Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 161 of 218
Found at i:48863861 original size:3 final size:3
Alignment explanation
Indices: 48863814--48863895 Score: 60
Period size: 3 Copynumber: 27.0 Consensus size: 3
48863804 TTTAGCATTT
* * * * *
48863814 TTA TTA TT- TTC TTCA TTA TTT TTA ATA -TA TTA TCA TCTT TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* *
48863859 TTA TTG TTG TTA TTA TTA GTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
48863896 GTTCTTCATC
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
2 4 0.06
3 54 0.84
4 6 0.09
ACGTcount: A:0.27, C:0.05, G:0.04, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:48863881 original size:19 final size:19
Alignment explanation
Indices: 48863853--48863898 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
48863843 TTATCATCTT
* *
48863853 TTATTA-TTATTGTTGTTA
1 TTATTAGTTATTATTATTA
48863871 TTATTAGTTATTATTATTA
1 TTATTAGTTATTATTATTA
48863890 TTATTAGTT
1 TTATTAGTT
48863899 CTTCATCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (19 bp):
TTATTAGTTATTATTATTA
Found at i:48864538 original size:110 final size:109
Alignment explanation
Indices: 48864406--48864697 Score: 437
Period size: 110 Copynumber: 2.7 Consensus size: 109
48864396 ATATTTGGCA
*
48864406 TTTGGAAATTTGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAG
* *
48864471 CTTAATATCCTTTTCAAAAATTTCAAAATATGGCAATGTTTTGCG
66 CTAAATATCC-TTTCAAAAATTTCAAAATAAGGCAATGTTTTGCG
* * * *
48864516 TTTGGAAATTCGAGAAAACATGCCCTAAAGTGCTGGGTGTTGGTTTTTCTCGCTCAACCAAATAG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAG
48864581 CTAAATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCG
66 CTAAATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCG
* * * * *
48864625 TTTGGAAATTCGAG-TAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCTCGTTTAACCAAATTG
1 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAG
*
48864687 CCAAATATCCT
66 CTAAATATCCT
48864698 CTTGAATTTT
Statistics
Matches: 165, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
106 27 0.16
108 22 0.13
109 47 0.28
110 69 0.42
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (109 bp):
TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAG
CTAAATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCG
Found at i:48868021 original size:17 final size:18
Alignment explanation
Indices: 48867999--48868035 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
48867989 TTATTCTTTT
48867999 ATTCTTTCATCCA-AATC
1 ATTCTTTCATCCATAATC
*
48868016 ATTCTTTCATTCATAATC
1 ATTCTTTCATCCATAATC
48868034 AT
1 AT
48868036 ACTGTGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTCTTTCATCCATAATC
Found at i:48868797 original size:7 final size:6
Alignment explanation
Indices: 48868751--48868795 Score: 56
Period size: 6 Copynumber: 7.3 Consensus size: 6
48868741 CAAAAATAGG
*
48868751 AGAAAA AGAAAGA AGAAAAA AGAAAA A-AAAA AGAAAA GGAAAA AG
1 AGAAAA AGAAA-A AG-AAAA AGAAAA AGAAAA AGAAAA AGAAAA AG
48868796 GAGAGGTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 5 0.15
6 20 0.59
7 6 0.18
8 3 0.09
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:48869624 original size:10 final size:10
Alignment explanation
Indices: 48869597--48869633 Score: 56
Period size: 10 Copynumber: 3.5 Consensus size: 10
48869587 TGAGTCAAAC
48869597 AAAAAAAATG
1 AAAAAAAATG
48869607 AATGAAAAAATG
1 AA--AAAAAATG
48869619 AAAAAAAATG
1 AAAAAAAATG
48869629 AAAAA
1 AAAAA
48869634 GTAAAAATGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 15 0.60
12 10 0.40
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:48869751 original size:21 final size:22
Alignment explanation
Indices: 48869725--48869772 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
48869715 GCTCAAATAT
48869725 TGATCAGAAT-GGGGCACGAAG
1 TGATCAGAATAGGGGCACGAAG
* * *
48869746 TGATCAGATTAGGGGCATGTAG
1 TGATCAGAATAGGGGCACGAAG
48869768 TGATC
1 TGATC
48869773 TTGCTATACC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.23
Consensus pattern (22 bp):
TGATCAGAATAGGGGCACGAAG
Found at i:48871016 original size:88 final size:88
Alignment explanation
Indices: 48870854--48871456 Score: 922
Period size: 88 Copynumber: 6.9 Consensus size: 88
48870844 AATGAAGTTG
* * * *
48870854 CAGATCTTGCCTTCCTGCATTGACAACGAAGTAGGTCGAAGATACAAACCTTGCCTCTCTCGATT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
* *
