAAGTTCTTCTCATTATGAAC
* * *** *
92900 TTCTTCTTCTTTCTTCAGATGAATTCTTCTCATTATGAACTTGAACTGGAAATACTGAAT-CATC
128 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTG-ATCCATC
* * * * *
92964 GAATGAT-GAATTCACGTGAAAA-GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCT
192 GAATGATGGATTTGA-G-CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCT
* * *
93027 TCAGATGAGTTCTTCTCATTATGAACTCTT-TCTGGAAAAGCTGATCCATC-AAGAGATGGGTTT
255 TCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAATGCTGATCCATCGAA-TGATGGATTT
93090 GAGCAAAAGGTTGAACAAAT
318 GAGCAAAAGGTTGAACAAAT
*
93110 TCTTCTCATTATGAAT-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAA
1 TCTTCTCATTATGAATCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAACTGGAA
93173 ATATTGAATCATCGAATGATGAATTCAAGC-AAAAATTTGAACAAGTTCTTCTCATTATGAACTT
66 ATATTGAATCATCGAATGATGAATTCAAGCGAAAAA-TTGAACAAGTTCTTCTCATTATGAACTT
*
93237 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCGAA
130 CTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGAA
93302 TGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
195 TGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGA
93367 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGAATGATGGATTTGAGCAAA
260 TGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGAATGATGGATTTGAGCAAA
93432 AGGTTGAACAAAT
325 AGGTTGAACAAAT
93445 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAACTGG
1 TCTTCTCATTATGAA--TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAACTGG
* *
93510 AAATACTGAATCATCGAATGATGAATTCAAGCGAAAAGTTGAACAAGTTCTTCTCATTATGAACT
64 AAATATTGAATCATCGAATGATGAATTCAAGCGAAAAATTGAACAAGTTCTTCTCATTATGAACT
93575 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGA
129 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGA
93640 ATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG
194 ATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAG
93705 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGAATGATGGATTTG
259 ATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGAATGATGGATTTG
93765 TATCTTTGCT
Statistics
Matches: 610, Mismatches: 30, Indels: 27
0.91 0.04 0.04
Matches are distributed among these distances:
334 13 0.02
335 268 0.44
336 33 0.05
337 1 0.00
338 5 0.01
339 286 0.47
340 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (337 bp):
TCTTCTCATTATGAATCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAACTGGAA
ATATTGAATCATCGAATGATGAATTCAAGCGAAAAATTGAACAAGTTCTTCTCATTATGAACTTC
TTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGAAT
GATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGAT
GAGTTCTTCTCATTATGAACTTTCTCTGGAAATGCTGATCCATCGAATGATGGATTTGAGCAAAA
GGTTGAACAAAT
Found at i:93759 original size:113 final size:113
Alignment explanation
Indices: 92774--93764 Score: 1339
Period size: 113 Copynumber: 8.8 Consensus size: 113
92764 TCGAACAAGC
* * * *
92774 TCTTCTTATTATGAACTTCTTC-T--TTCTTCAGATGAGTTCTTCTCATGATGAACTCTCTCTGA
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * * ** * * *
92836 AAAAGTTGATCCATCGAGTGATAAATTCGAGCGAAAA-ATTGAACAAGT
66 AAATGCTGATCCATCGAATGATGGATTTGAGC-AAAAGGTTGAACAAAT
* * * ***
92884 TCTTCTTATTATGAACTTCTTCTTCTTTCTTCAGATGAATTCTTCTCATTATGAACTTGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * * * *
92949 AAATACTGAAT-CATCGAATGAT-GAATTCACGTGAAAA-GTTGAACAAGT
66 AAATGCTG-ATCCATCGAATGATGGATTTGA-G-CAAAAGGTTGAACAAAT
92997 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTT-TCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTG
* * *
93061 GAAAAGCTGATCCATC-AAGAGATGGGTTTGAGCAAAAGGTTGAACAAAT
65 GAAATGCTGATCCATCGAA-TGATGGATTTGAGCAAAAGGTTGAACAAAT
****
93110 TCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
** * ** ** *
93171 AAATATTGAAT-CATCGAATGATGAATTCAAGCAAAAATTTGAACAAGT
66 AAATGCTG-ATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAAT
93219 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
*
93284 AAATGTTGATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAAT
66 AAATGCTGATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAAT
*
93332 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
93397 AAATGCTGATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAAT
66 AAATGCTGATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAAT
* ***
93445 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAACTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * ** *
