Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 145 of 163
Found at i:47779865 original size:42 final size:41
Alignment explanation
Indices: 47779807--47779889 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 41
47779797 TATTCATGCC
*
47779807 ATGTGTGAACTTTTCATATTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGAACTTTTCATATTCAAGTCTATTCACTCTTCATA
*
47779848 ATGTGTGTAACTTTTCATCTTCAAGTCTATTCACTCTTCATA
1 ATGTGTG-AACTTTTCATATTCAAGTCTATTCACTCTTCATA
47779890 TTCAAGCCTC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 7 0.18
42 32 0.82
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.45
Consensus pattern (41 bp):
ATGTGTGAACTTTTCATATTCAAGTCTATTCACTCTTCATA
Found at i:47788927 original size:23 final size:23
Alignment explanation
Indices: 47788899--47788989 Score: 82
Period size: 23 Copynumber: 4.1 Consensus size: 23
47788889 TGTGTAACTT
47788899 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * * *
47788922 TTCATA---ATGTGT-GTAATTT
1 TTCATATTCAAGTCTCTTCACTC
* *
47788941 TTCATCTTCAAGTCTATTCACTC
1 TTCATATTCAAGTCTCTTCACTC
47788964 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
47788987 TTC
1 TTC
47788990 TAACTTTTCA
Statistics
Matches: 49, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
19 8 0.16
20 4 0.08
22 4 0.08
23 33 0.67
ACGTcount: A:0.22, C:0.25, G:0.07, T:0.46
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:47788943 original size:42 final size:42
Alignment explanation
Indices: 47788886--47788969 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 42
47788876 CTATTCATGC
*
47788886 ATGTGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATA
1 ATGTGTGTAACTTTTCATATTCAAGTCTATTCACTCTTCATA
* *
47788928 ATGTGTGTAATTTTTCATCTTCAAGTCTATTCACTCTTCATA
1 ATGTGTGTAACTTTTCATATTCAAGTCTATTCACTCTTCATA
47788970 TTCAAGTCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (42 bp):
ATGTGTGTAACTTTTCATATTCAAGTCTATTCACTCTTCATA
Found at i:47792253 original size:3 final size:3
Alignment explanation
Indices: 47792245--47792270 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47792235 GTATTGATCT
47792245 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
47792271 TGTTATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:47797955 original size:19 final size:19
Alignment explanation
Indices: 47797909--47797956 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 19
47797899 ATTTTTAGTA
* *
47797909 AATAAATTTAATTTTTTAT
1 AATAATTTTAATTATTTAT
*
47797928 ATTAGATTTTAATTATTTAT
1 AATA-ATTTTAATTATTTAT
47797948 AATAATTTT
1 AATAATTTT
47797957 TTACTTATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
AATAATTTTAATTATTTAT
Found at i:47800918 original size:6 final size:6
Alignment explanation
Indices: 47800907--47800931 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
47800897 AAGTAGAAGA
47800907 ATAGGG ATAGGG ATAGGG ATAGGG A
1 ATAGGG ATAGGG ATAGGG ATAGGG A
47800932 CCTTTGACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.48, T:0.16
Consensus pattern (6 bp):
ATAGGG
Found at i:47803684 original size:51 final size:50
Alignment explanation
Indices: 47803557--47803999 Score: 352
Period size: 51 Copynumber: 8.8 Consensus size: 50
47803547 GTGAAAGTGA
* * * * **
47803557 TGGTCATGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTG-GAACGAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAGAAC-TT
* * * ** * * *
47803607 AGGTCACATATGTAGTACTAAATGAAGGCTACAATGTGTACCGAGAAGCTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAGAA-CTT
* * * * * *
47803658 TGGTCACGTGTGTAGTTCTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAGAACT-T
* * * * ** *
47803709 TGGTCACATGCGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAACTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAG-AACTT
* * * * *
47803760 TGGTCACGTGTGTAGTACTTTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAGAACT-T
* * * * * *
47803811 TGGTCACATGCGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAGAA-CTT
* * * *
47803862 TAGTCACGTATGTAGTTCTATGTGAAGGCTACTACGTGAACCGTAAAAC-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AGAACTT
* * **
47803912 TGATCACGTGTGTAGTGCTATGTGAAGGCTACTACGTGAACCGTA-AAAAT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCG-AGAACTT
* * *
47803962 TGATTACGTATGTAGTACTATGTGAAGGCTACTACGTG
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
47804000 TATCGAATGA
Statistics
Matches: 308, Mismatches: 77, Indels: 16
0.77 0.19 0.04
Matches are distributed among these distances:
49 2 0.01
50 115 0.37
51 182 0.59
52 9 0.03
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.29
Consensus pattern (50 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGAGAACTT
Found at i:47803740 original size:102 final size:101
Alignment explanation
Indices: 47803557--47804005 Score: 503
Period size: 102 Copynumber: 4.4 Consensus size: 101
47803547 GTGAAAGTGA
* * * * * **
47803557 TGGTCATGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTGGA-ACGAAA-GGTCACATATGT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AATCGATA-AAAATGGTCACATGCGT
*
47803620 AGTACTAAATGAAGGCTACAATGTGTACCGAGAAGCTT
64 AGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTT
* *
47803658 TGGTCACGTGTGTAGTTCTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGCGTA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA-AATGGTCACATGCGTA
* *
47803723 GTACTAAGTGAAGGCTACAATATGTACCGAGAAACTT
65 GTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTT
*
47803760 TGGTCACGTGTGTAGTACTTTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGCGTA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAA-AATGGTCACATGCGTA
* *
47803825 GTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTT
65 GTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTT
* * * * * * * *
47803862 TAGTCACGTATGTAGTTCTATGTGAAGGCTACTACGTGAACCG-TAAAACTTGATCACGTGTGTA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAA-ATGGTCACATGCGTA
* * * * * **
47803926 GTGCTATGTGAAGGCTACTACGTGAACCGTA-AA-AAT
65 GTACTAAGTGAAGGCTACAATGTGTACCG-AGAAGCTT
* * * *
47803962 TGATTACGTATGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
47804006 ATGATAATAG
Statistics
Matches: 303, Mismatches: 39, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
100 44 0.15
101 79 0.26
102 180 0.59
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (101 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAAAATGGTCACATGCGTAG
TACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTT
Found at i:47804912 original size:5 final size:5
Alignment explanation
Indices: 47804902--47804949 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
47804892 TGCTTGATAA
* * *
47804902 AATGG AATGG AATGG AATGG TAT-G ACATGG AATAG TATGG AATGG AAT
1 AATGG AATGG AATGG AATGG AATGG A-ATGG AATGG AATGG AATGG AAT
47804950 ATATATATAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
4 1 0.03
5 32 0.91
6 2 0.06
ACGTcount: A:0.40, C:0.02, G:0.33, T:0.25
Consensus pattern (5 bp):
AATGG
Found at i:47804931 original size:15 final size:15
Alignment explanation
Indices: 47804908--47804950 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
47804898 ATAAAATGGA
*
47804908 ATGGAATGGAATGGT
1 ATGGAATGGAATAGT
47804923 AT-GACATGGAATAGT
1 ATGGA-ATGGAATAGT
47804938 ATGGAATGGAATA
1 ATGGAATGGAATA
47804951 TATATATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.40, C:0.02, G:0.33, T:0.26
Consensus pattern (15 bp):
ATGGAATGGAATAGT
Found at i:47807207 original size:21 final size:21
Alignment explanation
Indices: 47807177--47807235 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
47807167 CTCCACAATT
47807177 GTTTCTAATCTCACCGCTACA
1 GTTTCTAATCTCACCGCTACA
*
47807198 GTTTCCAATCTCACCGCTACA
1 GTTTCTAATCTCACCGCTACA
**
47807219 GTAACTAATCTCACCGC
1 GTTTCTAATCTCACCGC
47807236 CACCGCTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.25, C:0.36, G:0.10, T:0.29
Consensus pattern (21 bp):
GTTTCTAATCTCACCGCTACA
Found at i:47825457 original size:29 final size:30
Alignment explanation
Indices: 47825425--47825487 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
47825415 TTTAAAATTT
* *
47825425 TTTTTTTAATTTGATTTTCACTTTC-TTTC
1 TTTTTTTAATATAATTTTCACTTTCTTTTC
*
47825454 TTTTTTTCATATAATTTTCACTTTCTTTTC
1 TTTTTTTAATATAATTTTCACTTTCTTTTC
47825484 TTTT
1 TTTT
47825488 ATTGAAATTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.73
30 8 0.27
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (30 bp):
TTTTTTTAATATAATTTTCACTTTCTTTTC
Found at i:47827726 original size:27 final size:25
Alignment explanation
Indices: 47827696--47827748 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 25
47827686 TAATATTTAA
* *
47827696 TTTATAATATAATTCCATTCATCTATT
1 TTTAAAATATAATT-AATTCAT-TATT
*
47827723 TTTAAAATATTATTAATTCATTATT
1 TTTAAAATATAATTAATTCATTATT
47827748 T
1 T
47827749 GAATACATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 6 0.26
27 12 0.52
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (25 bp):
TTTAAAATATAATTAATTCATTATT
Found at i:47829629 original size:13 final size:13
Alignment explanation
Indices: 47829611--47829638 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47829601 TATGTTTTAT
47829611 TATTTTTTTATAA
1 TATTTTTTTATAA
47829624 TATTTTTTTATAA
1 TATTTTTTTATAA
47829637 TA
1 TA
47829639 ATAACCATAA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTTTTATAA
Found at i:47841973 original size:21 final size:23
Alignment explanation
Indices: 47841943--47841990 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 23
47841933 CAAAAAAATT
47841943 TTAAAAAAATCGA-AT-TTCGAG
1 TTAAAAAAATCGAGATATTCGAG
* *
47841964 TTAAACAAATCGAGTTATTCGAG
1 TTAAAAAAATCGAGATATTCGAG
47841987 TTAA
1 TTAA
47841991 TCGAGTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 12 0.52
22 1 0.04
23 10 0.43
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (23 bp):
TTAAAAAAATCGAGATATTCGAG
Found at i:47841987 original size:9 final size:9
Alignment explanation
Indices: 47841973--47842003 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47841963 GTTAAACAAA
47841973 TCGAGTTAT
1 TCGAGTTAT
*
47841982 TCGAGTTAA
1 TCGAGTTAT
47841991 TCGAGTTAT
1 TCGAGTTAT