48870919 GT-AGCGGAGCTGGTTCAAGACAA
66 GTGA-TGGAGCTGGTTGAAGACAA
* * *
48870942 CGGATCTTGCCTTCCTGCATTGACAGCAAAGCAGGTCGAAGACACAAACCTTGCCTCTCTTGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
48871007 GTGATGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
*
48871030 TAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
48871095 GTGATGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
* * *
48871118 AAGATCTTGCCTTCCTGTATTGACAGCGAAGTAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
*
48871183 GTGATGGAGCTAGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
* *
48871206 CAGATCTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
*
48871271 GTGATGGAGCTAGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
* * * *
48871294 CAAATCTTGTCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
*
48871359 GTGGTGGAGCTGGTTGAAGACAA
66 GTGATGGAGCTGGTTGAAGACAA
* * * * * *
48871382 AAGATCTTGCCTTCCTTCATTAACAGCGAAGCAGATCGAAGACACAAGCCTTGCCTCCCTCGGTT
1 CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
48871447 GT-AGTGGAGC
66 GTGA-TGGAGC
48871457 AGATCAAAGA
Statistics
Matches: 476, Mismatches: 37, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
88 475 1.00
89 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTT
GTGATGGAGCTGGTTGAAGACAA
Found at i:48871337 original size:45 final size:44
Alignment explanation
Indices: 48870859--48871437 Score: 219
Period size: 44 Copynumber: 13.2 Consensus size: 44
48870849 AGTTGCAGAT
* * * * *
48870859 CTTGCCTTCCTGCATTGACAACGAAGTAGGTCGAAGATACAAAC
1 CTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * * * ** *
48870903 CTTGCCTCTCTCG-ATTG-TAGCGGAGCTGGTTC-AAGACAACGGAT
1 CTTGCCT-TCTTGCATTGACAGCGAAGC-AGATCGAAGAC-ACAAAC
* * *
48870947 CTTGCCTTCCTGCATTGACAGCAAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
** * * * * *
48870991 CTTGCCTCTCTTGGTTGTGA-TG-G-AGCTGGTTGAAGACA-ATAGAT
1 CTTGCCT-TCTTGCAT-TGACAGCGAAGCAGATCGAAGACACA-A-AC
* *
48871035 CTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAAC
1 CTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* ** * * * * * *
48871079 CTTGCCTCTCTCGGTTGTGA-TG-G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCT-TCTTGCAT-TGACAGCGAAGCAGATCGAAGACACAA-AC
* * * *
48871123 CTTGCCTTCCTGTATTGACAGCGAAGTAGGTCGAAGACACAAAC
1 CTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* ** * * * *
48871167 CTTGCCTCTCTCGGTTGTGA-TG-G-AGCTAG-TTGAAGACAACAGAT
1 CTTGCCT-TCTTGCAT-TGACAGCGAAGC-AGATCGAAGAC-ACAAAC
* *
48871211 CTTGCCTTCCTACATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* ** * * *
48871255 CTTGCCTCTCTCGGTTGTGA-TG-G-AGCTAG-TTGAAGACAACAAAT
1 CTTGCCT-TCTTGCAT-TGACAGCGAAGC-AGATCGAAGAC-ACAAAC
*
48871299 CTTGTCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * ** * * * * * * *
48871343 CTTGCCTCTCTCG-GTTG-TGGTGGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCT-TCTTGCATTGACAGCGAAGCAGATCGAAGACACAA-AC
* *
48871387 CTTGCCTTCCTT-CATTAACAGCGAAGCAGATCGAAGACACAAGC
1 CTTGCCTT-CTTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
48871431 CTTGCCT
1 CTTGCCT
48871438 CCCTCGGTTG
Statistics
Matches: 380, Mismatches: 114, Indels: 82
0.66 0.20 0.14
Matches are distributed among these distances:
42 13 0.03
43 98 0.26
44 154 0.41
45 102 0.27
46 13 0.03
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCTTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:48871695 original size:132 final size:132
Alignment explanation
Indices: 48871447--48871727 Score: 411
Period size: 132 Copynumber: 2.1 Consensus size: 132
48871437 TCCCTCGGTT
* *
48871447 GTAGTGGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAACACAGTGGAGAAGCAGATTTAAGC
1 GTAGTGGAGCAGATCAAAGATGGTGAATATTATCTTCCCAACACAATGGAGAAGCAGATTTAAGC
* ** * *
48871512 CATTGGTCCTATCACCCTAAGCAATAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCAC-TCTAA
66 CATTAGTCCTATCACCCTAAGCAATAGTGGAGTAGGTCAAAGACTGCAGATTCTATCACAT-TAA
48871576 GCA
130 GCA
* * * *
48871579 GTAGTGGGGCAGATCGAAGATGGTGAATATTATTTTCCCAATACAATGGAGAAGCAGATTTAAGC
1 GTAGTGGAGCAGATCAAAGATGGTGAATATTATCTTCCCAACACAATGGAGAAGCAGATTTAAGC
* * * *
48871644 CATTAGTCCTATCACCTTAAGCAGTAGTGGAGTAGGTCAAAGACTGTAGATTCTATCCCATTAAG
66 CATTAGTCCTATCACCCTAAGCAATAGTGGAGTAGGTCAAAGACTGCAGATTCTATCACATTAAG
48871709 CA
131 CA
48871711 GTAGTGGAGCAGATCAA
1 GTAGTGGAGCAGATCAA
48871728 CAATACGAAT
Statistics
Matches: 131, Mismatches: 17, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