93510 AAATACTGAAT-CATCGAATGATGAATTCAAGCGAAAA-GTTGAACAAGT
66 AAATGCTG-ATCCATCGAATGATGGATTTGAGC-AAAAGGTTGAACAAAT
93558 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
93623 AAATGCTGATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAAT
66 AAATGCTGATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAAT
*
93671 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
93736 AAATGCTGATCCATCGAATGATGGATTTG
66 AAATGCTGATCCATCGAATGATGGATTTG
93765 TATCTTTGCT
Statistics
Matches: 783, Mismatches: 75, Indels: 43
0.87 0.08 0.05
Matches are distributed among these distances:
109 82 0.10
110 31 0.04
111 3 0.00
112 24 0.03
113 630 0.80
114 13 0.02
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (113 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAATGCTGATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAAT
Found at i:94191 original size:22 final size:23
Alignment explanation
Indices: 94166--94220 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
94156 GATAAAGCTT
* *
94166 TCATCTTTGAAAAGA-GAATCTG
1 TCATCTTTGAAAAAAGGAATCTA
94188 TCATCTTT-AAAAAAGGAATCTA
1 TCATCTTTGAAAAAAGGAATCTA
*
94210 CCATCTTTGAA
1 TCATCTTTGAA
94221 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.18
22 21 0.75
23 2 0.07
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (23 bp):
TCATCTTTGAAAAAAGGAATCTA
Found at i:97022 original size:115 final size:114
Alignment explanation
Indices: 96708--97048 Score: 583
Period size: 114 Copynumber: 3.0 Consensus size: 114
96698 GATCATGCAG
* * * * * *
96708 TTCATCTTTCAATTCCAATGATCGGTTCTGGGGTTCCTACCGAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
*
96773 ACACTTCCAGAAGATGCTATTGAGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
*
96822 TTCATCTTTTAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
1 TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
*
96887 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
*
96936 TTCATCTTTAAAATCCAATGATTGGTTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAG
1 TTCATCTTTAAAATCCAATGATTGG-TTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAG
97001 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
65 AACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCA
97049 CATGGCACTT
Statistics
Matches: 215, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
114 130 0.60
115 85 0.40
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (114 bp):
TTCATCTTTAAAATCCAATGATTGGTTTTGGGGTTCATACCAAATCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGAGTCTTCTTATTTCTACTATGAGCAAA
Found at i:104076 original size:23 final size:23
Alignment explanation
Indices: 104046--104090 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
104036 TTAATTCTTG
*
104046 AATATAATAAATAATAAAATAAA
1 AATATAATAAATAAAAAAATAAA
*
104069 AATATAATATATAAAAAAATAA
1 AATATAATAAATAAAAAAATAA
104091 TAAGTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (23 bp):
AATATAATAAATAAAAAAATAAA
Found at i:104087 original size:18 final size:18
Alignment explanation
Indices: 104049--104104 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
104039 ATTCTTGAAT
*
104049 ATAATAAATAATAAAATAA
1 ATAATAAGTAATAAAA-AA
*
104068 A-AATATAATATATAAAAAA
1 ATAATA-AGTA-ATAAAAAA
104087 ATAATAAGTAATAAAAAA
1 ATAATAAGTAATAAAAAA
104105 TTTGAAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 12 0.36
19 11 0.33
20 10 0.30
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (18 bp):
ATAATAAGTAATAAAAAA
Found at i:106166 original size:3 final size:3
Alignment explanation
Indices: 106158--106209 Score: 77
Period size: 3 Copynumber: 17.0 Consensus size: 3
106148 TAATTATTTT
* *
106158 TAA TAA TAA TAA TAA TAA TATA TAA TAA TAA TAA TTA TTA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
106204 TAA TAA
1 TAA TAA
106210 ATAAATAAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 43 0.93
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:106213 original size:22 final size:21
Alignment explanation
Indices: 106148--106209 Score: 83
Period size: 19 Copynumber: 3.0 Consensus size: 21
106138 GGCCTGTAAT
*
106148 TAATTATTTTTAATAATAATAA
1 TAATTA-TTATAATAATAATAA
*
106170 TAA-TAATAT-ATAATAATAA
1 TAATTATTATAATAATAATAA
106189 TAATTATTATAATAATAATAA
1 TAATTATTATAATAATAATAA
106210 ATAAATAAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 13 0.37