47842000 TCGA
1 TCGA
47842004 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:47842086 original size:9 final size:9
Alignment explanation
Indices: 47842059--47842095 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
47842049 TGAGTTTTTG
47842059 AATTCGAAT
1 AATTCGAAT
* *
47842068 AACTCAAAT
1 AATTCGAAT
47842077 AATTCGAAT
1 AATTCGAAT
47842086 AATTCGAAT
1 AATTCGAAT
47842095 A
1 A
47842096 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:47842873 original size:5 final size:5
Alignment explanation
Indices: 47842863--47842893 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
47842853 CTCGAAAATT
47842863 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA TTCGA T
47842894 CGAATGCTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:47853697 original size:4 final size:4
Alignment explanation
Indices: 47853688--47853714 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
47853678 ACTAGCTATT
47853688 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
47853715 TATGAATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:47855965 original size:22 final size:19
Alignment explanation
Indices: 47855901--47855953 Score: 79
Period size: 21 Copynumber: 2.7 Consensus size: 19
47855891 TATCTTCAAG
*
47855901 GATATGCAATCTTAGATCT
1 GATATGCAATCTTAGATAT
47855920 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
47855941 GATATGCAATCTT
1 GATATGCAATCTT
47855954 GGAAGATATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 13 0.42
21 18 0.58
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:47855982 original size:22 final size:22
Alignment explanation
Indices: 47855901--47855979 Score: 60
Period size: 19 Copynumber: 3.7 Consensus size: 22
47855891 TATCTTCAAG
**
47855901 GATATGCAATCTTAG-ATCTGAT
1 GATATGCAATCTTAGAAGAT-AT
47855923 -ATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
47855941 GATATGCAATCTTGGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
47855963 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
47855980 GATTTAATTT
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.30
21 12 0.26
22 8 0.17
23 11 0.23
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:47872016 original size:19 final size:18
Alignment explanation
Indices: 47871987--47872023 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
47871977 GTTATTTTTA
47871987 TTTATTTATTTAATATAT
1 TTTATTTATTTAATATAT
*
47872005 TTTATATTATTTATTATAT
1 TTTAT-TTATTTAATATAT
47872024 ATACATATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATTTATTTAATATAT
Found at i:47872732 original size:24 final size:24
Alignment explanation
Indices: 47872703--47872760 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
47872693 ATTTAATTTT
* *
47872703 ACCCCTAAAAAAAATTCTAGCTTC
1 ACCCCTAAAAAAAATTATAGCTTA
* *
47872727 ACCCCTAAAGAAAATTATAGTTTA
1 ACCCCTAAAAAAAATTATAGCTTA
*
47872751 ACCCTTAAAA
1 ACCCCTAAAA
47872761 TTGATAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (24 bp):
ACCCCTAAAAAAAATTATAGCTTA
Found at i:47874043 original size:18 final size:18
Alignment explanation
Indices: 47874009--47874048 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
47873999 ATATATTTTC
47874009 ATTATTTTAAGTATAAAA
1 ATTATTTTAAGTATAAAA
*
47874027 TATTATTTTTA-TATAAAA
1 -ATTATTTTAAGTATAAAA
47874045 ATTA
1 ATTA
47874049 AAATTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 4 0.20
18 7 0.35
19 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
ATTATTTTAAGTATAAAA
Found at i:47874540 original size:21 final size:21
Alignment explanation
Indices: 47874504--47874545 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47874494 AAAGTTAGTA
* *
47874504 TTAAAGTTTCGTTAATAAATT
1 TTAAAGTTCCGATAATAAATT
*
47874525 TTAAAGTTCCGATAATTAATT
1 TTAAAGTTCCGATAATAAATT
47874546 GAACAAAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.45
Consensus pattern (21 bp):
TTAAAGTTCCGATAATAAATT
Found at i:47875180 original size:16 final size:17
Alignment explanation
Indices: 47875159--47875191 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
47875149 ATGTCTAGGT
47875159 AAATT-ATTAATTGAGA
1 AAATTAATTAATTGAGA
47875175 AAATTAGATTAATTGAG
1 AAATTA-ATTAATTGAG
47875192 GGGTTAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
AAATTAATTAATTGAGA
Found at i:47876748 original size:45 final size:45
Alignment explanation
Indices: 47876683--47876783 Score: 159
Period size: 45 Copynumber: 2.2 Consensus size: 45
47876673 ATGTGCCGAC
* *
47876683 TACTGTTACTGTTACTGATTC-GATACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAATACTGT
*
47876728 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
47876773 TACTGTTACTG
1 TACTGTTACTG
47876784 CTACCGTTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.44
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAATACTGT
Found at i:47893637 original size:36 final size:36
Alignment explanation
Indices: 47893597--47893669 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
47893587 ACAGAAGAAC
47893597 GAGCATTAACCCTTGGTGTCTCTACCTCAGGAGGGA
1 GAGCATTAACCCTTGGTGTCTCTACCTCAGGAGGGA
47893633 GAGCATTAACCCTTGGTGTCTCTACCTCAGGAGGGA
1 GAGCATTAACCCTTGGTGTCTCTACCTCAGGAGGGA
47893669 G
1 G
47893670 TTCCAAGTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.25
Consensus pattern (36 bp):
GAGCATTAACCCTTGGTGTCTCTACCTCAGGAGGGA
Found at i:47898724 original size:3 final size:3
Alignment explanation
Indices: 47898716--47898780 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
47898706 NNNNATTTCA
47898716 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
47898764 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
47898781 AGTGATAAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:47905492 original size:49 final size:49
Alignment explanation
Indices: 47905414--47905512 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 49
47905404 ATGAGTACTT
* *
47905414 TCGGTAAGTGATATGTGATTCGGTATAAGACCATAGCTGGGCTAAGGCA
1 TCGGTAAGTGATATGTGATTCGATATAAGACCATAGCTGGACTAAGGCA
* * * *
47905463 TCGGTATGTGATATGTGATTAC-ATGTAAGACCATAGTTGGACTATGGCA
1 TCGGTAAGTGATATGTGATT-CGATATAAGACCATAGCTGGACTAAGGCA
47905512 T
1 T
47905513 AGAGAAAACG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 42 0.98
50 1 0.02
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.30
Consensus pattern (49 bp):
TCGGTAAGTGATATGTGATTCGATATAAGACCATAGCTGGACTAAGGCA
Found at i:47909927 original size:21 final size:21
Alignment explanation
Indices: 47909901--47909943 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
47909891 GCCCAACCCA
*
47909901 AACCCAAACCCGGTCCGGCCC
1 AACCCAAACCCGGTCCAGCCC
47909922 AACCCAAACCCGGTCCAGCCC
1 AACCCAAACCCGGTCCAGCCC
47909943 A
1 A
47909944 TAGGCACCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.51, G:0.16, T:0.05
Consensus pattern (21 bp):
AACCCAAACCCGGTCCAGCCC
Found at i:47911806 original size:23 final size:25
Alignment explanation
Indices: 47911780--47911832 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
47911770 CTTAATACTC
*
47911780 TTAAAAACCCAA-ACC-ATTAAAAT
1 TTAAAAACACAATACCTATTAAAAT
*
47911803 TT-AAAACACAATACCTATTAATAT
1 TTAAAAACACAATACCTATTAAAAT
47911827 TTAAAA
1 TTAAAA
47911833 TCCAAATTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 8 0.32
23 5 0.20
24 9 0.36
25 3 0.12
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (25 bp):
TTAAAAACACAATACCTATTAAAAT
Found at i:47923592 original size:44 final size:44
Alignment explanation
Indices: 47923543--47923928 Score: 145
Period size: 44 Copynumber: 9.0 Consensus size: 44
47923533 TAAAATTCGC
47923543 CATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGT
1 CATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGT
* * * ** * ** * * **
47923587 AATCTTTGATCTATTCCACTGTTGCCCAGAGAGAT-AGAACTAC
1 CATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGT
* * ** * * * * * *
47923630 CAGCTTC-A-TTGTACTCCACTA-TAATCAGTGAGGTAAAATCCGC
1 CATCTTCGACCTG--CTCCACTATTGCTTAGGGAGATAAGATCTGT
47923673 CATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGT
1 CATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGT
* ** * ** * **
47923717 AATCTTC-ACTCTATTCCACTGTTGCCCAGGGAGAT-AGAACTAC
1 CATCTTCGAC-CTGCTCCACTATTGCTTAGGGAGATAAGATCTGT
** ** ** * * * * * *
47923760 CGGCTTTAATGTACTCCACCGTAAT-C--GGGGAGGTAAAATCCGT
1 CATCTTCGACCTGCTCCA-C-TATTGCTTAGGGAGATAAGATCTGT
47923803 CATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTT
1 CATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCT-G-T
* * *
47923849 TAT-TTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T
1 CATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGT
* * * * *
47923889 GAT-GT-GATCTGCTCCACTACTGCTTCGGGAGATAAGATCT
1 CATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCT
47923929 AGTTTTCTTC
Statistics
Matches: 243, Mismatches: 81, Indels: 39
0.67 0.22 0.11
Matches are distributed among these distances:
39 1 0.00
40 33 0.14
41 6 0.02
42 17 0.07
43 65 0.27
44 109 0.45
45 9 0.04
46 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
CATCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGT
Found at i:47923882 original size:130 final size:130
Alignment explanation
Indices: 47923293--47923845 Score: 910
Period size: 130 Copynumber: 4.3 Consensus size: 130
47923283 TGGATGTGAT
* ** * *
47923293 CTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGCTCTTCACTCTATTCCACTGTTGCCCCGAG
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
47923358 AGATAGAACTACCAGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGAC
66 AGATAGAACTACCAGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGAC
47923423 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
** * * *
47923488 AGATAGAACTACTGGCTTTAATGTACTCCACCGTAATCGGGGAGGTAAAATTCGCCATCTTCGAC
66 AGATAGAACTACCAGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGAC
* *
47923553 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTTGA-TCTATTCCACTGTTGCCCAGA
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATC-TTCACTCTATTCCACTGTTGCCCAGG
* ** *
47923617 GAGATAGAACTACCAGCTTCATTGTACTCCACTATAATCAGTGAGGTAAAATCCGCCATCTTCGA
65 GAGATAGAACTACCAGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGA
47923682 C
130 C
47923683 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
* * * *
47923748 AGATAGAACTACCGGCTTTAATGTACTCCACCGTAATCGGGGAGGTAAAATCCGTCATCTTCGAC
66 AGATAGAACTACCAGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGAC
47923813 CTGCTCCACTATTGCTTAGGGAGATAAGATCTG
1 CTGCTCCACTATTGCTTAGGGAGATAAGATCTG
47923846 GTTTATTTCG
Statistics
Matches: 390, Mismatches: 31, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
129 3 0.01
130 384 0.98
131 3 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (130 bp):
CTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATCTTCACTCTATTCCACTGTTGCCCAGGG
AGATAGAACTACCAGCTTCAATGTACTCCACCGTAATCAGGGAGGTAAAATCCGCCATCTTCGAC
Found at i:47923911 original size:40 final size:42
Alignment explanation
Indices: 47923813--47923927 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 42
47923803 CATCTTCGAC
* * *
47923813 CTGCTCCACTATTGCTTAGGGAGATAAGATCTGGTTTATTTCGT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC--GTTGATGTCGT
47923857 CTGCTCCACTACTGCTTAGGGAGATAAGA-C-TTGATGT-GAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCGTTGATGTCG-T
*
47923897 CTGCTCCACTACTGCTTCGGGAGATAAGATC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC
47923928 TAGTTTTCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
39 1 0.02
40 34 0.52
41 1 0.02
43 1 0.02
44 28 0.43
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (42 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCGTTGATGTCGT
Found at i:47924094 original size:134 final size:134
Alignment explanation
Indices: 47923934--47924731 Score: 1357
Period size: 134 Copynumber: 6.0 Consensus size: 134
47923924 GATCTAGTTT
* *
47923934 TCTTCACTCTATTCTACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
* *
47923999 AGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAATATTT
66 AGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
*
47924064 GTAA
131 GCAA
* *
47924068 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCTCTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
* * * *
47924133 AGTCAGAGAGGTAAAATCTGCCATCGTCGATCTGCTTCGCTACCAAATACAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
47924198 GCAA
131 GCAA
* *
47924202 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCAGCTTCAATGTACTCCTCTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
*
47924267 AGTCAGGGAGGTAAAATCTGCCATCTTTGATCTACTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
*
47924332 GTAA
131 GCAA
* *
47924336 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCTACTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
*
47924401 AGTCAGGGAGGTAAAATCTGCTATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
47924466 GCAA
131 GCAA
*
47924470 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
*
47924535 AGTCAGGGAGGTAAAATTTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
47924600 GCAA
131 GCAA
* * * *
47924604 TCTTCAATCTATTCCACTGCC-AA-CCAGGGAGATAGAGTTATTGGCTTCAATGTACTCCTCTAT
1 TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
*
47924667 AGTCAGGGAGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 AGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
47924732 ATTATCTTCA
Statistics
Matches: 630, Mismatches: 34, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
132 98 0.16
133 2 0.00
134 530 0.84
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (134 bp):
TCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGT
AGTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
GCAA
Found at i:47924812 original size:86 final size:87
Alignment explanation
Indices: 47924690--47924872 Score: 260
Period size: 86 Copynumber: 2.1 Consensus size: 87
47924680 AAATCTGCCA
* *
47924690 TCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTATTATCTTCAACCAGCTCTACTA
1 TCTTCGATCTGCTTCACCGCCAAATACAGGAAGGCAAGATCTATTATCTTCAACCAGCTCTACTA
*
47924755 CAAACAAGAGAGGCAATGTTTG
66 CAAACAAGAGAGGCAAGGTTTG
* ** * *
47924777 TCTTCGATCTGCTTCACCGTC-AATGTAGGAAGGCAAGATCTGTTATCTTCAACCAGCTCTGCTA
1 TCTTCGATCTGCTTCACCGCCAAATACAGGAAGGCAAGATCTATTATCTTCAACCAGCTCTACTA
**
47924841 CAAATGAGAGAGGCAAGGTTTG
66 CAAACAAGAGAGGCAAGGTTTG
*
47924863 TCTTCAATCT
1 TCTTCGATCT
47924873 TTACTGATAT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
86 67 0.79
87 18 0.21
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (87 bp):
TCTTCGATCTGCTTCACCGCCAAATACAGGAAGGCAAGATCTATTATCTTCAACCAGCTCTACTA
CAAACAAGAGAGGCAAGGTTTG
Found at i:47937139 original size:21 final size:21
Alignment explanation
Indices: 47937101--47937140 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
47937091 ATATATGTAG
* **
47937101 ATATGTATATAAGTTATAAAA
1 ATATATATATAAAATATAAAA
47937122 ATATATATATAAAATATAA
1 ATATATATATAAAATATAA
47937141 GCATGCATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (21 bp):
ATATATATATAAAATATAAAA
Found at i:47937926 original size:20 final size:20
Alignment explanation
Indices: 47937889--47937926 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47937879 AAAAACTCAA
*
47937889 AAATAAAGTAAAATAAAAGT
1 AAATAAAGTAAAAGAAAAGT
47937909 AAAT-AAGTAGAAAGAAAA
1 AAATAAAGTA-AAAGAAAA
47937927 AAAAACAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (20 bp):
AAATAAAGTAAAAGAAAAGT
Found at i:47938358 original size:17 final size:17
Alignment explanation
Indices: 47938336--47938368 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
47938326 GTATTGGGTA
*
47938336 GGTTTTGTTTTGTTTTG
1 GGTTTTGTCTTGTTTTG
47938353 GGTTTTGTCTTGTTTT
1 GGTTTTGTCTTGTTTT
47938369 CATTTTGGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.03, G:0.27, T:0.70
Consensus pattern (17 bp):
GGTTTTGTCTTGTTTTG
Found at i:47946159 original size:37 final size:37
Alignment explanation
Indices: 47946106--47946180 Score: 123
Period size: 37 Copynumber: 2.0 Consensus size: 37
47946096 CTATTTCTTC
* *
47946106 TACCTTTTAAATTTGCCTTATTGTTCATGTCTTGATT
1 TACCCTTTAAATTTGCCGTATTGTTCATGTCTTGATT
*
47946143 TACCCTTTAAATTTGCCGTATTGTTTATGTCTTGATT
1 TACCCTTTAAATTTGCCGTATTGTTCATGTCTTGATT
47946180 T
1 T
47946181 CGTTGTTGCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (37 bp):
TACCCTTTAAATTTGCCGTATTGTTCATGTCTTGATT
Found at i:47948549 original size:22 final size:23
Alignment explanation
Indices: 47948505--47948549 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
47948495 GGGAGTTTTG
*
47948505 GGAAAATCAAAATTTTGCAAAAA
1 GGAAAATCAAAATATTGCAAAAA
47948528 GGAAAA-CAATAATATT-CAAAAA
1 GGAAAATCAA-AATATTGCAAAAA
47948550 AATTGATAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (23 bp):
GGAAAATCAAAATATTGCAAAAA
Found at i:47951590 original size:14 final size:14
Alignment explanation
Indices: 47951571--47951607 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
47951561 CAAAAATATG
47951571 TATATGTGTACATA
1 TATATGTGTACATA
* *
47951585 TATATGTATATATA
1 TATATGTGTACATA
47951599 TATATGTGT
1 TATATGTGT
47951608 TTGCTTATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.35, C:0.03, G:0.14, T:0.49
Consensus pattern (14 bp):
TATATGTGTACATA
Found at i:47966807 original size:16 final size:16
Alignment explanation
Indices: 47966782--47966812 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47966772 ATTTTCCAAT
*
47966782 TTTATTATTAATAAGA
1 TTTATCATTAATAAGA
47966798 TTTATCATTAATAAG
1 TTTATCATTAATAAG
47966813 TAAGAATTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (16 bp):
TTTATCATTAATAAGA
Found at i:47973527 original size:12 final size:12
Alignment explanation
Indices: 47973510--47973536 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
47973500 CCTCAAAATA
47973510 ATTCTTAATTGG
1 ATTCTTAATTGG
47973522 ATTCTTAATTGG
1 ATTCTTAATTGG
47973534 ATT
1 ATT
47973537 TCTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (12 bp):
ATTCTTAATTGG
Found at i:47977904 original size:13 final size:13
Alignment explanation
Indices: 47977869--47977911 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
47977859 TAATTCTTTT
*
47977869 ATAATTA-TACAAC
1 ATAATTATTA-AAA
47977882 ATAATGTATTAAAA
1 ATAAT-TATTAAAA
47977896 ATAATTATTAAAA
1 ATAATTATTAAAA
47977909 ATA
1 ATA
47977912 CAAGTCAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 16 0.59
14 9 0.33
15 2 0.07
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (13 bp):
ATAATTATTAAAA
Found at i:47978178 original size:18 final size:18
Alignment explanation
Indices: 47978157--47978225 Score: 70
Period size: 18 Copynumber: 3.7 Consensus size: 18
47978147 TTTATTTAAT
47978157 TTTTTAATATTTTTTATA
1 TTTTTAATATTTTTTATA
47978175 TTTTGT-ATATTTTGTATATA
1 TTTT-TAATATTTT-T-TATA
47978195 TTTTTAATAATTTTTTGA-A
1 TTTTTAAT-ATTTTTT-ATA
*
47978214 TTTTTAAAATTT
1 TTTTTAATATTT
47978226 AAAAAATAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
18 15 0.34
19 12 0.27
20 12 0.27
21 5 0.11
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (18 bp):
TTTTTAATATTTTTTATA
Found at i:47978209 original size:11 final size:9
Alignment explanation
Indices: 47978146--47978210 Score: 60
Period size: 9 Copynumber: 6.8 Consensus size: 9
47978136 ACATGTCAGA
47978146 ATTTATTTA-
1 ATTT-TTTAT
47978155 ATTTTTTAAT
1 ATTTTTT-AT
47978165 ATTTTTTAT
1 ATTTTTTAT
*
47978174 ATTTTGTAT
1 ATTTTTTAT
47978183 ATTTTGTATAT
1 ATTTT-T-TAT
*
47978194 ATTTTTAAT
1 ATTTTTTAT
47978203 AATTTTTT
1 -ATTTTTT
47978211 GAATTTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
8 3 0.06
9 22 0.47
10 14 0.30
11 8 0.17
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:47979454 original size:59 final size:59
Alignment explanation
Indices: 47979389--47979508 Score: 195
Period size: 59 Copynumber: 2.0 Consensus size: 59
47979379 GGTTGAAATA
* * * *
47979389 TGTCATTGGTATTGAGGTTGGTACTTCAAGATTTTAGGTTTGAAATGTCATTAATAACG
1 TGTCATTGGTACTGACGTTAGTACTTCAAGATTTTAGATTTGAAATGTCATTAATAACG
*
47979448 TGTCATTGGTACTGACGTTAGTATTTCAAGATTTTAGATTTGAAATGTCATTAATAACG
1 TGTCATTGGTACTGACGTTAGTACTTCAAGATTTTAGATTTGAAATGTCATTAATAACG
47979507 TG
1 TG
47979509 ACTGGAAGAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (59 bp):
TGTCATTGGTACTGACGTTAGTACTTCAAGATTTTAGATTTGAAATGTCATTAATAACG
Found at i:47991138 original size:9 final size:9
Alignment explanation