132 130 0.99
133 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (132 bp):
GTAGTGGAGCAGATCAAAGATGGTGAATATTATCTTCCCAACACAATGGAGAAGCAGATTTAAGC
CATTAGTCCTATCACCCTAAGCAATAGTGGAGTAGGTCAAAGACTGCAGATTCTATCACATTAAG
CA
Found at i:48873160 original size:3 final size:3
Alignment explanation
Indices: 48873113--48873192 Score: 65
Period size: 3 Copynumber: 26.7 Consensus size: 3
48873103 TTTAGCATTT
* * * * *
48873113 TTA TTA TT- TTC TTCA TTA TTT TTA ATA -TA TTA TCA TCTT TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* *
48873158 TTA TTT TTG TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48873193 TCTTCATCTA
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
2 4 0.06
3 55 0.89
4 3 0.05
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:48873546 original size:22 final size:22
Alignment explanation
Indices: 48873505--48873569 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 22
48873495 TTTATTGTTT
* *
48873505 TTTATGTTCATTTATGTATTTA-
1 TTTA-GTTTATTTATTTATTTAC
*
48873527 TTTATGTGTTCTTT-TTTATTTAC
1 TTTA-GT-TTATTTATTTATTTAC
48873550 TTTAGTTTATTTATTTATTT
1 TTTAGTTTATTTATTTATTT
48873570 GCTATGATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 5 0.14
22 23 0.64
23 8 0.22
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.69
Consensus pattern (22 bp):
TTTAGTTTATTTATTTATTTAC
Found at i:48873875 original size:111 final size:111
Alignment explanation
Indices: 48873677--48873991 Score: 499
Period size: 111 Copynumber: 2.8 Consensus size: 111
48873667 TCAAAAAAGG
** * * *
48873677 AAAATTTTTCCAAATGAGGCAATATTTAGCCTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
1 AAAATTTTTTAAAATAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
48873742 GGGTGTCGTTTTTTCTCGTTCAACCAAATGGCTTAATAACCTTTTA
66 GGGTGTCGTTTTTTCTCGTTCAACCAAATGGCTTAATAACCTTTTA
* * *
48873788 AAAATTTTTTAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAAAAAACATGCCCTAAGGTGCT
1 AAAATTTTTTAAAATAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
* * *
48873853 GGGTGTCGTTTTTTCTCATTCAATCAAATGGCTTAATATCCTTTTA
66 GGGTGTCGTTTTTTCTCGTTCAACCAAATGGCTTAATAACCTTTTA
48873899 AAAA--TTTTAAAATAAGGCAATATTTTGCATTTAGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 AAAATTTTTTAAAATAAGGCAATATTTTGCATTT-GGAAATTCGAGAAAACATGCCCTAAGGTGC
*
48873962 TGGGTGTCGATTTTTCTCGTTCAACCAAAT
65 TGGGTGTCGTTTTTTCTCGTTCAACCAAAT
48873992 TGCCAAATAT
Statistics
Matches: 187, Mismatches: 16, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
109 26 0.14
110 56 0.30
111 105 0.56
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (111 bp):
AAAATTTTTTAAAATAAGGCAATATTTTGCATTTGGAAATTCGAGAAAACATGCCCTAAGGTGCT
GGGTGTCGTTTTTTCTCGTTCAACCAAATGGCTTAATAACCTTTTA
Found at i:48876030 original size:34 final size:34
Alignment explanation
Indices: 48875992--48876060 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
48875982 TAAAATCATC
*
48875992 AATTAAGTGAAATAGTGAATCACCATGTATTTTT
1 AATTAAGTGAAATAGTGAACCACCATGTATTTTT
*
48876026 AATTAGGTGAAATAGTGAACCACCATGTATTTTT
1 AATTAAGTGAAATAGTGAACCACCATGTATTTTT
48876060 A
1 A
48876061 GTTTCTATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (34 bp):
AATTAAGTGAAATAGTGAACCACCATGTATTTTT
Found at i:48881507 original size:13 final size:13
Alignment explanation
Indices: 48881489--48881515 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
48881479 AATTGATATG
48881489 TGTGAAAATTTTA
1 TGTGAAAATTTTA
48881502 TGTGAAAATTTTA
1 TGTGAAAATTTTA
48881515 T
1 T
48881516 CGTTTGTGTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TGTGAAAATTTTA
Found at i:48882820 original size:43 final size:42
Alignment explanation
Indices: 48882685--48882833 Score: 115
Period size: 42 Copynumber: 3.5 Consensus size: 42
48882675 ATTGTGATAT
* * *
48882685 CATGTAAGACCATGTTTGGGAC-GTTGGCATCG-ATTTGAAATTTA
1 CATGTAAGACCCTGTCTGGGACAG-TGGCATCGTATATG--A-TTA
* * * * *
48882729 CATGTAAGACCATGCCTGAGACATTGGCGTCGTATATGATTA
1 CATGTAAGACCCTGTCTGGGACAGTGGCATCGTATATGATTA
** * *
48882771 TGTGTAAGACCCTGTCTGGGACAGTGGTATCGTTATTTGATTA
1 CATGTAAGACCCTGTCTGGGACAGTGGCATCG-TATATGATTA
48882814 CATGTAAGACCAC-GTCTGGG
1 CATGTAAGACC-CTGTCTGGG
48882834 CCGTTGGCAT
Statistics
Matches: 84, Mismatches: 17, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
42 27 0.32
43 26 0.31
44 27 0.32
45 4 0.05
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