20 7 0.20
21 12 0.34
22 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATTATTATAATAATAATAA
Found at i:108244 original size:21 final size:21
Alignment explanation
Indices: 108220--108260 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
108210 ATGTAAGTGT
108220 GTTAGTTCACGAGCCTCGAGA
1 GTTAGTTCACGAGCCTCGAGA
108241 GTTAGTTCACGAGCCTCGAG
1 GTTAGTTCACGAGCCTCGAG
108261 TTTTCAATGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (21 bp):
GTTAGTTCACGAGCCTCGAGA
Found at i:120899 original size:17 final size:17
Alignment explanation
Indices: 120877--120917 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
120867 TAATAGACAC
120877 TATGATATTATTT-TTAT
1 TATGAT-TTATTTATTAT
120894 TATGATTTATTTATTAT
1 TATGATTTATTTATTAT
120911 TAT-ATTT
1 TATGATTT
120918 TTAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (17 bp):
TATGATTTATTTATTAT
Found at i:122540 original size:18 final size:18
Alignment explanation
Indices: 122514--122552 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
122504 CCTCTAAAAA
122514 TTTAAAATTATTATATAT
1 TTTAAAATTATTATATAT
* * *
122532 TTTATAATTTTTGTATAT
1 TTTAAAATTATTATATAT
122550 TTT
1 TTT
122553 CTATTGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTAAAATTATTATATAT
Found at i:126675 original size:18 final size:18
Alignment explanation
Indices: 126652--126694 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
126642 TGACCGGTCA
126652 TGACCCGACCCGACCCGT
1 TGACCCGACCCGACCCGT
126670 TGACCCGACCCGACCCGT
1 TGACCCGACCCGACCCGT
126688 TGACCCG
1 TGACCCG
126695 TTGACCGTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.49, G:0.23, T:0.12
Consensus pattern (18 bp):
TGACCCGACCCGACCCGT
Found at i:129250 original size:24 final size:24
Alignment explanation
Indices: 129132--129247 Score: 153
Period size: 24 Copynumber: 4.8 Consensus size: 24
129122 TTCGATTTGA
*
129132 ATTCTGATCTGATACTTGACATGG
1 ATTCTGATATGATACTTGACATGG
*
129156 ATTCTGATATGATA-TCTGACATAG
1 ATTCTGATATGATACT-TGACATGG
* *
129180 ATTCTGATATGATACTTTACTTGG
1 ATTCTGATATGATACTTGACATGG
* *
129204 ATTCTGATCTGATACTTGACCTGG
1 ATTCTGATATGATACTTGACATGG
*
129228 ATTTTGATATGATACTTGAC
1 ATTCTGATATGATACTTGAC
129248 CTGATTTATG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
23 1 0.01
24 78 0.98
25 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (24 bp):
ATTCTGATATGATACTTGACATGG
Found at i:130142 original size:20 final size:20
Alignment explanation
Indices: 130121--130157 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
130111 TTCGAAAGCA
130121 AAAATG-GATTTTGAAAATC
1 AAAATGAGATTTTGAAAATC
*
130140 AAATTGAGATTTTGAAAA
1 AAAATGAGATTTTGAAAA
130158 AGGATTTAGA
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:0.49, C:0.03, G:0.16, T:0.32
Consensus pattern (20 bp):
AAAATGAGATTTTGAAAATC
Found at i:131619 original size:20 final size:21
Alignment explanation
Indices: 131596--131643 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
131586 TTTGGGATTT
131596 ATCCCTTGACG-AAAGGATCG
1 ATCCCTTGACGAAAAGGATCG
* *
131616 ATCCCTCGAGGAAAAGGATCG
1 ATCCCTTGACGAAAAGGATCG
131637 ATCCCTT
1 ATCCCTT
131644 CCCAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (21 bp):
ATCCCTTGACGAAAAGGATCG
Found at i:138642 original size:12 final size:11
Alignment explanation
Indices: 138625--138749 Score: 64
Period size: 11 Copynumber: 11.2 Consensus size: 11
138615 CAAAGATGTA
138625 TTATATTTAATT
1 TTATA-TTAATT
138637 TTATATT-A-T
1 TTATATTAATT
*
138646 ATATATTAATT
1 TTATATTAATT
138657 TTAATATTAATT
1 TT-ATATTAATT
*
138669 TT-TAAATAATT
1 TTAT-ATTAATT
**
138680 AAATATTAATTTT
1 TTATATTAA--TT
138693 TTATATTATATAT
1 TTATATTA-AT-T
**
138706 AGATATTAATT
1 TTATATTAATT
138717 TTAATATT-ATT
1 TT-ATATTAATT
*
138728 TTA-A-TAAAT
1 TTATATTAATT
*
138737 TAATATTAATT
1 TTATATTAATT
138748 TT
1 TT
138750 TTAATATTAT
Statistics
Matches: 84, Mismatches: 16, Indels: 27
0.66 0.13 0.21
Matches are distributed among these distances:
8 1 0.01
9 12 0.14
10 5 0.06
11 25 0.30
12 25 0.30
13 15 0.18
14 1 0.01
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.58
Consensus pattern (11 bp):
TTATATTAATT
Found at i:138651 original size:21 final size:21
Alignment explanation
Indices: 138626--138665 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
138616 AAAGATGTAT
138626 TATAT-TTAATTTT-ATATTA
1 TATATATTAATTTTAATATTA