Indices: 47991124--47991149 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47991114 TTTCGTTTGA
47991124 GTTATTATT
1 GTTATTATT
47991133 GTTATTATT
1 GTTATTATT
47991142 GTTATTAT
1 GTTATTAT
47991150 ATATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.12, T:0.65
Consensus pattern (9 bp):
GTTATTATT
Found at i:47991975 original size:32 final size:33
Alignment explanation
Indices: 47991918--47991997 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 33
47991908 AAATTTTTGT
* ** *
47991918 TATATATACATACATGTGTTTTTAT-ATAATATA
1 TATATATACATATACATATTTTTATAAT-ATATA
* *
47991951 TATATATA-ATATACATATTTTTATAATCTATC
1 TATATATACATATACATATTTTTATAATATATA
47991983 TATATATACATATAC
1 TATATATACATATAC
47991998 GTACCTACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
32 23 0.59
33 16 0.41
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (33 bp):
TATATATACATATACATATTTTTATAATATATA
Found at i:47997012 original size:19 final size:18
Alignment explanation
Indices: 47996988--47997023 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47996978 AGATGTATAA
47996988 AAAATAAAAAATATTTTAT
1 AAAAT-AAAAATATTTTAT
*
47997007 AAAATATAAATATTTTA
1 AAAATAAAAATATTTTA
47997024 ATTTTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATAAAAATATTTTAT
Found at i:47997604 original size:17 final size:18
Alignment explanation
Indices: 47997582--47997625 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
47997572 TTCATTTTAC
47997582 AATTATAAAACATTA-AA
1 AATTATAAAACATTATAA
*
47997599 AATTATAAAAGATTATTAA
1 AATTATAAAACATTA-TAA
47997618 AATTATAA
1 AATTATAA
47997626 TAATAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.58
19 10 0.42
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAAAACATTATAA
Found at i:48000804 original size:3 final size:3
Alignment explanation
Indices: 48000790--48000937 Score: 95
Period size: 3 Copynumber: 48.7 Consensus size: 3
48000780 AATATTATCG
* * * * *
48000790 TTA TTT TTA TTA TTA TTA TTT TTA TTA TTG CTA TTA TTA TCA TCGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T--TA
* * *
48000837 TTA TTA TTTA CT- TTA TTA TTA GTA TTA TTA TTA TT- TTCA TTA TGA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
* * * * * *
48000882 CTA ATA TTA TTA TTT TTA TT- TTA CTA CTC TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
*
48000927 TTG TTA TTA TT
1 TTA TTA TTA TT
48000938 TTTAAATTGT
Statistics
Matches: 110, Mismatches: 27, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
2 5 0.05
3 95 0.86
4 8 0.07
5 2 0.02
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:48000915 original size:62 final size:61
Alignment explanation
Indices: 48000797--48000934 Score: 147
Period size: 62 Copynumber: 2.2 Consensus size: 61
48000787 TCGTTATTTT
* *
48000797 TATTATTATTATTTTTATTATTGCTATTATTATCATCGTATTATTATTTACTTTATTATTAG
1 TATTATTATTATTTTCATTATTGCTAATATTATCATC-TATTATTATTTACTTTATTATTAG
* * *
48000859 TATTATTATTATTTTCATTA-TGACTAATATTATTAT-TTTTATT-TTACTACTCTTATTATTAT
1 TATTATTATTATTTTCATTATTG-CTAATATTATCATCTATTATTATT--TACT-TTATTATTAG
*
48000921 TATATATTGTTATT
1 TAT-TATTATTATT
48000935 ATTTTTAAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
59 2 0.03
60 6 0.09
61 6 0.09
62 42 0.65
63 9 0.14
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.62
Consensus pattern (61 bp):
TATTATTATTATTTTCATTATTGCTAATATTATCATCTATTATTATTTACTTTATTATTAG
Found at i:48001078 original size:8 final size:8
Alignment explanation
Indices: 48001050--48001100 Score: 54
Period size: 8 Copynumber: 6.6 Consensus size: 8
48001040 TTTTATTTTC
48001050 ATTTTATT
1 ATTTTATT
*
48001058 ATTTCATT
1 ATTTTATT
48001066 ATTTTATT
1 ATTTTATT
*
48001074 GTTTT-TT
1 ATTTTATT
48001081 A--TTATT
1 ATTTTATT
48001087 ATTTATATT
1 ATTT-TATT
48001096 ATTTT
1 ATTTT
48001101 TGTTTTTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
5 2 0.06
6 3 0.09
7 2 0.06
8 20 0.57
9 8 0.23
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (8 bp):
ATTTTATT
Found at i:48001116 original size:30 final size:31
Alignment explanation
Indices: 48001036--48001136 Score: 86
Period size: 30 Copynumber: 3.4 Consensus size: 31
48001026 TTAAATTGTT
* * *
48001036 TTATTTTTATTTTCATTTTATTATTTCATTA
1 TTATTTTTGTTTTTATATTATTATTTCATTA
*
48001067 TT-TTATTGTTTTT-TATTATTATTT-A-TA
1 TTATTTTTGTTTTTATATTATTATTTCATTA
* * *
48001094 TTATTTTTGTTTTTACTCTTATTATTCCCTT-
1 TTATTTTTGTTTTTA-TATTATTATTTCATTA
*
48001125 TTATTTTGGTTT
1 TTATTTTTGTTT
48001137 ATTTCATTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
27 4 0.07
28 11 0.20
29 10 0.18
30 17 0.30
31 13 0.23
32 1 0.02
ACGTcount: A:0.18, C:0.07, G:0.04, T:0.71
Consensus pattern (31 bp):
TTATTTTTGTTTTTATATTATTATTTCATTA
Found at i:48002561 original size:2 final size:2
Alignment explanation
Indices: 48002554--48002579 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
48002544 ATTTCTTAAT
48002554 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
48002580 AAGGGTGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:48011285 original size:44 final size:43
Alignment explanation
Indices: 48011212--48011295 Score: 98
Period size: 44 Copynumber: 1.9 Consensus size: 43
48011202 GGTGCAACCT
*
48011212 GCTCTACTGTAATTCATAGAGATGAGATCTATGATTTTAATCC
1 GCTCTACTGTAATTCAGAGAGATGAGATCTATGATTTTAATCC
* * * *
48011255 GCTCTACTGTGACTTCAGGGAGAT-AGGATCTGTGGTTTTAA
1 GCTCTACTGT-AATTCAGAGAGATGA-GATCTATGATTTTAA
48011296 CCTACTCCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
43 11 0.32
44 23 0.68
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (43 bp):
GCTCTACTGTAATTCAGAGAGATGAGATCTATGATTTTAATCC
Found at i:48011437 original size:44 final size:43
Alignment explanation
Indices: 48011402--48011545 Score: 207
Period size: 44 Copynumber: 3.3 Consensus size: 43
48011392 ACTACTGCTT
*
48011402 AGGGAGATAGGATCTACAATCTTCAACCTATTCCACTGTTGTCC
1 AGGGAGATAGGA-CTACAATCTTCAACCTATTCCACTGCTGTCC
48011446 AGGGAGATAGGACTTACAATCTTCAACCTATTCCACTGCTGTCC
1 AGGGAGATAGGAC-TACAATCTTCAACCTATTCCACTGCTGTCC
* * *
48011490 AAGGAGATAGGACTACCTATCTTCAACCTATTCCACTGCTGCCC
1 AGGGAGATAGGACTA-CAATCTTCAACCTATTCCACTGCTGTCC
* *
48011534 AAGTAGATAGGA
1 AGGGAGATAGGA
48011546 TTTGTGGTTT
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
43 3 0.03
44 90 0.97
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (43 bp):
AGGGAGATAGGACTACAATCTTCAACCTATTCCACTGCTGTCC
Found at i:48020886 original size:22 final size:22
Alignment explanation
Indices: 48020861--48020903 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
48020851 GAGCTTAGCT
* *
48020861 AAAATCAAAACAAAATTAAATG
1 AAAAACAAAACAAAATAAAATG
*
48020883 AAAAAGAAAACAAAATAAAAT
1 AAAAACAAAACAAAATAAAAT
48020904 AAATAATGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.74, C:0.07, G:0.05, T:0.14
Consensus pattern (22 bp):
AAAAACAAAACAAAATAAAATG
Found at i:48021845 original size:15 final size:14
Alignment explanation
Indices: 48021808--48021848 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
48021798 GGTTGATAGT
48021808 TGTATTGGGCTAGG
1 TGTATTGGGCTAGG
*
48021822 TAT-TTGGGCTAGG
1 TGTATTGGGCTAGG
48021835 TGTAGTTGGGCTAG
1 TGTA-TTGGGCTAG
48021849 ATATATCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 12 0.52
14 2 0.09
15 9 0.39
ACGTcount: A:0.15, C:0.07, G:0.41, T:0.37
Consensus pattern (14 bp):
TGTATTGGGCTAGG
Found at i:48023985 original size:37 final size:37
Alignment explanation
Indices: 48023938--48024012 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
48023928 CATTCTGAGC
* *
48023938 AAATATTCTTTTATTCTTTTCATTTCATTCATAACCA
1 AAATATTCTTTTATTCTTTCCATTACATTCATAACCA
48023975 AAATATTCTTTTATTCTTTCCATTACATTCATAACCA
1 AAATATTCTTTTATTCTTTCCATTACATTCATAACCA
48024012 A
1 A
48024013 TCATATGGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (37 bp):
AAATATTCTTTTATTCTTTCCATTACATTCATAACCA
Found at i:48024576 original size:13 final size:13
Alignment explanation
Indices: 48024558--48024582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48024548 AGTGGAGGCA
48024558 AAAAAATAAAAAT
1 AAAAAATAAAAAT
48024571 AAAAAATAAAAA
1 AAAAAATAAAAA
48024583 AACTCTACTG
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:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:48024991 original size:16 final size:15
Alignment explanation
Indices: 48024970--48025015 Score: 67
Period size: 16 Copynumber: 3.0 Consensus size: 15
48024960 ACTTCAGTTT
48024970 AAAAAAAAGAAAATAG
1 AAAAAAAAGAAAA-AG
48024986 AAAAAAAAGAAAAAG
1 AAAAAAAAGAAAAAG
48025001 AAAAGAAAA-AAAAAG
1 AAAA-AAAAGAAAAAG
48025016 GAGAGGCCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 12 0.41
16 17 0.59
ACGTcount: A:0.85, C:0.00, G:0.13, T:0.02
Consensus pattern (15 bp):
AAAAAAAAGAAAAAG
Found at i:48025001 original size:22 final size:21
Alignment explanation
Indices: 48024973--48025015 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
48024963 TCAGTTTAAA
*
48024973 AAAAAGAAAATAGAAAAAAAAG
1 AAAAAGAAAAGA-AAAAAAAAG
48024995 AAAAAGAAAAGAAAAAAAAAG
1 AAAAAGAAAAGAAAAAAAAAG
48025016 GAGAGGCCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (21 bp):
AAAAAGAAAAGAAAAAAAAAG
Found at i:48026066 original size:44 final size:44
Alignment explanation
Indices: 48026005--48026989 Score: 286
Period size: 44 Copynumber: 21.7 Consensus size: 44
48025995 CATATCAAAC
* * *
48026005 CTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAGAT
* *
48026049 CTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGC-GAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAG-AT
* * * * *
48026094 CTTATTTCCCTGAAGTTGCAATGGAACAGATTAAAGCTAAAAATTATAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGTTACAGAT
* * * * *
48026145 CTTATCTCTCTGAAGTTGCAATAGAGCAGATT-ACA--T-CAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGTTACAGAT
* * *
48026186 CTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAGGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAGAT
* * * *
48026230 CTTATCTCCCTGAAATTACAGTAGAGCAGACTGAA-TATAGC-GAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGT-TA-CAG-AT
* * * * * *
48026275 CTTATTTCCCTAAAGTTGTAGTGGAACATATTCAAGCTATAAATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT---G----AAGTTACAGAT