CATGTAAGACCCTGTCTGGGACAGTGGCATCGTATATGATTA
Found at i:48884609 original size:13 final size:13
Alignment explanation
Indices: 48884591--48884615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48884581 ACAAACGATA
48884591 AAATTTTCACACG
1 AAATTTTCACACG
48884604 AAATTTTCACAC
1 AAATTTTCACAC
48884616 ATATCAATTC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:48886063 original size:41 final size:41
Alignment explanation
Indices: 48886006--48886185 Score: 288
Period size: 41 Copynumber: 4.4 Consensus size: 41
48885996 ATATTCACTA
*
48886006 GCACTTAGCTTGCTAGGTTTATAACCTGATTCAGATCACCG
1 GCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCG
* * *
48886047 GCACTTAGCCTACTAGGTTTTTAACTTGATTCAGATCACCG
1 GCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCG
*
48886088 GCACTTAGCTTGCTAGGTTTATAACCTGATTCAGATCACCG
1 GCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCG
* *
48886129 GCACTTAGCCTGCTAGGTTTAGAACCTGATTTAGATCACCG
1 GCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCG
*
48886170 ACACTTAGCCTGCTAG
1 GCACTTAGCCTGCTAG
48886186 ACTTAAAGTC
Statistics
Matches: 127, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 127 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (41 bp):
GCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCG
Found at i:48886209 original size:41 final size:41
Alignment explanation
Indices: 48886176--48886254 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
48886166 ACCGACACTT
* * *
48886176 AGCCTGCTAGACTTAAAGTCCGAATTATTTCACCAGCATCA
1 AGCCTACTAGACATAAAGTCCGAAGTATTTCACCAGCATCA
* *
48886217 AGCCTACTAGACATAAAGTCTGAAGTATTTCACTAGCA
1 AGCCTACTAGACATAAAGTCCGAAGTATTTCACCAGCA
48886255 ATAAATCCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (41 bp):
AGCCTACTAGACATAAAGTCCGAAGTATTTCACCAGCATCA
Found at i:48887998 original size:28 final size:28
Alignment explanation
Indices: 48887967--48888023 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 28
48887957 TATGTTTGTT
48887967 TTTATTATTATAA-CTTTATAATATATTA
1 TTTATTATTATAACCTTTATAAT-TATTA
48887995 TTTATTATTATAACCTTTATAATTATTA
1 TTTATTATTATAACCTTTATAATTATTA
48888023 T
1 T
48888024 AAAAACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTATTATTATAACCTTTATAATTATTA
Found at i:48888013 original size:15 final size:14
Alignment explanation
Indices: 48887967--48888020 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
48887957 TATGTTTGTT
*
48887967 TTTATTATTATAAC
1 TTTATAATTATAAC
*
48887981 TTTATAATATATTA-
1 TTTATAAT-TATAAC
*
48887995 TTTATTATTATAACC
1 TTTATAATTATAA-C
48888010 TTTATAATTAT
1 TTTATAATTAT
48888021 TATAAAAACT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.12
14 14 0.44
15 14 0.44
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (14 bp):
TTTATAATTATAAC
Found at i:48888232 original size:14 final size:15
Alignment explanation
Indices: 48888215--48888243 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48888205 TTACGAAAAT
48888215 TTCACACAT-ATAAA
1 TTCACACATAATAAA
48888229 TTCACACATAATAAA
1 TTCACACATAATAAA
48888244 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:48895858 original size:49 final size:48
Alignment explanation
Indices: 48895759--48895933 Score: 158
Period size: 49 Copynumber: 3.6 Consensus size: 48
48895749 CTCCCAATTC
* * * * * *
48895759 ACGGTGGTTATACGGTCAC-AGGTTGAAGCATAAATAGAGCGCCCAATTG
1 ACGGTGGTTATACAGTCACGA-GTTCAAGTATAACTCGAGC-CCCAGTTG
48895808 ACGGTGGTTATACAGTCACGAGTTCAAGTATAACTCGAGCCCCTAGTTG
1 ACGGTGGTTATACAGTCACGAGTTCAAGTATAACTCGAGCCCC-AGTTG
* * * * *
48895857 ACAGTGGTTATGCAATCATG-GATTCAAGTATAACTCG-GCCCCCGATTG
1 ACGGTGGTTATACAGTCACGAG-TTCAAGTATAACTCGAGCCCCAG-TTG
* * *
48895905 ACGGTGGTTATGCGGTCGCGAGTTCAAGT
1 ACGGTGGTTATACAGTCACGAGTTCAAGT
48895934 TTCATGCTAC
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
47 1 0.01
48 34 0.32
49 69 0.66
50 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (48 bp):
ACGGTGGTTATACAGTCACGAGTTCAAGTATAACTCGAGCCCCAGTTG
Found at i:48896524 original size:49 final size:50
Alignment explanation
Indices: 48896445--48896558 Score: 151
Period size: 49 Copynumber: 2.3 Consensus size: 50
48896435 GTGGCATGAA
* *
48896445 ACTTGAACTCGTGA-TCGCATAATCACCGTCAACTGGGGGCCCGAGTTAT
1 ACTTGAACTCGTGACTCGCATAACCACCGTCAACTGGGCGCCCGAGTTAT
* * * *
48896494 ACTTGAACCCGTGACT-GCATAACCATCGTCAACTGGGCGTCCTAGTTAT
1 ACTTGAACTCGTGACTCGCATAACCACCGTCAACTGGGCGCCCGAGTTAT
*