138645 TATATATTAATTTTAATATTA
1 TATATATTAATTTTAATATTA
138666 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 8 0.42
21 6 0.32
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATATATTAATTTTAATATTA
Found at i:138666 original size:6 final size:6
Alignment explanation
Indices: 138648--138781 Score: 51
Period size: 6 Copynumber: 21.0 Consensus size: 6
138638 TATATTATAT
* * * *
138648 ATATTA ATTTTA ATATTA ATTTTTAA ATAATTAA ATATTA ATTTTTT ATATT-
1 ATATTA ATATTA ATATTA A-TATT-A AT-ATT-A ATATTA A-TATTA ATATTA
* * *
138700 ATATATA GATATTA ATTTTA ATATT- ATTTTA ATAAATTA ATATTA ATTTTTTA
1 ATAT-TA -ATATTA ATATTA ATATTA ATATTA AT--ATTA ATATTA A--TATTA
* *
138753 ATATT- ATA-GA GATATTA ATTTTA ATATTA
1 ATATTA ATATTA -ATATTA ATATTA ATATTA
138782 TTTTTAAAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 30
0.67 0.12 0.21
Matches are distributed among these distances:
5 11 0.11
6 49 0.51
7 14 0.15
8 22 0.23
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (6 bp):
ATATTA
Found at i:138724 original size:25 final size:25
Alignment explanation
Indices: 138682--138827 Score: 77
Period size: 25 Copynumber: 5.5 Consensus size: 25
138672 AAATAATTAA
*
138682 ATATTAATTTTTTATATTATATATAG
1 ATATTAA-TTTTAATATTATATATAG
138708 ATATTAATTTTAATATTATTTTAATAAATTA-
1 ATATTAATTTTAATATTA---T-AT--A-TAG
*
138739 ATATTAATTTTTTAATA-T-TATAGAG
1 ATATTAA--TTTTAATATTATATATAG
* * *
138764 ATATTAATTTTAATATTATTTTTAAA
1 ATATTAATTTTAATATTATATAT-AG
*
138790 ATAAATTAATTTT-ATATTAT-TTTAG
1 AT--ATTAATTTTAATATTATATATAG
138815 ATATTTAATTTTA
1 ATA-TTAATTTTA
138828 TCATATAAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 35
0.70 0.05 0.25
Matches are distributed among these distances:
23 9 0.09
24 10 0.10
25 23 0.24
26 13 0.14
27 9 0.09
28 11 0.11
29 2 0.02
31 8 0.08
32 3 0.03
33 8 0.08
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (25 bp):
ATATTAATTTTAATATTATATATAG
Found at i:138739 original size:58 final size:57
Alignment explanation
Indices: 138637--138827 Score: 220
Period size: 56 Copynumber: 3.4 Consensus size: 57
138627 ATATTTAATT
*
138637 TTATATTATATATATTAATTTTAATATTAATTTTTAA-ATAATTAAATATTAATTTTTTATA
1 TTATA-TATAGATATTAATTTTAATATT-A-TTTTAATA-AATT-AATATTAATTTTTTATA
138698 TTATATATAGATATTAATTTTAATATTATTTTAATAAATTAATATTAATTTTTTA-A
1 TTATATATAGATATTAATTTTAATATTATTTTAATAAATTAATATTAATTTTTTATA
* *
138754 -TATTATAGAGATATTAATTTTAATATTATTTT--TAAAATAA-ATTAA--TTTTATA
1 TTA-TATATAGATATTAATTTTAATATTATTTTAATAAATTAATATTAATTTTTTATA
*
138806 TTAT-TTTAGATATTTAATTTTA
1 TTATATATAGATA-TTAATTTTA
138828 TCATATAAAT
Statistics
Matches: 120, Mismatches: 5, Indels: 19
0.83 0.03 0.13
Matches are distributed among these distances:
51 11 0.09
52 11 0.09
53 7 0.06
54 7 0.06
55 2 0.02
56 29 0.24
57 15 0.12
58 10 0.08
59 2 0.02
60 21 0.17
61 5 0.04
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (57 bp):
TTATATATAGATATTAATTTTAATATTATTTTAATAAATTAATATTAATTTTTTATA
Found at i:138822 original size:24 final size:24
Alignment explanation
Indices: 138742--138828 Score: 75
Period size: 24 Copynumber: 3.4 Consensus size: 24
138732 TAAATTAATA
* * * *
138742 TTAATTTTTTAATATTATAGAGAT
1 TTAATTTTATATTATTTTAGATAT
* *
138766 ATTAATTTTAATATTATTTTTAAAATAAA
1 -TTAATTTT-ATATTA-TTTT-AGAT-AT
138795 TTAATTTTATATTATTTTAGATAT
1 TTAATTTTATATTATTTTAGATAT
138819 TTAATTTTAT
1 TTAATTTTAT
138829 CATATAAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
24 11 0.22
25 11 0.22
26 8 0.16
27 9 0.18
28 10 0.20
29 1 0.02
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (24 bp):
TTAATTTTATATTATTTTAGATAT
Found at i:138869 original size:41 final size:42
Alignment explanation
Indices: 138790--138869 Score: 103
Period size: 41 Copynumber: 1.9 Consensus size: 42
138780 TATTTTTAAA
*
138790 ATAAATTAATTTTATATTATTTTAGATATTTAATTTTATCAT
1 ATAAATTAATTTTATATTATTTTAGAAATTTAATTTTATCAT
*
138832 ATAAATT-ATTTTATA-TATTATTA-AAATTTTATATTTAT
1 ATAAATTAATTTTATATTATT-TTAGAAATTTAAT-TTTAT
138870 TTTAATTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
40 11 0.32
41 16 0.47
42 7 0.21
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (42 bp):
ATAAATTAATTTTATATTATTTTAGAAATTTAATTTTATCAT
Found at i:138880 original size:20 final size:19
Alignment explanation
Indices: 138835--138881 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
138825 TTATCATATA
138835 AATTATTTTATATATTATT