* * * * *
48026326 CTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCACA--T-CAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGTTACAGAT
* * ** *
48026367 CTTATCTCCCTGAAGTTGTAGTGGAGCAGGA-TAAAGACAACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCA-GATTGAAG-TTACAGAT
* * * * * *
48026412 CCTATAC-CTCTGAAGTTGCAGTAGG-TC-GAATCAAATCTACCATAGCAAGT
1 CTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGT-TA-C--AG--A-T
* * * * *** * *
48026462 TTTATCTCCCTGAAATTGCAGTGGAGTATATTGAAGCCCCAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAGAT
* * *
48026506 CTTATCTCCCTGAAGCTGCAGTGGAGCAGGTTGAAGATACTA-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTAC-AGAT
* * * *
48026550 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTATTA-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAGAT
* * * * ***
48026594 CCTATCTCCCTGAGGTTGCAGTGGAGCGGATTAAAACAAC-GAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAG-AT
* * * *
48026638 CCTATAC-CTCTGAAGTTGCAGTAGG-TCAGATT-AAGTCTACCATAATAAGT
1 CTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGT-TA-C---A-GA-T
* * * *
48026688 CTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAACCA-AC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-TTA-CAGAT
* * * * *
48026733 CTTATCTCCCTAAAGTTACAGTAGAGCAGGTTGAAGATACCA-AT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA-CAGAT
* * ** *
48026777 CTTATTTCCCTAAAGTTATAGTGGAACAGATTGAAGCTATAAATTACAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-------TTACAGAT
* * * * * *
48026828 CTTATCTCTCT-AGAGTTGCAGTAGAGTAGA-TCATA-TCA-AG-C
1 CTTATCTCCCTGA-AGTTGCAGTGGAGCAGATTGA-AGTTACAGAT
* * * ** *
48026869 CTTATCTCCTTGAAGTTGCAGTGGAGAAGACTGAAAATACCCA-AC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTA--CAGAT
* * * * *
48026914 CTTATCTTCCTAAAGTTACAGTGGCA-CAGGTTGAAGATACCA-AT
1 CTTATCTCCCTGAAGTTGCAGTGG-AGCAGATTGAAGTTA-CAGAT
*
48026958 CTTATCTCCCTGAAGTTGCAGTGGAGCGGATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
48026990 AAAACGTTGA
Statistics
Matches: 693, Mismatches: 165, Indels: 166
0.68 0.16 0.16
Matches are distributed among these distances:
41 84 0.12
42 13 0.02
43 11 0.02
44 269 0.39
45 147 0.21
46 5 0.01
47 2 0.00
48 3 0.00
49 9 0.01
50 46 0.07
51 92 0.13
52 11 0.02
53 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGTTACAGAT
Found at i:48026172 original size:96 final size:94
Alignment explanation
Indices: 48025946--48026356 Score: 336
Period size: 96 Copynumber: 4.5 Consensus size: 94
48025936 AGTCAAATTG
* * * * * *
48025946 AAGCTATAAATTACAGAACTTATCTCTCTGAAGTTGCAGTAGAGCA-A---ATCATATCAAACCT
1 AAGCTA-AAATTACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAACATAGCGAATCT
* * * *
48026007 TATCTCCTTGAAGTTGCAGTGGAGCAGGTT
65 TATTTCCCTGAAGTTGCAGTGGAACAGATT
* * * * *
48026037 --G---AAGTTACAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGATAGCGAATCTT
1 AAGCTAAAATTACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAACATAGCGAATCTT
*
48026097 ATTTCCCTGAAGTTGCAATGGAACAGATT
66 ATTTCCCTGAAGTTGCAGTGGAACAGATT
* * * * *
48026126 AAAGCTAAAAATTATAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATT--ACAT--CAAACC
1 -AAGCT-AAAATTACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAACATAGCGAATC
* * * *
48026187 TTATCTCCTTGAAGTTGCAGTGGAGCAGGTT
64 TTATTTCCCTGAAGTTGCAGTGGAACAGATT
* * * * * *
48026218 --G---AAGTTACAGGTCTTATCTCCCTGAAATTACAGTAGAGCAGACTGAATATAGCGAATCTT
1 AAGCTAAAATTACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAACATAGCGAATCTT
* * *
48026278 ATTTCCCTAAAGTTGTAGTGGAACATATT
66 ATTTCCCTGAAGTTGCAGTGGAACAGATT
*
48026307 CAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGAT
1 -AAGCTA-AAATTACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT
48026357 CACATCAAAC
Statistics
Matches: 244, Mismatches: 54, Indels: 39
0.72 0.16 0.12
Matches are distributed among these distances:
85 69 0.28
86 1 0.00
87 3 0.01
89 64 0.26
92 32 0.13
94 3 0.01
96 72 0.30
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.30
Consensus pattern (94 bp):
AAGCTAAAATTACAGATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAACATAGCGAATCTT
ATTTCCCTGAAGTTGCAGTGGAACAGATT
Found at i:48026185 original size:181 final size:181
Alignment explanation
Indices: 48025946--48026396 Score: 722
Period size: 181 Copynumber: 2.5 Consensus size: 181
48025936 AGTCAAATTG
* * *
48025946 AAGCTATAAATTACAGAACTTATCTCTCTGAAGTTGCAGTAGAGCAAATCATATCAAACCTTATC
1 AAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAACCTTATC
* * *
48026011 TCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAGGTCTTATCTCCCTGAAGTTGCAGTGGAGC
66 TCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAGGTCTTATCTCCCTGAAATTACAGTAGAGC
* *
48026076 AAATTGAAGATAGCGAATCTTATTTCCCTGAAGTTGCAATGGAACAGATTA
131 AAACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAATGGAACAGATTA
* * * *
48026127 AAGCTAAAAATTATAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTACATCAAACCTTATC
1 AAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAACCTTATC
48026192 TCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAGGTCTTATCTCCCTGAAATTACAGTAGAGC
66 TCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAGGTCTTATCTCCCTGAAATTACAGTAGAGC
* * * * * *
48026257 AGACTGAATATAGCGAATCTTATTTCCCTAAAGTTGTAGTGGAACATATTC
131 AAACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAATGGAACAGATTA
48026308 AAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAACCTTATC
1 AAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAACCTTATC
* *
48026373 TCCCTGAAGTTGTAGTGGAGCAGG
66 TCCTTGAAGTTGCAGTGGAGCAGG
48026397 ATAAAGACAA
Statistics
Matches: 246, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
181 246 1.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (181 bp):
AAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCACATCAAACCTTATC
TCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAGGTCTTATCTCCCTGAAATTACAGTAGAGC
AAACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAATGGAACAGATTA
Found at i:48026792 original size:89 final size:88
Alignment explanation
Indices: 48026687--48026984 Score: 280
Period size: 89 Copynumber: 3.3 Consensus size: 88
48026677 CCATAATAAG
48026687 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAACCAACCTTATCTCCCTAAAGTTAC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAACCAACCTTATCTCCCTAAAGTTAC
48026752 AGTAGAGCAGGTTGAAGATACCAA
66 AGT-GAGCAGGTTGAAGATACCAA
* ** * * * * * *
48026776 TCTTATTTCCCTAAAGTTATAGTGGAACAGATTGAAGCTATAAATTACAGATCTTATCTCTCTAG
1 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAG--AT-AA--CCA-ACCTTATCTCCCTAA
* * ** *
48026841 AGTTGCAGT-AG-A-GTAGATCATATCAA
60 AGTTACAGTGAGCAGGTTGAAGATACCAA
* * * * * * *
48026867 GCCTTATCTCCTTGAAGTTGCAGTGGAGAAGACTGAAAATACCCAACCTTATCTTCCTAAAGTTA
1 -TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAACCAACCTTATCTCCCTAAAGTTA
48026932 CAGTG-GCACAGGTTGAAGATACCAA
65 CAGTGAG--CAGGTTGAAGATACCAA
*
48026957 TCTTATCTCCCTGAAGTTGCAGTGGAGC
1 TCTTATCTCCCTAAAGTTGCAGTGGAGC
48026985 GGATTAAAAC
Statistics
Matches: 159, Mismatches: 38, Indels: 24
0.72 0.17 0.11
Matches are distributed among these distances:
86 20 0.13
87 2 0.01
89 59 0.37
90 12 0.08
91 12 0.08
92 30 0.19
93 2 0.01
94 2 0.01
95 20 0.13
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (88 bp):
TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAGATAACCAACCTTATCTCCCTAAAGTTAC
AGTGAGCAGGTTGAAGATACCAA
Found at i:48026816 original size:227 final size:227
Alignment explanation
Indices: 48026369--48026816 Score: 591
Period size: 227 Copynumber: 2.0 Consensus size: 227
48026359 CATCAAACCT
*
48026369 TATCTCCCTGAAGTTGTAGTGGAGCAGGATAAAGACAACAAATCCTATACCTCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAGACAACAAATCCTATACCTCTGAAGTTGCAGT
* * * * * *
48026434 AGGTCGAATCAAATCTACCATAGCAAGTTTTATCTCCCTGAAATTGCAGTGGAGTATATTGAAGC
66 AGGTCGAATCAAATCTACCATAACAAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGA
* * * * * *
48026499 CCCAAACCTTATCTCCCTGAAGCTGCAGTGGAGCAGGTTGAAGATACTAATCTTATCTCCCTGAA
131 ACCAAACCTTATCTCCCTAAAGCTACAGTAGAGCAGGTTGAAGATACCAATCTTATCTCCCTAAA
* **
48026564 GTTGCAGTGGAGTAGATTAAAGCTATTAATCC
196 GTTACAGTGGAACAGATTAAAGCTATTAATCC
* *
48026596 TATCTCCCTGAGGTTGCAGTGGAGC-GGATTAAA-ACAACGAATCCTATACCTCTGAAGTTGCAG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGGA-TAAAGACAACAAATCCTATACCTCTGAAGTTGCAG
* * *
48026659 TAGGTC-AGATTAAGTCTACCATAATAAGTCTTATCTCCCT-AAAGTTGCAGTGGAGCAGACTGA
65 TAGGTCGA-ATCAAATCTACCATAACAAGTCTTATCTCCCTGAAA-TTGCAGTGGAGCAGACTGA
* *
48026722 AGATAACC-AACCTTATCTCCCTAAAGTTACAGTAGAGCAGGTTGAAGATACCAATCTTATTTCC
128 AG--AACCAAACCTTATCTCCCTAAAGCTACAGTAGAGCAGGTTGAAGATACCAATCTTATCTCC
* *
48026786 CTAAAGTTATAGTGGAACAGATTGAAGCTAT
191 CTAAAGTTACAGTGGAACAGATTAAAGCTAT
48026817 AAATTACAGA
Statistics
Matches: 191, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
225 4 0.02
226 83 0.43
227 102 0.53
228 2 0.01
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (227 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGGATAAAGACAACAAATCCTATACCTCTGAAGTTGCAGT
AGGTCGAATCAAATCTACCATAACAAGTCTTATCTCCCTGAAATTGCAGTGGAGCAGACTGAAGA
ACCAAACCTTATCTCCCTAAAGCTACAGTAGAGCAGGTTGAAGATACCAATCTTATCTCCCTAAA
GTTACAGTGGAACAGATTAAAGCTATTAATCC
Found at i:48034773 original size:26 final size:26
Alignment explanation
Indices: 48034743--48034794 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
48034733 GTTCCTAGTA
48034743 GTCTATATGTGCAGATATATGTGTGT
1 GTCTATATGTGCAGATATATGTGTGT
*
48034769 GTCTATATGTGCAGATATGTGTGTGT
1 GTCTATATGTGCAGATATATGTGTGT
48034795 TTGCTGATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.21, C:0.08, G:0.29, T:0.42
Consensus pattern (26 bp):
GTCTATATGTGCAGATATATGTGTGT
Found at i:48053091 original size:17 final size:17
Alignment explanation
Indices: 48053050--48053112 Score: 60
Period size: 17 Copynumber: 3.6 Consensus size: 17
48053040 CATAATTTGG
48053050 AATAAAAT-ATGTAAATA-
1 AATAAAATAATG-AAA-AC
*
48053067 AATGAAATAATGAAAAC
1 AATAAAATAATGAAAAC
48053084 AATAAAATAAT-AATAAC
1 AATAAAATAATGAA-AAC
48053101 AATAATAATAAT
1 AATAA-AATAAT
48053113 AATAATAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