48896543 ACTTCAACTCGTGACT
1 ACTTGAACTCGTGACT
48896559 ATATAATCAC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
49 55 0.98
50 1 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (50 bp):
ACTTGAACTCGTGACTCGCATAACCACCGTCAACTGGGCGCCCGAGTTAT
Found at i:48898570 original size:39 final size:39
Alignment explanation
Indices: 48898366--48898588 Score: 232
Period size: 40 Copynumber: 5.6 Consensus size: 39
48898356 TTGAATGCTG
* * * * * *
48898366 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * *
48898406 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
*
48898446 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* **
48898486 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACTAAA
* *
48898526 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
48898565 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48898589 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 20, Indels: 11
0.84 0.11 0.06
Matches are distributed among these distances:
39 39 0.25
40 109 0.69
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:48898608 original size:79 final size:80
Alignment explanation
Indices: 48898441--48898623 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
48898431 GTGCGAGATA
* * *
48898441 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
48898506 CAGTCGTGCGAGTTG
66 CAGTCGAACGAGGAG
* * * *
48898521 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
48898585 CATTTGAACGAGGAG
66 CAGTCGAACGAGGAG
* *
48898600 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
48898624 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CAGTCGAACGAGGAG
Found at i:48906367 original size:40 final size:39
Alignment explanation
Indices: 48906323--48906505 Score: 188
Period size: 39 Copynumber: 4.6 Consensus size: 39
48906313 AAGTGAATAT
* * *
48906323 ATCCGGATTAAGATCCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCGAAGGCATTCGTGCGAGATACTAA
* *
48906363 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGATACTAA
* * **
48906403 ATCCGGGTTAAGTCCGAAGGCAGTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGATACTAA
* * *
48906442 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGT-CCGAAGGCATTCGTGCGAGATACTAA
* * *
48906481 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGT-CCGAAGGCATT
48906506 TGAACGAGGA
Statistics
Matches: 127, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 71 0.56
40 56 0.44
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (39 bp):
ATCCGGGTTAAGTCCGAAGGCATTCGTGCGAGATACTAA
Found at i:48906431 original size:39 final size:40
Alignment explanation
Indices: 48906284--48906505 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
48906274 TTGAATGCTG
* * * * * *
48906284 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
48906324 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
48906364 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
48906404 TCCGGGTTAAGT-CCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
48906443 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
48906482 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48906506 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 21, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
39 71 0.45
40 78 0.50
41 8 0.05
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:48906449 original size:79 final size:78
Alignment explanation
Indices: 48906284--48906503 Score: 233
Period size: 79 Copynumber: 2.8 Consensus size: 78
48906274 TTGAATGCTG
* * * * * * ** *
48906284 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGTTAAG-TCCGAAGGCAGTC
48906349 GTGCGAGATACTAAA
64 GTGCGAGATACTAAA
*
48906364 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGCAGTCG
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGTTAAGTCCGAAGGCAGTCG
* **
48906429 TGCGAGTTGTTAAA
65 TGCGAGATACTAAA
* * * * * *
48906443 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGT-CCGAAGGCA
48906504 TTTGAACGAG
Statistics
Matches: 119, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
78 22 0.18
79 54 0.45
80 39 0.33
81 4 0.03
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGTTAAGTCCGAAGGCAGTCGT
GCGAGATACTAAA
Found at i:48906525 original size:79 final size:79
Alignment explanation
Indices: 48906359--48906540 Score: 206
Period size: 79 Copynumber: 2.3 Consensus size: 79
48906349 GTGCGAGATA
* * *