1 AATTATTTTATATATTATT
*
138854 AA-AATTTTATAT-TTATTTT
1 AATTATTTTATATATTA--TT
138873 AATTATTTT
1 AATTATTTT
138882 GATTTAAGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 3 0.13
18 9 0.39
19 6 0.26
20 5 0.22
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
AATTATTTTATATATTATT
Found at i:139525 original size:31 final size:31
Alignment explanation
Indices: 139488--139547 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
139478 TAGTTGTATG
* *
139488 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATCTCAGTATTGCAAAACTAA
139519 AATTATTTAAATCTCAGTATTGCAAAACT
1 AATTATTTAAATCTCAGTATTGCAAAACT
139548 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (31 bp):
AATTATTTAAATCTCAGTATTGCAAAACTAA
Found at i:143493 original size:183 final size:181
Alignment explanation
Indices: 143186--143601 Score: 618
Period size: 183 Copynumber: 2.3 Consensus size: 181
143176 AATACCATTA
** * *
143186 AAATATGTATCGATACATAACAATATATTATATAAAAATATGACAAAACAAGGTTCAATATGAAA
1 AAATATGTATCGATACATAACAATATAACATGTAAAAATATGACAAAAC-CGGTTCAATATGAAA
* *
143251 AATCGGTAAAGTGATACCAGATATGTTGAAGGTATCGATACCATTAAAATAAGTATCGATACTTT
65 AACCGGTAAAGAGATACCAGATATGTTGAAGGTATCGATACCATTAAAATAAGTATCGATACTTT
* *
143316 TGAAATTTAAAAGAAAAATAATACTAGAACCTATAAAGTATATATACTTTAT
130 TGAAATTTAAAAGAAAAACAATACTAGAACCTATAAAGTATAGATACTTTAT
* * *
143368 AAATATGTATCGATACATGACAATATAACATGTAAAAATATGACAGAACCGGTTTCATTATGACA
1 AAATATGTATCGATACATAACAATATAACATGTAAAAATATGACAAAACCGG-TTCAATATGA-A
* *
143433 AAACCGGTAAAGAGATATC-GAATATGTTGAAGGTATCGATATCATTAAAATAAGTATCGATACT
64 AAACCGGTAAAGAGATACCAG-ATATGTTGAAGGTATCGATACCATTAAAATAAGTATCGATACT
* ** *
143497 TTTGGAATTTAAAAGAAAAACAATACTAGCGCCTATAAAGTATCGATACTTTAT
128 TTTGAAATTTAAAAGAAAAACAATACTAGAACCTATAAAGTATAGATACTTTAT
* *
143551 AAATATGTATCGATACATAACAATATAAGAAGTAAAAATATGACAAAACCG
1 AAATATGTATCGATACATAACAATATAACATGTAAAAATATGACAAAACCG
143602 ATAAAGAGAT
Statistics
Matches: 210, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
181 2 0.01
182 54 0.26
183 154 0.73
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (181 bp):
AAATATGTATCGATACATAACAATATAACATGTAAAAATATGACAAAACCGGTTCAATATGAAAA
ACCGGTAAAGAGATACCAGATATGTTGAAGGTATCGATACCATTAAAATAAGTATCGATACTTTT
GAAATTTAAAAGAAAAACAATACTAGAACCTATAAAGTATAGATACTTTAT
Found at i:143647 original size:161 final size:162
Alignment explanation
Indices: 143426--143761 Score: 575
Period size: 161 Copynumber: 2.1 Consensus size: 162
143416 CCGGTTTCAT
* * * * *
143426 TATGACAAAACCGGTAAAGAGATATCGAATATGTTGAAGGTATCGATATCATTAAAATAAGTATC
1 TATGACAAAACCGATAAAGAGATA-CAAATATATTGAAGGTATCCATACCATTAAAATAAGTATC
*
143491 GATACTTTTGGAATTTAAAAGAAAAACAATACTAGCGCCTATAAAGTATCGATACTTTATAAATA
65 GATACTTTTGGAATTTAAAAGAAAAACAATACTAGCGCCTATAAAGTATCGATACTTTATAAACA
*
143556 TGTATCGATACATAACAATATAAGAAGTAAAAA
130 TGTATCGATACATAACAATATAACAAGTAAAAA
143589 TATGACAAAACCGATAAAGAGATA-AAATATATTGAAGGTATCCATACCATTAAAATAAGTATCG
1 TATGACAAAACCGATAAAGAGATACAAATATATTGAAGGTATCCATACCATTAAAATAAGTATCG
*
143653 ATACTTTTGGAATTTAAAAGAAAAACAATACTAGCGCCTATAAAGTATCGATATTTTATAAACAT
66 ATACTTTTGGAATTTAAAAGAAAAACAATACTAGCGCCTATAAAGTATCGATACTTTATAAACAT
*
143718 GTATCGATACATAACAATATAACAAGTCAAAA
131 GTATCGATACATAACAATATAACAAGTAAAAA
143750 TATGACAAAACC
1 TATGACAAAACC
143762 AGTTTCATTA
Statistics
Matches: 164, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
161 141 0.86
163 23 0.14
ACGTcount: A:0.47, C:0.12, G:0.13, T:0.27
Consensus pattern (162 bp):
TATGACAAAACCGATAAAGAGATACAAATATATTGAAGGTATCCATACCATTAAAATAAGTATCG
ATACTTTTGGAATTTAAAAGAAAAACAATACTAGCGCCTATAAAGTATCGATACTTTATAAACAT
GTATCGATACATAACAATATAACAAGTAAAAA
Found at i:148075 original size:17 final size:16
Alignment explanation
Indices: 148029--148075 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
148019 GAGGAAAGAC
148029 ATATATGATATGTGAA
1 ATATATGATATGTGAA
148045 ATATATGGA-A-GTGAA
1 ATATAT-GATATGTGAA
*
148060 CTATATGACTATGTGA
1 ATATATGA-TATGTGA
148076 TTATATGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
14 2 0.08
15 10 0.38
16 8 0.31
17 6 0.23
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.34
Consensus pattern (16 bp):
ATATATGATATGTGAA
Found at i:148405 original size:31 final size:30
Alignment explanation
Indices: 148318--148407 Score: 117
Period size: 31 Copynumber: 2.9 Consensus size: 30
148308 AGAGTCGAGG
* * *