16 3 0.08
17 28 0.70
18 9 0.22
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (17 bp):
AATAAAATAATGAAAAC
Found at i:48053097 original size:3 final size:3
Alignment explanation
Indices: 48053084--48053126 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
48053074 TAATGAAAAC
*
48053084 AAT AA- AAT AAT AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
48053127 AAGTCAAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:48053194 original size:6 final size:5
Alignment explanation
Indices: 48053084--48053157 Score: 53
Period size: 6 Copynumber: 13.4 Consensus size: 5
48053074 TAATGAAAAC
48053084 AATAA AATAA TAATAA CAAT-- AATAA TAATAA TAATAA TAATAA AAGTCAAGA
1 AATAA AATAA -AATAA -AATAA AATAA -AATAA -AATAA -AATAA AA-T--A-A
48053136 AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AA
48053158 GGCATAATTA
Statistics
Matches: 60, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
3 3 0.05
5 25 0.42
6 27 0.45
8 2 0.03
9 3 0.05
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (5 bp):
AATAA
Found at i:48054483 original size:6 final size:6
Alignment explanation
Indices: 48054472--48054499 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
48054462 ATTATTGGAC
48054472 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
48054500 CGTTTTGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:48058723 original size:43 final size:43
Alignment explanation
Indices: 48058658--48058985 Score: 417
Period size: 43 Copynumber: 7.6 Consensus size: 43
48058648 TTTTAGAAAT
*
48058658 AAACGCCGCTAAAGAACTAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
* *
48058701 AAACGCCGCTATAGAACAAGACCTTTAGCGGCGCTTTTCCCAA
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
48058744 AAACGCCGCTATAGAACATGAGCTTTAGCGGCTCTTTTTCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
* * ** * * *
48058787 AATCGCCGCTATAGAACATTAGCTTTAGCGGCGCTTTTTCTAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
*
48058830 AAACGCCGCTAAAGAATAAGACCTTTAGCGGCGCCTTTT-CCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCG-CTTTTCCCAC
* * *
48058873 AAACGCCACTAAAGAACAAAACCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
* * * *
48058916 AAACGCCACTATAGAACATGACCTTTTGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
48058959 AAACGCCGCTAAAGAACATA-ACCTTTA
1 AAACGCCGCTAAAGAACA-AGACCTTTA
48058986 AAAAATATTT
Statistics
Matches: 251, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
42 5 0.02
43 241 0.96
44 5 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:48062888 original size:23 final size:21
Alignment explanation
Indices: 48062854--48062900 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
48062844 TTTTTATAAA
* *
48062854 TTTATTTACTTTTTGCGGCGTT
1 TTTACTTAC-TTTTGCGGCGAT
48062876 TTTACTTATCTTTTGCGGCGAT
1 TTTACTTA-CTTTTGCGGCGAT
48062898 TTT
1 TTT
48062901 CACAAAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.11, C:0.15, G:0.17, T:0.57
Consensus pattern (21 bp):
TTTACTTACTTTTGCGGCGAT
Found at i:48062909 original size:130 final size:130
Alignment explanation
Indices: 48062745--48063254 Score: 568
Period size: 130 Copynumber: 4.0 Consensus size: 130
48062735 CAAACGCTGT
* * * *
48062745 TATTACTTATTTTTTGCGGC-ATTTTTCATAAAAACACGGCAAAAAATTATTTCTTTTGAACAAA
1 TATTACTTATCTTTTGCGGCGA-TTTTCACAAAAACGCCGCAAAAAATTATTTCTTTTGAACAAA
* * * *
48062809 ATGAAGCCATTTTGCTATGCTAAAATTTTTTATTCTTTTTATAAATTTATTTACTTTTTGCGGCG
65 ATGAAGCCGTTTTGCTATGCTAAATTTTTTTATTCTTTTTATAAATTTATTTATTTTTTGCGCCG
*
48062874 T
130 C
* *
48062875 TTTTACTTATCTTTTGCGGCGATTTTCACAAAAACGCCGCAAACAATTATTTCTTTTGAACAAAA
1 TATTACTTATCTTTTGCGGCGATTTTCACAAAAACGCCGCAAAAAATTATTTCTTTTGAACAAAA
* * *
48062940 TGATGCCGTTTTGTTATGCTAAATTTTTTTATTCTTTTTATAAATTTTTTTATTTTTTGCATAAA
66 TGAAGCCGTTTTGCTATGCTAAATTTTTTTATTCTTTTTATAAATTTATTTATTTTTTG------
48063005 AACGCCGC
125 --CGCCGC
* * *
48063013 TATTGCTTATCTTTTGCGGCGATTTTCACAAAAATGCTGCAAAAAATTATTTCTTTTGAACAAAA
1 TATTACTTATCTTTTGCGGCGATTTTCACAAAAACGCCGCAAAAAATTATTTCTTTTGAACAAAA
*
48063078 TGACGCCGTTTTGC-ATTGCTAAATTTTTGTTATTCTTTTTATAAATTTATTTATTTTTT-----
66 TGAAGCCGTTTTGCTA-TGCTAAATTTTT-TTATTCTTTTTATAAATTTATTTATTTTTTGCGCC
48063137 G-
129 GC
* ** * *
48063138 -----C---TCTTTTGCGGCGTTTTTCGTAGAAACGCCGCAAACAATTATTTCTTTTGAACAAAA
1 TATTACTTATCTTTTGCGGCGATTTTCACAAAAACGCCGCAAAAAATTATTTCTTTTGAACAAAA
* * *
48063195 TGACGTCGTTTTGCTATGCT-AATTTTTTTATTGTTTTTATAAATTTATTTATTTTTTGCG
66 TGAAGCCGTTTTGCTATGCTAAATTTTTTTATTCTTTTTATAAATTTATTTATTTTTTGCG
48063255 GCGATTTATA
Statistics
Matches: 334, Mismatches: 31, Indels: 42
0.82 0.08 0.10
Matches are distributed among these distances:
115 29 0.09
116 7 0.02
117 66 0.20
118 1 0.00
120 1 0.00
126 1 0.00
130 110 0.33
131 1 0.00
137 1 0.00
138 88 0.26
139 29 0.09
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (130 bp):
TATTACTTATCTTTTGCGGCGATTTTCACAAAAACGCCGCAAAAAATTATTTCTTTTGAACAAAA
TGAAGCCGTTTTGCTATGCTAAATTTTTTTATTCTTTTTATAAATTTATTTATTTTTTGCGCCGC
Found at i:48062983 original size:21 final size:20
Alignment explanation
Indices: 48062959--48062997 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
48062949 TTTGTTATGC
48062959 TAAATTTTTTTATTCTTTTTA
1 TAAATTTTTTTATT-TTTTTA
48062980 TAAATTTTTTTATTTTTT
1 TAAATTTTTTTATTTTTT
48062998 GCATAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (20 bp):
TAAATTTTTTTATTTTTTTA
Found at i:48063003 original size:21 final size:21
Alignment explanation
Indices: 48062959--48063004 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
48062949 TTTGTTATGC
*
48062959 TAAATTTTTTTATTCTTTTTA
1 TAAATTTTTTTATTCTTTTCA
48062980 TAAATTTTTTTATT-TTTTGCA
1 TAAATTTTTTTATTCTTTT-CA
48063001 TAAA
1 TAAA
48063005 AACGCCGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.65
Consensus pattern (21 bp):
TAAATTTTTTTATTCTTTTCA
Found at i:48063101 original size:117 final size:116
Alignment explanation
Indices: 48062980--48063233 Score: 264
Period size: 117 Copynumber: 2.2 Consensus size: 116
48062970 ATTCTTTTTA
*
48062980 TAAATTTTTTTATT-TTTTGCATAAAAACGCCGCTATTGCTT-ATCTTTTGCGGCGATTTTCACA
1 TAAATTTTTTTATTCTTTT---TAAAAACGCAGCTATTGCTTGATCTTTTGCGGCGATTTTCACA
* *
48063043 AAAATGCTGCAAAAAATTATTTCTTTTGAACAAAATGACGCCGTTTTGC-ATTGC
63 AAAACGCCGCAAAAAATTATTTCTTTTGAACAAAATGACGCCGTTTTGCTA-TGC
* *** ** ** * * ** *
48063097 TAAATTTTTGTTATTCTTTTTATAAATTTATTTATTTTTTGCTCTTTTGCGGCGTTTTTCGTAGA
1 TAAATTTTT-TTATTCTTTTTAAAAACGCAGCTATTGCTTGATCTTTTGCGGCGATTTTCACAAA
* *
48063162 AACGCCGCAAACAATTATTTCTTTTGAACAAAATGACGTCGTTTTGCTATGC
65 AACGCCGCAAAAAATTATTTCTTTTGAACAAAATGACGCCGTTTTGCTATGC
*
48063214 T-AATTTTTTTATTGTTTTTA
1 TAAATTTTTTTATTCTTTTTA
48063234 TAAATTTATT
Statistics
Matches: 114, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
115 11 0.10
116 18 0.16
117 75 0.66
118 6 0.05
119 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (116 bp):
TAAATTTTTTTATTCTTTTTAAAAACGCAGCTATTGCTTGATCTTTTGCGGCGATTTTCACAAAA
ACGCCGCAAAAAATTATTTCTTTTGAACAAAATGACGCCGTTTTGCTATGC
Found at i:48064490 original size:15 final size:15
Alignment explanation
Indices: 48064470--48064498 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48064460 CCTAATGCGT
48064470 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
48064485 CTAACCCCTAAACC
1 CTAACCCCTAAACC
48064499 TTAAATCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:48064535 original size:14 final size:14
Alignment explanation
Indices: 48064518--48064544 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48064508 AACGCTTAAA
48064518 CCATAATCCCTAAT
1 CCATAATCCCTAAT
48064532 CCATAATCCCTAA
1 CCATAATCCCTAA
48064545 ACCCATACAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:48064775 original size:15 final size:15
Alignment explanation
Indices: 48064757--48064843 Score: 56
Period size: 15 Copynumber: 5.9 Consensus size: 15
48064747 CCCTTAACTT
48064757 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
48064772 CTAACCCTCT-AACCC
1 CTAACCC-CTAAACCC
* * * *
48064787 CTAAACCTTAAATCT
1 CTAACCCCTAAACCC
*
48064802 C-AACCCTTAAA-CC
1 CTAACCCCTAAACCC
* *
48064815 ATAATCCCTAAACCC
1 CTAACCCCTAAACCC
*
48064830 AT-ACTCCCTAAACC
1 CTAAC-CCCTAAACC
48064844 TTAAAATGGT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
13 1 0.02
14 19 0.33
15 35 0.61
16 2 0.04
ACGTcount: A:0.36, C:0.44, G:0.00, T:0.21
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:48064793 original size:8 final size:7
Alignment explanation
Indices: 48064757--48064790 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
48064747 CCCTTAACTT
48064757 CTAACCC
1 CTAACCC
48064764 CTAAACCC
1 CT-AACCC
48064772 CTAACCC
1 CTAACCC
48064779 TCTAACCC
1 -CTAACCC
48064787 CTAA
1 CTAA
48064791 ACCTTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.32, C:0.50, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAACCC
Found at i:48065260 original size:42 final size:41
Alignment explanation
Indices: 48065187--48065386 Score: 192
Period size: 41 Copynumber: 4.9 Consensus size: 41
48065177 TAAAATGTTT
* * *
48065187 TTAGCAGCGCCTTTCCAAAAACGCTGCTAAAGCCCACAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCACAACA
*
48065228 TTAGCGGCGCTTTTCCAAAAAACGCTACTAAAGCCCACAACA
1 TTAGCGGCGCTTTTCC-AAAAACGCTGCTAAAGCCCACAACA
** * * * *
48065270 TTAGCGGAACTTTTTCAAAAACGCCGCTAAAGCCCCCATCA
1 TTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCACAACA
* * * *
48065311 TTAGCGGCGC-TTTCTAAAAAATGAC-GCTAAATCCCCCAACA
1 TTAGCGGCGCTTTTC-CAAAAACG-CTGCTAAAGCCCACAACA
*
48065352 TTAGCGGCGC-TTTCTCAGAAACG-TCGCTAAAGCCC
1 TTAGCGGCGCTTTTC-CAAAAACGCT-GCTAAAGCCC
48065387 CGAAAGGTAA
Statistics
Matches: 132, Mismatches: 22, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
40 3 0.02
41 92 0.70
42 37 0.28
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.20
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCTGCTAAAGCCCACAACA
Found at i:48065380 original size:82 final size:82
Alignment explanation
Indices: 48065187--48065387 Score: 228
Period size: 82 Copynumber: 2.4 Consensus size: 82
48065177 TAAAATGTTT
* *
48065187 TTAGCAGCGCCTTTC-CAAAAACGCTGCTAAAGCCCACAGCATTAGCGGCGCTTTTCCAAAAAAC