48906359 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCGAAGGC
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGC
** **
48906424 AGTCGTGCGAGTTG
66 AGTCGAACGAGGAG
* * * *
48906438 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGT-CCGAAGG
* *
48906502 CATTTGAACGAGGAG
65 CAGTCGAACGAGGAG
* *
48906517 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
48906541 TACGTGATTT
Statistics
Matches: 85, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
78 36 0.42
79 49 0.58
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (79 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCGAAGGC
AGTCGAACGAGGAG
Found at i:48914447 original size:29 final size:29
Alignment explanation
Indices: 48914388--48914449 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
48914378 TTTTTATATC
** *
48914388 ATAAAAAATTAAAATCGATTATATATTAA
1 ATAAAAAATTAAAATAAATTAAATATTAA
*
48914417 ATAAAAAATTAAATTAAATTAAAT-TTCAA
1 ATAAAAAATTAAAATAAATTAAATATT-AA
48914446 ATAA
1 ATAA
48914450 TCCAAATATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (29 bp):
ATAAAAAATTAAAATAAATTAAATATTAA
Found at i:48916656 original size:60 final size:60
Alignment explanation
Indices: 48916560--48916684 Score: 169
Period size: 60 Copynumber: 2.1 Consensus size: 60
48916550 AGTCAGTCTT
* * * * *
48916560 CTATTAGTAAATTTCTTTCTTGATCATTCTATTATGAAAAGTTACAAAATGATCACCCAA
1 CTATTAGTAAATTTCTTTCTTGATCACTCAACTATGAAAAGTCACAAAATGACCACCCAA
* * * *
48916620 CTATTAGTAAATTTCTTTTTTGATCACTCAACTATGAAAAGTCATAAAATGGCCATCCAA
1 CTATTAGTAAATTTCTTTCTTGATCACTCAACTATGAAAAGTCACAAAATGACCACCCAA
48916680 CTATT
1 CTATT
48916685 CAATTTTGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (60 bp):
CTATTAGTAAATTTCTTTCTTGATCACTCAACTATGAAAAGTCACAAAATGACCACCCAA
Found at i:48917488 original size:17 final size:18
Alignment explanation
Indices: 48917466--48917503 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
48917456 GTGCATCAAA
*
48917466 TTTTCTC-CATCAATTCT
1 TTTTCTCTCATAAATTCT
48917483 TTTTCTCTCATAAATTCT
1 TTTTCTCTCATAAATTCT
48917501 TTT
1 TTT
48917504 CTAGTTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.18, C:0.24, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTCTCTCATAAATTCT
Found at i:48923172 original size:21 final size:22
Alignment explanation
Indices: 48923132--48923173 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
48923122 AAATTGGTTT
* *
48923132 ATTAAAATTGTAAAATATAACC
1 ATTAAAAATGTAAAACATAACC
48923154 ATTAAAAAT-TAAAACATAAC
1 ATTAAAAATGTAAAACATAAC
48923174 TAGTAAACAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.60, C:0.10, G:0.02, T:0.29
Consensus pattern (22 bp):
ATTAAAAATGTAAAACATAACC
Found at i:48930388 original size:13 final size:13
Alignment explanation
Indices: 48930370--48930405 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
48930360 TTTAAGACCC
*
48930370 TAAATATTTTTAT
1 TAAATATTTATAT
48930383 TAAATATTTATAT
1 TAAATATTTATAT
48930396 TAAATATTTA
1 TAAATATTTA
48930406 CAGAGTCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAAATATTTATAT
Found at i:48935467 original size:43 final size:43
Alignment explanation
Indices: 48935410--48935555 Score: 179
Period size: 43 Copynumber: 3.4 Consensus size: 43
48935400 ATTGATTTGA
* * *
48935410 GATTTACGTGTAAGACCATGTCTGGGACATTGGCGTCGTATAT
1 GATTTACGTGTAAGACCATGTCTAGGACACTGGCATCGTATAT
* *
48935453 GATTAACGTGTAAGACCATGTCTAGAACACTGGCATCGTATAT
1 GATTTACGTGTAAGACCATGTCTAGGACACTGGCATCGTATAT
* * *
48935496 GATTTACGTGTAAGACTC-TGTCTAGGACAGTGACATCGATATTT
1 GATTTACGTGTAAGAC-CATGTCTAGGACACTGGCATCG-TATAT
*
48935540 GA-TTACATGTAAGACC
1 GATTTACGTGTAAGACC
48935556 TCTTTTGGGA
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.01
43 82 0.91
44 7 0.08
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTAGGACACTGGCATCGTATAT
Found at i:48937839 original size:43 final size:43
Alignment explanation
Indices: 48937778--48937862 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
48937768 CACGACATTC
48937778 TTAGTCCTCGAGAATAAGCTTGTCTTTTGATTTCCAAAACTTT
1 TTAGTCCTCGAGAATAAGCTTGTCTTTTGATTTCCAAAACTTT
48937821 TTAGTCCTCGAGAATAAGCTTGTCTTTTGATTTCCAAAACTT
1 TTAGTCCTCGAGAATAAGCTTGTCTTTTGATTTCCAAAACTT
48937863 GTGCGGTGAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.41
Consensus pattern (43 bp):
TTAGTCCTCGAGAATAAGCTTGTCTTTTGATTTCCAAAACTTT
Found at i:48939220 original size:3 final size:3
Alignment explanation