148318 GTTACCTATGTCTTTCGAGACATATAGACA
1 GTTACCTATGTCATTCGGGACATATGGACA
*
148348 GTTTACCTATGTCATTTGGGACATATGGACA
1 G-TTACCTATGTCATTCGGGACATATGGACA
*
148379 TGTTACCTATGTCCTTCGGGACATATGGA
1 -GTTACCTATGTCATTCGGGACATATGGA
148408 TAGTGGTCTT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
30 1 0.02
31 50 0.96
32 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (30 bp):
GTTACCTATGTCATTCGGGACATATGGACA
Found at i:149861 original size:12 final size:12
Alignment explanation
Indices: 149844--149874 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
149834 TGTATACAAT
149844 TATATATTTTGA
1 TATATATTTTGA
149856 TATATATTTTGA
1 TATATATTTTGA
149868 TCATATA
1 T-ATATA
149875 AATATGATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (12 bp):
TATATATTTTGA
Found at i:152439 original size:31 final size:31
Alignment explanation
Indices: 152400--152489 Score: 119
Period size: 31 Copynumber: 2.9 Consensus size: 31
152390 AGAGTCGAGG
*
152400 GTTACCTATGTCTTTTGAGACATATGGACAA
1 GTTACCTATGTCCTTTGAGACATATGGACAA
* *
152431 TTTACCTATGTCCTTTGGGACATATGGACAA
1 GTTACCTATGTCCTTTGAGACATATGGACAA
* *
152462 GTTACCTACGTCC-TTCAGGACATATGGA
1 GTTACCTATGTCCTTTGA-GACATATGGA
152490 TAGTGGTCCT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
30 2 0.04
31 49 0.96
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (31 bp):
GTTACCTATGTCCTTTGAGACATATGGACAA
Found at i:155381 original size:17 final size:16
Alignment explanation
Indices: 155333--155381 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
155323 AATATGAGGA
155333 AAATATATGATATGTG
1 AAATATATGATATGTG
155349 AAATATATGGA-A-GTG
1 AAATATAT-GATATGTG
*
155364 AACTATATGACTATGTG
1 AAATATATGA-TATGTG
155381 A
1 A
155382 TTATATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 2 0.07
15 10 0.36
16 10 0.36
17 6 0.21
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (16 bp):
AAATATATGATATGTG
Found at i:155654 original size:30 final size:30
Alignment explanation
Indices: 155617--155703 Score: 115
Period size: 31 Copynumber: 2.9 Consensus size: 30
155607 AAGAGTCGAG
*
155617 GTTACCTATGTCTTTCGAGACATATGACA-
1 GTTACCTATGTCTTTCGGGACATATGACAT
155646 GTTTACCTATGTCATTT-GGGACATATGGACAT
1 G-TTACCTATGTC-TTTCGGGACATAT-GACAT
*
155678 GTTACCTATGTCCTTCGGGACATATG
1 GTTACCTATGTCTTTCGGGACATATG
155704 GATAGTGGTC
Statistics
Matches: 51, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
29 1 0.02
30 22 0.43
31 27 0.53
32 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.36
Consensus pattern (30 bp):
GTTACCTATGTCTTTCGGGACATATGACAT
Found at i:156156 original size:21 final size:21
Alignment explanation
Indices: 156131--156171 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
156121 CAGAACTCGT
*
156131 GGGGGTATCGATTCTCTAAAG
1 GGGGGTATCGATTCCCTAAAG
156152 GGGGGTATCGATTCCCTAAA
1 GGGGGTATCGATTCCCTAAA
156172 TAAGGGAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.17, G:0.32, T:0.27
Consensus pattern (21 bp):
GGGGGTATCGATTCCCTAAAG
Found at i:156222 original size:22 final size:23
Alignment explanation
Indices: 156175--156222 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
156165 CCCTAAATAA
156175 GGGAATCGGTTCCCATTCAAAGG
1 GGGAATCGGTTCCCATTCAAAGG
*
156198 GGGAATCGGTTCCCCTTC-AAGG
1 GGGAATCGGTTCCCATTCAAAGG
156220 GGG
1 GGG
156223 TATTGATTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.21, C:0.23, G:0.35, T:0.21
Consensus pattern (23 bp):
GGGAATCGGTTCCCATTCAAAGG
Found at i:156232 original size:22 final size:23
Alignment explanation
Indices: 156175--156233 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
156165 CCCTAAATAA
*
156175 GGGAATCGGTTCCCATTCAAAGG
1 GGGAATCGATTCCCATTCAAAGG
* *
156198 GGGAATCGGTTCCCCTTC-AAGG
1 GGGAATCGATTCCCATTCAAAGG
* *
156220 GGGTATTGATTCCC
1 GGGAATCGATTCCC
156234 TCTGCACCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.20, C:0.24, G:0.31, T:0.25
Consensus pattern (23 bp):
GGGAATCGATTCCCATTCAAAGG
Found at i:161741 original size:21 final size:21
Alignment explanation
Indices: 161715--161757 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
161705 GGAGTAATAT
161715 TTTGATATTCGAATAATTATA
1 TTTGATATTCGAATAATTATA
161736 TTTGATATTCGAATAATTATA
1 TTTGATATTCGAATAATTATA
161757 T
1 T
161758 CGAATATACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (21 bp):
TTTGATATTCGAATAATTATA
Found at i:162196 original size:65 final size:65