1 TTAGCGGCG-CTTTCTCAAAAACGC-GCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAAAAAAC
48065251 GCTACTAAAGCCCACAACA
64 GCTACTAAAGCCCACAACA
** * * * *
48065270 TTAGCGGAACTTTTTCAAAAACGCCGCTAAAGCCCCCATCATTAGCGGCGC-TTTCTAAAAAATG
1 TTAGCGGCGCTTTCTCAAAAACG-CGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAAAAAACG
* * *
48065334 AC-GCTAAATCCCCCAACA
65 -CTACTAAAGCCCACAACA
*
48065352 TTAGCGGCGCTTTCTCAGAAACGTCGCTAAAGCCCC
1 TTAGCGGCGCTTTCTCAAAAACG-CGCTAAAGCCCC
48065388 GAAAGGTAAG
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
82 59 0.60
83 39 0.39
84 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.20
Consensus pattern (82 bp):
TTAGCGGCGCTTTCTCAAAAACGCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAAAAAACGC
TACTAAAGCCCACAACA
Found at i:48069388 original size:31 final size:30
Alignment explanation
Indices: 48069333--48069400 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
48069323 TTTTAATCTA
* *
48069333 GTCACTTACATTTATATTATTTCTATTTTG
1 GTCACTCACATTTAGATTATTTCTATTTTG
*
48069363 GTCACTCACACTTTAGATTGTTTCTATTTTG
1 GTCACTCACA-TTTAGATTATTTCTATTTTG
*
48069394 ATCACTC
1 GTCACTC
48069401 TCCGTTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 9 0.27
31 24 0.73
ACGTcount: A:0.22, C:0.19, G:0.09, T:0.50
Consensus pattern (30 bp):
GTCACTCACATTTAGATTATTTCTATTTTG
Found at i:48070927 original size:23 final size:24
Alignment explanation
Indices: 48070888--48070938 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 24
48070878 ATTCTAATGA
* *
48070888 TAAATTTTAAAATGATGTTAAATT
1 TAAATATTAAAATGATGCTAAATT
*
48070912 TAAATATT-AAATGATGCTAGATT
1 TAAATATTAAAATGATGCTAAATT
48070935 TAAA
1 TAAA
48070939 AACAAATACA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (24 bp):
TAAATATTAAAATGATGCTAAATT
Found at i:48082075 original size:26 final size:25
Alignment explanation
Indices: 48082039--48082195 Score: 129
Period size: 26 Copynumber: 6.1 Consensus size: 25
48082029 GTACATAGTA
* *
48082039 CCTGTTAAATATACACTGGCTCAAAG
1 CCTGCTAAATA-ACACTGGCTCAAGG
* *
48082065 CTTGCTAAATAACCACTAGCTCAAGG
1 CCTGCTAAATAA-CACTGGCTCAAGG
* * * *
48082091 GCTACTAAATAAACACCGGCTCGAGG
1 CCTGCTAAAT-AACACTGGCTCAAGG
*
48082117 CCTGCTAAATAACCACGGGCTCAAGG
1 CCTGCTAAATAA-CACTGGCTCAAGG
*
48082143 CCTGCTAAATAAACACAT-GCTTAAGG
1 CCTGCTAAAT-AACAC-TGGCTCAAGG
* *
48082169 CCTG-TTAATAACCACCGGCTCAAGG
1 CCTGCTAAATAA-CACTGGCTCAAGG
48082194 CC
1 CC
48082196 AGCTTTTCCG
Statistics
Matches: 105, Mismatches: 19, Indels: 15
0.76 0.14 0.11
Matches are distributed among these distances:
24 2 0.02
25 19 0.18
26 80 0.76
27 4 0.04
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.20
Consensus pattern (25 bp):
CCTGCTAAATAACACTGGCTCAAGG
Found at i:48082194 original size:51 final size:52
Alignment explanation
Indices: 48082044--48082195 Score: 171
Period size: 52 Copynumber: 2.9 Consensus size: 52
48082034 TAGTACCTGT
* * * * ** *
48082044 TAAATATACACTGGCTCAAAGCTTGCTAAATAACCACTAGCTCAAGGGCTAC
1 TAAATAAACACAGGCTCAAGGCCTGCTAAATAACCACCGGCTCAAGGCCTAC
* * * *
48082096 TAAATAAACACCGGCTCGAGGCCTGCTAAATAACCACGGGCTCAAGGCCTGC
1 TAAATAAACACAGGCTCAAGGCCTGCTAAATAACCACCGGCTCAAGGCCTAC
* * *
48082148 TAAATAAACACATGCTTAAGGCCTG-TTAATAACCACCGGCTCAAGGCC
1 TAAATAAACACAGGCTCAAGGCCTGCTAAATAACCACCGGCTCAAGGCC
48082196 AGCTTTTCCG
Statistics
Matches: 85, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
51 21 0.25
52 64 0.75
ACGTcount: A:0.34, C:0.28, G:0.18, T:0.20
Consensus pattern (52 bp):
TAAATAAACACAGGCTCAAGGCCTGCTAAATAACCACCGGCTCAAGGCCTAC
Found at i:48085973 original size:20 final size:20
Alignment explanation
Indices: 48085919--48085975 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 20
48085909 TTTTTTTTAA
*
48085919 TTTAAAATATTTAGTAATTTTT
1 TTTAAAA-A-TTATTAATTTTT
**
48085941 TTT-TGAATT-TTAATTTTT
1 TTTAAAAATTATTAATTTTT
48085959 TTTAAAAATTATTAATT
1 TTTAAAAATTATTAATT
48085976 ATTAATGTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
18 11 0.39
19 6 0.21
20 7 0.25
21 1 0.04
22 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (20 bp):
TTTAAAAATTATTAATTTTT
Found at i:48092111 original size:21 final size:21
Alignment explanation
Indices: 48092085--48092124 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
48092075 AATAAGACCA
48092085 CTGATGTGG-CAAGTTAACTAG
1 CTGATGTGGCCAA-TTAACTAG
48092106 CTGATGTGGCCAATTAACT
1 CTGATGTGGCCAATTAACT
48092125 TGCACGTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (21 bp):
CTGATGTGGCCAATTAACTAG
Found at i:48092356 original size:40 final size:39
Alignment explanation
Indices: 48092247--48092359 Score: 104
Period size: 40 Copynumber: 2.7 Consensus size: 39
48092237 GAGGAAAAGA
*
48092247 AACTCGATTAATAGGGTTCTAGGTTAG-AAATCTATTGGAG
1 AACT-GATTAATAGGGTT-TAGGTTAGAAAATCCATTGGAG
*
48092287 AACTGATTAACAAGGTTGGTTTAAGGTTAGAAAATCCATTAGGA-
1 AACTGATTAA-TA-G--GGTTT-AGGTTAGAAAATCCATT-GGAG
*
48092331 AATTGATTAATAGGGTTTAGGGTTAGAAA
1 AACTGATTAATAGGGTTTA-GGTTAGAAA
48092360 TCAATTGTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
39 7 0.11
40 19 0.31
41 1 0.02
42 2 0.03
43 12 0.20
44 17 0.28
45 3 0.05
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (39 bp):
AACTGATTAATAGGGTTTAGGTTAGAAAATCCATTGGAG
Found at i:48097935 original size:3 final size:3
Alignment explanation
Indices: 48097927--48097956 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
48097917 TATTTTTTCT
*
48097927 CTC CTC CTC TTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
48097957 TTCTTCTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.63, G:0.00, T:0.37
Consensus pattern (3 bp):
CTC
Found at i:48100426 original size:19 final size:20
Alignment explanation
Indices: 48100402--48100440 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
48100392 GAGCTTCATA
48100402 ATATTTT-TACTATTT-TTTT
1 ATATTTTATA-TATTTCTTTT
48100421 ATATTTTATATATTTCTTTT
1 ATATTTTATATATTTCTTTT
48100441 GAAATTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (20 bp):
ATATTTTATATATTTCTTTT
Found at i:48100458 original size:29 final size:29
Alignment explanation
Indices: 48100416--48100513 Score: 80
Period size: 29 Copynumber: 3.4 Consensus size: 29
48100406 TTTTACTATT
* *
48100416 TTTTTATATTTTATATATTTCTTTTGAAA
1 TTTTAATAATTTATATATTTCTTTTGAAA
* *
48100445 TTTTAATAATTTATATA-TACATTTG-AA
1 TTTTAATAATTTATATATTTCTTTTGAAA
*
48100472 TTTTAA-ACACTTTATA-ATTGT-TTTTGAAT
1 TTTTAATA-A-TTTATATATT-TCTTTTGAAA
48100501 TTTTAAATAATTT
1 TTTT-AATAATTT
48100514 TCTATAAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 14
0.72 0.09 0.18
Matches are distributed among these distances:
26 1 0.02
27 10 0.18
28 17 0.31
29 23 0.42
30 3 0.05
31 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (29 bp):
TTTTAATAATTTATATATTTCTTTTGAAA
Found at i:48102466 original size:17 final size:17
Alignment explanation
Indices: 48102425--48102466 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
48102415 AATATTTTTT
*
48102425 AAATATTTTAAAATTAA
1 AAATATTTTAAAAATAA
*
48102442 AAAAATTTTAAAAATAA
1 AAATATTTTAAAAATAA
*
48102459 ATATATTT
1 AAATATTT
48102467 ATTATATCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
AAATATTTTAAAAATAA
Found at i:48103305 original size:3 final size:3
Alignment explanation
Indices: 48103291--48103349 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
48103281 CAATTTTATG
* * **
48103291 TTA TTG TTA TTA TTA TT- TTAA CTA TTA TTA TTA TTA TGG TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
*
48103336 TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TT
48103350 GTTGGTATTA
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
2 2 0.05
3 41 0.93
4 1 0.02
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:48103348 original size:15 final size:15
Alignment explanation
Indices: 48103298--48103349 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
48103288 ATGTTATTGT
48103298 TATTATTATT-TTAAC
1 TATTATTATTATT-AC
48103313 TATTATTATTATTA-
1 TATTATTATTATTAC
*
48103327 TGGTTATTATTATTAC
1 T-ATTATTATTATTAC
48103343 TATTATT
1 TATTATT
48103350 GTTGGTATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 1 0.03
15 28 0.88
16 3 0.09
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:48103836 original size:4 final size:4
Alignment explanation
Indices: 48103827--48103858 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
48103817 TTCTATTCAT
*
48103827 TTTA TTTA TTTA TTTA TTTA TTTA TTCA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
48103859 CACTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:48107887 original size:26 final size:25
Alignment explanation
Indices: 48107858--48107921 Score: 58
Period size: 25 Copynumber: 2.5 Consensus size: 25
48107848 GGGGGGAAAG
48107858 AAAAAAGAAAAATCAAAAGCAAAAAA
1 AAAAAAGAAAAATC-AAAGCAAAAAA
* ** *
48107884 AAAATCA-ATCAATCAAAGTAAAAAA
1 AAAA-AAGAAAAATCAAAGCAAAAAA
48107909 AAAAAGAGAAAAA
1 AAAAA-AGAAAAA
48107922 GAAAAAAGGA
Statistics
Matches: 28, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
25 15 0.54
26 12 0.43
27 1 0.04
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (25 bp):
AAAAAAGAAAAATCAAAGCAAAAAA
Found at i:48108746 original size:17 final size:18
Alignment explanation
Indices: 48108723--48108769 Score: 80
Period size: 17 Copynumber: 2.7 Consensus size: 18
48108713 TTTGAGTCAA
48108723 AAAAATGAAAAAAAATTG
1 AAAAATGAAAAAAAATTG
48108741 -AAAATG-AAAAAAATTG
1 AAAAATGAAAAAAAATTG
48108757 AAAAATGAAAAAA
1 AAAAATGAAAAAA
48108770 TGAAAATTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 10 0.37
17 12 0.44
18 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (18 bp):
AAAAATGAAAAAAAATTG
Found at i:48110654 original size:46 final size:46
Alignment explanation
Indices: 48109954--48110640 Score: 1171
Period size: 46 Copynumber: 14.9 Consensus size: 46
48109944 ATGTTCCCCA
48109954 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
48110000 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
48110046 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
48110092 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
48110138 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
48110184 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