Indices: 48939165--48939241 Score: 50
Period size: 3 Copynumber: 26.0 Consensus size: 3
48939155 TATATAAACG
* * * * * *
48939165 AAT AAT -AT AAT AGT AAT AGT AAA AAT ATT GAT AAT AAT GAA- AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * *
48939209 AGT AGT AAT AAT AAT AAT GAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48939242 TAAAAATATT
Statistics
Matches: 57, Mismatches: 14, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
2 3 0.05
3 52 0.91
4 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48940105 original size:28 final size:28
Alignment explanation
Indices: 48940053--48940106 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
48940043 TCTTTTCCTA
*
48940053 TTTTCTTTTTGTTGCTCTTTTTTTGTTT
1 TTTTCTTTTTGTTGCTCTTTGTTTGTTT
48940081 TTTTCTTTGTT-TTGCTGC-TTGTTTGT
1 TTTTCTTT-TTGTTGCT-CTTTGTTTGT
48940107 GTGTTTGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.00, C:0.11, G:0.15, T:0.74
Consensus pattern (28 bp):
TTTTCTTTTTGTTGCTCTTTGTTTGTTT
Found at i:48940360 original size:19 final size:18
Alignment explanation
Indices: 48940336--48940382 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
48940326 GACTATTTAA
* *
48940336 TTTTTTATTTGGTTTATAT
1 TTTTTTATTTGATTT-GAT
48940355 TTTTTTATTTTGATTTGAT
1 TTTTTTA-TTTGATTTGAT
48940374 TTTTTTATT
1 TTTTTTATT
48940383 ACGGGCCTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 16 0.64
20 7 0.28
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.77
Consensus pattern (18 bp):
TTTTTTATTTGATTTGAT
Found at i:48941271 original size:26 final size:27
Alignment explanation
Indices: 48941242--48941300 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
48941232 TTCACAATTC
48941242 AAAATAACATTT-A-TAAAATAATATAT
1 AAAATAACATTTAACTAAAATAA-ATAT
* *
48941268 AAAAT-ATATTTAACTAAATTAAATAT
1 AAAATAACATTTAACTAAAATAAATAT
48941294 AAAATAA
1 AAAATAA
48941301 TTTTTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 5 0.18
26 15 0.54
27 8 0.29
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (27 bp):
AAAATAACATTTAACTAAAATAAATAT
Found at i:48941317 original size:26 final size:26
Alignment explanation
Indices: 48941257--48941317 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
48941247 AACATTTATA
*
48941257 AAATAATATATAAAATATATTTAACT
1 AAATAAAATATAAAATATATTTAACT
* *
48941283 AAATTAAATATAAAATAATTTTTAA-T
1 AAATAAAATATAAAAT-ATATTTAACT
*
48941309 ATATAAAAT
1 AAATAAAAT
48941318 GTCATAAATA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
AAATAAAATATAAAATATATTTAACT
Found at i:48966514 original size:155 final size:154
Alignment explanation
Indices: 48966168--48966796 Score: 700
Period size: 155 Copynumber: 4.1 Consensus size: 154
48966158 GGATGTTGCA
* * * **
48966168 AAAATTGTATAGGAAGATCATTTACAAGTTTAATTATGTAATGTTATTTAATATTTCAAGA-T-T
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTT-TTTAATAAGTCAAGATTAT
* * * *
48966231 -ACTGAATTTCAACCCTTCCAAGAAAAATTATGAAATTTGCTCATTGCCAAATAG-TTAGGGTTT
65 AATTGAATTTCAACCCTTCCAAG-AAAATTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTTT
* *
48966294 ACCCTAATTTGTATAGCTATGTGGTG
129 ACCCTAATTTGTATAACTATGTTGTG
* * * * *
48966320 GAAGTTGTATAGGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATAAGTCTAGATCATA
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATAAGTCAAGATTATA
* *
48966385 ATTGAATTTCAACCCTTCCAAGAAAGCTTATGGAATTTTCCCATTGCCAAATAGTTTAGAGTTTA
66 ATTGAATTTCAACCCTTCCAAGAAA-ATTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTTTA
* * **
48966450 CCCTTATTTGTATAATTACATTGTG
130 CCCTAATTTGTATAACTATGTTGTG
* **
48966475 GAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTCATTAA-ACATGTCAAGATTA
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATA-A-GTCAAGATTA
* * * *
48966539 TAATTGAATTTTAACCCTT--AAAAAAAGTTATGGAATTTTCCCATTGCTAAATAGTTTAGGATT
64 TAATTGAATTTCAACCCTTCCAAGAAAA-TTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTT
* * *
48966602 TACCC-AATTTTTATAGCTATGTTATG
128 TACCCTAATTTGTATAACTATGTTGTG
* ** * * *
48966628 AAAATTGTATATGAAGTAAATTTACAAGTTTGATTATGTAATATAATTTAATACG-CTAAGATTA
1 AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGT-TTTTAATAAGTC-AAGATTA
* * * ** *
48966692 TAATTGAATTTCGACCCTTCTAAGAAAATTTATAGAATTCACCCATGGCCAAATAGTTTAGGGTT
64 TAATTGAATTTCAACCCTTCCAAGAAAA-TTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTT
* *
48966757 TACCCTAATTTGTATAATTGTGTTGTG
128 TACCCTAATTTGTATAACTATGTTGTG