Alignment explanation
Indices: 162068--162199 Score: 203
Period size: 65 Copynumber: 2.0 Consensus size: 65
162058 GGGGGAAGTG
* * *
162068 GGTGGAAAAATAGATGGAGTGGTGAAAGACGTTGTGGAATTGAGGGGTGAACTTAAGATGGTGAT
1 GGTGGAAAAATAGATGGAGTGGTAAAAGAAGTTGTGGAATTGAGGGGTGAACTTAAGAGGGTGAT
* *
162133 GGTGGAAAATTTGATGGAGTGGTAAAAGAAGTTGTGGAATTGAGGGGTGAACTTAA-AGGGGTGA
1 GGTGGAAAAATAGATGGAGTGGTAAAAGAAGTTGTGGAATTGAGGGGTGAACTTAAGA-GGGTGA
162197 T
65 T
162198 GG
1 GG
162200 AAGTGAATGA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
64 1 0.02
65 60 0.98
ACGTcount: A:0.32, C:0.02, G:0.41, T:0.25
Consensus pattern (65 bp):
GGTGGAAAAATAGATGGAGTGGTAAAAGAAGTTGTGGAATTGAGGGGTGAACTTAAGAGGGTGAT
Found at i:163452 original size:2 final size:2
Alignment explanation
Indices: 163445--163469 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
163435 AATGTATCGC
163445 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
163470 TCCATAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:163702 original size:2 final size:2
Alignment explanation
Indices: 163695--163818 Score: 223
Period size: 2 Copynumber: 62.5 Consensus size: 2
163685 AAATGTATCG
*
163695 AC AC AC AC -C AC AC AC AC AC AC AC AC AT AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
163736 AC AT AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
163778 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
163819 TATATATATA
Statistics
Matches: 117, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
1 1 0.01
2 116 0.99
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (2 bp):
AC
Found at i:164147 original size:23 final size:24
Alignment explanation
Indices: 164102--164147 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
164092 ATTAGCTTTA
*
164102 ATAATGCGCAACCTATTACGTTAC
1 ATAATGCGCAACCTAATACGTTAC
* *
164126 ATAA-GCGCTACCTAATATGTTA
1 ATAATGCGCAACCTAATACGTTA
164148 TTATGCTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (24 bp):
ATAATGCGCAACCTAATACGTTAC
Found at i:164593 original size:224 final size:225
Alignment explanation
Indices: 164056--164638 Score: 823
Period size: 225 Copynumber: 2.6 Consensus size: 225
164046 ACTAATAACA
* * * * *
164056 TAACCTATTTTGTTATCATCGGATTTCTAAGGCCCCATTAGCTTTAATAATGCGCAACCTATTAC
1 TAACCTATTTTGTTATCGTCGGATTTCTAAAGCCCCATAAGCTTTAAAAAAGCGCAACCTATTAC
*
164121 GTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTAACTGGTTATG
66 GTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTAACTGATTATG
* ** *
164186 TTATCTTTGGATTTCTAAGCCTCAACAGCTTAAACTGTGGTAACATTTTAGGTGTTACCTAATAT
131 TTATCGTCAGATTTCTAAGCCTCAACAGCTTAAACTGTGGTAACATTTTAGGCGTTACCTAATAT
*
164251 GTTGATAGTACAAATAACAAATTAAGTAAT
196 GTTGATAATACAAATAACAAATTAAGTAAT
* * * * * *
164281 TAACCTATTTTGTTATCGTTGGATTTTTAAAACCCCA-AACGCTTTAAAAAGGTGCAACTTATTA
1 TAACCTATTTTGTTATCGTCGGATTTCTAAAGCCCCATAA-GCTTTAAAAAAGCGCAACCTATTA
* *
164345 CGTTACATAAGCGCTACCTAATATGTTATTATGATTGATAAT-TTTCTAGTAATTAACTGATTAT
65 CGTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTAACTGATTAT
* * * *
164409 GTTATCGTCATATTTCTAAGGCTCTATCAGCTTAAACTTTGGTAACATTTTAGGCGTTACCTAAT
130 GTTATCGTCAGATTTCTAAGCCTC-AACAGCTTAAACTGTGGTAACATTTTAGGCGTTACCTAAT
**
164474 ATGTTGATAATATTAATAAC-AATATAAGTAAT
194 ATGTTGATAATACAAATAACAAAT-TAAGTAAT
* * * * * *
164506 TAACCGATTATGTTATCGTCGGATTTCCAAAGCCCCATCAGC-TTAAAAAAACGCTACCTATTAC
1 TAACCTATTTTGTTATCGTCGGATTTCTAAAGCCCCATAAGCTTTAAAAAAGCGCAACCTATTAC
*
164570 GTTAAATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTAACTGATTATG
66 GTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTAACTGATTATG
164635 TTAT
131 TTAT
164639 AATTGGATTT
Statistics
Matches: 314, Mismatches: 39, Indels: 10
0.87 0.11 0.03
Matches are distributed among these distances:
224 99 0.32
225 214 0.68
226 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (225 bp):
TAACCTATTTTGTTATCGTCGGATTTCTAAAGCCCCATAAGCTTTAAAAAAGCGCAACCTATTAC
GTTACATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCCAGTAATTAACTGATTATG
TTATCGTCAGATTTCTAAGCCTCAACAGCTTAAACTGTGGTAACATTTTAGGCGTTACCTAATAT
GTTGATAATACAAATAACAAATTAAGTAAT
Found at i:164596 original size:23 final size:23
Alignment explanation
Indices: 164548--164596 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
164538 CCCCATCAGC
*
164548 TTAAAAAAACGCTACCTATTACG
1 TTAAAAAAACGCTACCTAATACG
* * *
164571 TTAAATAAGCGCTACCTAATATG