48110230 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
48110276 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
48110322 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
48110368 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
*
48110414 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAAC-G
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
* * *
48110459 AAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGG
1 -AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
* * * * *
48110506 AGGAGATCGAAGATAGCAGATCTTGTCTTCTTGTATTTGGTAGC-G
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
* * ** * *
48110551 AAGTAAATCGAAGATAGAAGATCTTGTCTTCCTGTATTTGGTAGCGG
1 -AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
* * * *
48110598 AGGAGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAG
1 AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAG
48110641 TCAAGCAGAT
Statistics
Matches: 621, Mismatches: 16, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
45 2 0.00
46 617 0.99
47 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (46 bp):
AGTAGATCAAAGATAGCGGATCTTGTCTTCCTGTATTTGGCAGCAG
Found at i:48110728 original size:44 final size:44
Alignment explanation
Indices: 48110666--48110857 Score: 139
Period size: 44 Copynumber: 4.5 Consensus size: 44
48110656 GTACCACCCT
* *
48110666 TATCTCCCTG-AGTTGCAGTGGAGTAGACAGAAGAAACCAATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
** * ** * *
48110709 TATCTCTCTGAAGTTGCAGTAAAGCGGA-TTAA-AATCACAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAAC-CA-ATCC
* * * * *
48110753 TATCTCTCTGAAGTTGCAGT--AG-AG-CAGATTGCATCCAGTCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGACAGA-AGAAACCAATCC
* * *
48110794 TATCTCCCTGGAGTTGCAGTGGAGCAGACGGAAGAAACCAATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
48110838 TATAC-CTCTGAAGTTGCAGT
1 TAT-CTCTCTGAAGTTGCAGT
48110858 AGGTCGGATT
Statistics
Matches: 113, Mismatches: 25, Indels: 21
0.71 0.16 0.13
Matches are distributed among these distances:
41 23 0.20
42 7 0.06
43 18 0.16
44 61 0.54
45 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (44 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
Found at i:48110809 original size:41 final size:44
Alignment explanation
Indices: 48110709--48110821 Score: 142
Period size: 41 Copynumber: 2.6 Consensus size: 44
48110699 AAACCAATCC
* *
48110709 TATCTCTCTGAAGTTGCAGTAAAGCGGATTAAAATCACAGATCT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAATCACAGATCT
**
48110753 TATCTCTCTGAAGTTGCAGTAGAGCAGATT-GCATC-CAG-TCT
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAATCACAGATCT
* * *
48110794 TATCTCCCTGGAGTTGCAGTGGAGCAGA
1 TATCTCTCTGAAGTTGCAGTAGAGCAGA
48110822 CGGAAGAAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
41 28 0.45
42 3 0.05
43 3 0.05
44 28 0.45
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAATCACAGATCT
Found at i:48112339 original size:31 final size:31
Alignment explanation
Indices: 48112273--48112339 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
48112263 ATTTAGTCCC
* * *
48112273 TTTTTATTTTGAATTCGCCCAGTTTCTTTTG
1 TTTTTATTTTGAATTAGCCCAGTTTATTTTA
* * *
48112304 TTTTTATTTTGATTTAGTCCATTTTATTTTA
1 TTTTTATTTTGAATTAGCCCAGTTTATTTTA
48112335 TTTTT
1 TTTTT
48112340 CTTTCAATTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.15, C:0.10, G:0.09, T:0.66
Consensus pattern (31 bp):
TTTTTATTTTGAATTAGCCCAGTTTATTTTA
Found at i:48112361 original size:29 final size:28
Alignment explanation
Indices: 48112328--48112392 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 28
48112318 TAGTCCATTT
* *
48112328 TATTTTATTTTTCTTTCAATTTCGCCCTA
1 TATTTTATTTTTATTTCAATTTAGCCC-A
*
48112357 TATTTTCATTTTTATTTCGATTTAGCCCA
1 TATTTT-ATTTTTATTTCAATTTAGCCCA
48112386 TATTTTA
1 TATTTTA
48112393 GCAATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 1 0.03
29 13 0.41
30 18 0.56
ACGTcount: A:0.20, C:0.17, G:0.05, T:0.58
Consensus pattern (28 bp):
TATTTTATTTTTATTTCAATTTAGCCCA
Found at i:48112935 original size:4 final size:4
Alignment explanation
Indices: 48112926--48112957 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
48112916 ATTCATTTTC
*
48112926 TTTA TTTA TTTA TTTA TTTA TTTA TTCA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
48112958 CACTCTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:48116622 original size:69 final size:70
Alignment explanation
Indices: 48116568--48116710 Score: 182
Period size: 69 Copynumber: 2.1 Consensus size: 70
48116558 TGTTTGTTTG
** *
48116568 TTCATAATTCTTTTGCCTTTTAAATATTTAAATTTAATATTATTTATATTTGTTTTA-CCGATTT
1 TTCATAATTCTTTTAACTTTTAAATACTTAAATTTAATATTATTTATATTTGTTTTATCCGATTT
48116632 ATTTA
66 ATTTA
* * * * * *
48116637 TTTATCATTCTTTTAATTTTTAAATACTTAAATTTAATATTACTTATATTTGTCTTAT-CTATTT
1 TTCATAATTCTTTTAACTTTTAAATACTTAAATTTAATATTATTTATATTTGTTTTATCCGATTT
48116701 ATTTA
66 ATTTA
*
48116706 GTCAT
1 TTCAT
48116711 TTATTCGTTA
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.29, C:0.09, G:0.03, T:0.58
Consensus pattern (70 bp):
TTCATAATTCTTTTAACTTTTAAATACTTAAATTTAATATTATTTATATTTGTTTTATCCGATTT
ATTTA
Found at i:48119959 original size:24 final size:24
Alignment explanation
Indices: 48119909--48119960 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
48119899 AATCAAAGTC
* *
48119909 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
48119933 AAATATATTATACTCATAAATATT
1 AAATATATTATACTAATAAATACT
48119957 AAAT
1 AAAT
48119961 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:48129205 original size:14 final size:14
Alignment explanation
Indices: 48129186--48129212 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48129176 CGGAAGTTTG
48129186 ACCACACTCACTGC
1 ACCACACTCACTGC
48129200 ACCACACTCACTG
1 ACCACACTCACTG
48129213 AAATGACGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.48, G:0.07, T:0.15
Consensus pattern (14 bp):
ACCACACTCACTGC
Found at i:48141558 original size:16 final size:16
Alignment explanation
Indices: 48141537--48141606 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
48141527 TTGATTTGCT
*
48141537 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
* *
48141553 ATTACATCTCTATTCC
1 ATTACACCTCTAATCC
48141569 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
48141585 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
48141601 AATACA
1 ATTACA
48141607 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.33, C:0.34, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:48142795 original size:18 final size:20
Alignment explanation
Indices: 48142757--48142796 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
48142747 AATATGTTTT
*
48142757 AAATTTTTTAAACATTATTA
1 AAATTTATTAAACATTATTA
48142777 AAATTTATTAAA-A-TATTA
1 AAATTTATTAAACATTATTA
48142795 AA
1 AA
48142797 TAAAGCTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 11 0.58
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTTATTAAACATTATTA
Found at i:48143752 original size:17 final size:18
Alignment explanation
Indices: 48143730--48143773 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
48143720 TTCATTTTAC
48143730 AATTATAAAACATTA-AA
1 AATTATAAAACATTATAA
*
48143747 AATTATAAAATATTATTAA
1 AATTATAAAACATTA-TAA
48143766 AATTATAA
1 AATTATAA
48143774 TAATGAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.58
19 10 0.42
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATAAAACATTATAA
Found at i:48144539 original size:43 final size:43
Alignment explanation
Indices: 48144485--48144583 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
48144475 TTTTTCACAT
* * *
48144485 AAACGCTGCTAAAGGTCATGA-CCTTTAGCGAAGTTTTTGTAGC
1 AAACGCCGCTAAAGGTCAT-ATCCTTTAGCGAAGCTTTTATAGC
* * **
48144528 AAACGCCGCTAAATGTCATATTCTTTAGCGGTGCTTTTATAGC
1 AAACGCCGCTAAAGGTCATATCCTTTAGCGAAGCTTTTATAGC
48144571 AAACGCCGCTAAA
1 AAACGCCGCTAAA
48144584 AGTACTGTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.02
43 47 0.98
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATATCCTTTAGCGAAGCTTTTATAGC
Found at i:48144595 original size:43 final size:43
Alignment explanation
Indices: 48144519--48144601 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
48144509 TTAGCGAAGT
* *
48144519 TTTTGTAGCAAACGCCGCTAAATGTCATATTCTTTAGCGGTGC
1 TTTTATAGCAAACGCCGCTAAAAGTCATATTCTTTAGCGGTGC
*
48144562 TTTTATAGCAAACGCCGCTAAAAGT-ACTGTTCTTTAGCGG
1 TTTTATAGCAAACGCCGCTAAAAGTCA-TATTCTTTAGCGG
48144602 CATTTTACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 35 0.97
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (43 bp):
TTTTATAGCAAACGCCGCTAAAAGTCATATTCTTTAGCGGTGC
Found at i:48144961 original size:126 final size:126
Alignment explanation
Indices: 48144736--48144987 Score: 495
Period size: 126 Copynumber: 2.0 Consensus size: 126
48144726 ACGAAAGATA
48144736 TATGATATAAATTGATAAATGAAGTATAATTCAAATTATTCTTATAATAATGTTAAAAGTTAAAA
1 TATGATATAAATTGATAAATGAAGTATAATTCAAATTATTCTTATAATAATGTTAAAAGTTAAAA
48144801 TGTTAAAAATATTCATACAATAGTCTAAGATGGCGGATTTTGCGATTGCTGAAACATCTTC
66 TGTTAAAAATATTCATACAATAGTCTAAGATGGCGGATTTTGCGATTGCTGAAACATCTTC
*
48144862 TATGATATAAATTTATAAATGAAGTATAATTCAAATTATTCTTATAATAATGTTAAAAGTTAAAA
1 TATGATATAAATTGATAAATGAAGTATAATTCAAATTATTCTTATAATAATGTTAAAAGTTAAAA
48144927 TGTTAAAAATATTCATACAATAGTCTAAGATGGCGGATTTTGCGATTGCTGAAACATCTTC
66 TGTTAAAAATATTCATACAATAGTCTAAGATGGCGGATTTTGCGATTGCTGAAACATCTTC
48144988 ATCAAATTCT
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 125 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (126 bp):
TATGATATAAATTGATAAATGAAGTATAATTCAAATTATTCTTATAATAATGTTAAAAGTTAAAA
TGTTAAAAATATTCATACAATAGTCTAAGATGGCGGATTTTGCGATTGCTGAAACATCTTC
Found at i:48150397 original size:29 final size:29
Alignment explanation
Indices: 48150364--48150424 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
48150354 ATTTATAAAT
48150364 TTGATACATTAATATGACATTATTTTTAA
1 TTGATACATTAATATGACATTATTTTTAA
*
48150393 TTGATACATTAATATGACATTATTTTTCA
1 TTGATACATTAATATGACATTATTTTTAA
48150422 TTG
1 TTG
48150425 TTAGAATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.49
Consensus pattern (29 bp):
TTGATACATTAATATGACATTATTTTTAA
Done.