1 TTAAAAAAACGCTACCTAATACG
164594 TTA
1 TTA
164597 TTATGCTTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (23 bp):
TTAAAAAAACGCTACCTAATACG
Found at i:164672 original size:117 final size:118
Alignment explanation
Indices: 164500--164752 Score: 391
Period size: 118 Copynumber: 2.2 Consensus size: 118
164490 TAACAATATA
**
164500 AGTAATTAACCGATTATGTTATCGTCGGATTTCCAAAGCCCCATCAGCTTAAAAAA-ACGCTACC
1 AGTAATTAACCGATTATGTTATAATCGGATTTCCAAAGCCCCATCAGCTTAAAAAAGACGCTACC
*
164564 TATTACGTTAAATAAGCGCTACCTAATATGTTATTATGCTTGATAATGTTTCC
66 TATTACGTTAAATAAGCGCTACATAATATGTTATTATGCTTGATAATGTTTCC
* * * **
164617 AGTAATTAACTGATTATGTTATAATTGGATTTCCAAAGCCCCATCAGCTTTAAAAAGGTGCTACC
1 AGTAATTAACCGATTATGTTATAATCGGATTTCCAAAGCCCCATCAGCTTAAAAAAGACGCTACC
* * *
164682 TATTACGTTATATAAGCGCTACATAATATGTTATTGTGCTTGATAATGTTTCT
66 TATTACGTTAAATAAGCGCTACATAATATGTTATTATGCTTGATAATGTTTCC
*
164735 AGTAATTAACCGGTTATG
1 AGTAATTAACCGATTATG
164753 CTATCGTCTA
Statistics
Matches: 122, Mismatches: 13, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
117 51 0.42
118 71 0.58
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (118 bp):
AGTAATTAACCGATTATGTTATAATCGGATTTCCAAAGCCCCATCAGCTTAAAAAAGACGCTACC
TATTACGTTAAATAAGCGCTACATAATATGTTATTATGCTTGATAATGTTTCC
Found at i:165115 original size:2 final size:2
Alignment explanation
Indices: 165108--165175 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
165098 AATTTTAAGG
165108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
165150 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
165176 TAAAAACCAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:174037 original size:40 final size:40
Alignment explanation
Indices: 173976--174053 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 40
173966 CTTGTTCCAC
*
173976 GAAGAAAAAATTAAGAAGAAAAAAAGTTCAA-AAAAAGAA
1 GAAGAAAAAATGAAGAAGAAAAAAAGTTCAATAAAAAGAA
*
174015 GAAGAAAAAAGTGAA-AAGGAAAAAAAGTTTAATAAAAAG
1 GAAGAAAAAA-TGAAGAA-GAAAAAAAGTTCAATAAAAAG
174054 GGTTGTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 12 0.35
40 16 0.47
41 6 0.18
ACGTcount: A:0.69, C:0.01, G:0.18, T:0.12
Consensus pattern (40 bp):
GAAGAAAAAATGAAGAAGAAAAAAAGTTCAATAAAAAGAA
Found at i:174147 original size:38 final size:40
Alignment explanation
Indices: 174068--174148 Score: 94
Period size: 44 Copynumber: 1.9 Consensus size: 40
174058 GTATGATGTT
174068 TGTTTCATATTTTTGCATCCATTTTATTTACTTAGGGTTGTTTGA
1 TGTTTCATATTTTTGCATCCATTTTATTTAC-----GTTGTTTGA
*
174113 TGTTT-ATATTTTTGCATCCCTTTTATTTAC-TTGTTT
1 TGTTTCATATTTTTGCATCCATTTTATTTACGTTGTTT
174149 ATTTCATGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
38 6 0.17
44 24 0.69
45 5 0.14
ACGTcount: A:0.16, C:0.12, G:0.12, T:0.59
Consensus pattern (40 bp):
TGTTTCATATTTTTGCATCCATTTTATTTACGTTGTTTGA
Found at i:201549 original size:24 final size:24
Alignment explanation
Indices: 201502--201579 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 24
201492 TAATATACTC
* * *
201502 ATATATTATAATAATATATAATATT
1 ATATTTTA-AATAATTTATTATATT
201527 ATATTTTAAATAATTTATTATATTT
1 ATATTTTAAATAATTTATTATA-TT
** *
201552 ATATTATTTTATAATATTATTAAATT
1 ATATT-TTAAATAAT-TTATTATATT
201578 AT
1 AT
201580 TAATAAAGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
24 12 0.27
25 14 0.32
26 11 0.25
27 7 0.16
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
ATATTTTAAATAATTTATTATATT
Found at i:201607 original size:27 final size:26
Alignment explanation
Indices: 201562--201640 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 26
201552 ATATTATTTT
*
201562 ATAATATTATTAAATTATTAATAAAGA
1 ATAATATTATTATA-TATTAATAAAGA
* *
201589 GTAATATTATTTATATATTTAATAATATA
1 ATAATATTA-TTATATA-TTAATAA-AGA
*
201618 ATAAT-TTAATATATATTAATAAA
1 ATAATATTATTATATATTAATAAA
201641 ATACTAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.02
26 7 0.16
27 16 0.36
28 14 0.32
29 6 0.14
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.46
Consensus pattern (26 bp):
ATAATATTATTATATATTAATAAAGA
Found at i:201637 original size:15 final size:16
Alignment explanation
Indices: 201605--201639 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
201595 TTATTTATAT
201605 ATTTAATAATATAATA
1 ATTTAATAATATAATA
201621 ATTTAATATATATTAATA
1 ATTTAATA-ATA-TAATA
201639 A
1 A
201640 AATACTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATTTAATAATATAATA
Done.