48966784 AAAATTGTATAAG
1 AAAATTGTATAAG
48966797 TTTGATTAAA
Statistics
Matches: 400, Mismatches: 63, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
151 12 0.03
152 42 0.10
153 82 0.20
154 93 0.23
155 117 0.29
156 54 0.14
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (154 bp):
AAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTTTTTAATAAGTCAAGATTATA
ATTGAATTTCAACCCTTCCAAGAAAATTATGGAATTTTCCCATTGCCAAATAGTTTAGGGTTTAC
CCTAATTTGTATAACTATGTTGTG
Found at i:48966760 original size:309 final size:306
Alignment explanation
Indices: 48966168--48966796 Score: 798
Period size: 309 Copynumber: 2.0 Consensus size: 306
48966158 GGATGTTGCA
* * * * *
48966168 AAAATTGTATAGGAAGATCATTTACAAGTTTAATTATGTAATGTTATTTAATATTTCAAGATTAC
1 AAAATTGTATAAGAAGATCATTTACAAGTTTAATTATGTAATGTCATTAAACATGTCAAGATTAC
* *
48966233 TGAATTTCAACCCTTCCAAGAAAAATTATGAAATTTGCTCATTGCCAAATAGTTAGGGTTTACCC
66 TGAATTTCAACCCTT-CAAGAAAAATTATGAAATTTGCCCATTGCCAAATAGTTAGGATTTACCC
* * * ** *
48966298 TAATTTGTATAGCTATGTGGTGGAAGTTGTATAGGAAGTTCATTTACAAGTTTGATTATGTAATG
130 TAATTTGTATAGCTATGTGATGAAAATTGTATAGGAAGTAAATTTACAAGTTTGATTATGTAATA
* * * **
48966363 TTTTTAATAAGTCTAGATCATAATTGAATTTCAACCCTTCCAAGAAAGCTTATGGAATTTTCCCA
195 TATTTAATAAGTCTAGATCATAATTGAATTTCAACCCTTCCAAGAAAACTTATAGAATTCACCCA
* *
48966428 TTGCCAAATAGTTTAGAGTTTACCCTTATTTGTATAATTACATTGTG
260 TGGCCAAATAGTTTAGAGTTTACCCTAATTTGTATAATTACATTGTG
* * *
48966475 GAAATTGTATAAGAAGTTCATTTACAAGTTTGATTATGTAATGTCATTAAACATGTCAAGATTAT
1 AAAATTGTATAAGAAGATCATTTACAAGTTTAATTATGTAATGTCATTAAACATGTCAAGA-T-T
* * * * *
48966540 AATTGAATTTTAACCCTT-AA-AAAAAGTTATGGAATTTTCCCATTGCTAAATAGTTTAGGATTT
64 -ACTGAATTTCAACCCTTCAAGAAAAA-TTATGAAATTTGCCCATTGCCAAATAG-TTAGGATTT
* * *
48966603 ACCC-AATTTTTATAGCTATGTTATGAAAATTGTATATGAAGTAAATTTACAAGTTTGATTATGT
126 ACCCTAATTTGTATAGCTATGTGATGAAAATTGTATAGGAAGTAAATTTACAAGTTTGATTATGT
* * * * *
48966667 AATATAATTTAATACG-CTAAGATTATAATTGAATTTCGACCCTTCTAAGAAAATTTATAGAATT
191 AATAT-ATTTAATAAGTCT-AGATCATAATTGAATTTCAACCCTTCCAAGAAAACTTATAGAATT
* ***
48966731 CACCCATGGCCAAATAGTTTAGGGTTTACCCTAATTTGTATAATTGTGTTGTG
254 CACCCATGGCCAAATAGTTTAGAGTTTACCCTAATTTGTATAATTACATTGTG
48966784 AAAATTGTATAAG
1 AAAATTGTATAAG
48966797 TTTGATTAAA
Statistics
Matches: 274, Mismatches: 41, Indels: 12
0.84 0.13 0.04
Matches are distributed among these distances:
307 58 0.21
308 84 0.31
309 117 0.43
310 15 0.05
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (306 bp):
AAAATTGTATAAGAAGATCATTTACAAGTTTAATTATGTAATGTCATTAAACATGTCAAGATTAC
TGAATTTCAACCCTTCAAGAAAAATTATGAAATTTGCCCATTGCCAAATAGTTAGGATTTACCCT
AATTTGTATAGCTATGTGATGAAAATTGTATAGGAAGTAAATTTACAAGTTTGATTATGTAATAT
ATTTAATAAGTCTAGATCATAATTGAATTTCAACCCTTCCAAGAAAACTTATAGAATTCACCCAT
GGCCAAATAGTTTAGAGTTTACCCTAATTTGTATAATTACATTGTG
Found at i:48967446 original size:13 final size:13
Alignment explanation
Indices: 48967428--48967473 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
48967418 GACCTCCTTG
48967428 AATTAAATTATTA
1 AATTAAATTATTA
48967441 AATTAAA--ATT-
1 AATTAAATTATTA
48967451 AATTAAAATTATTA
1 AATT-AAATTATTA
48967465 AA-TAAATTA
1 AATTAAATTA
48967474 AATTAAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
10 4 0.14
11 6 0.21
12 6 0.21
13 11 0.38
14 2 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AATTAAATTATTA
Found at i:48967454 original size:23 final size:22
Alignment explanation
Indices: 48967428--48967480 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 22
48967418 GACCTCCTTG
48967428 AATTAAATTATTAAATTAAAATT-
1 AATTAAATTATTAAA-T-AAATTA
48967451 AATTAAAATTATTAAATAAATTA
1 AATT-AAATTATTAAATAAATTA
48967474 AATTAAA
1 AATTAAA
48967481 ATTAAAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.29
23 9 0.32
24 11 0.39
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTAAATTATTAAATAAATTA
Found at i:48967456 original size:10 final size:9
Alignment explanation
Indices: 48967428--48967479 Score: 51
Period size: 8 Copynumber: 6.2 Consensus size: 9
48967418 GACCTCCTTG
48967428 AATTAAATT
1 AATTAAATT
48967437 -ATTAAATT
1 AATTAAATT
48967445 -A--AAATT
1 AATTAAATT
48967451 AATTAAAATT
1 AATT-AAATT
*
48967461 -ATTAAATA
1 AATTAAATT
48967469 AATTAAATT
1 AATTAAATT
48967478 AA
1 AA
48967480 AATTAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
6 5 0.14
7 1 0.03
8 13 0.36
9 12 0.33
10 5 0.14
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATTAAATT
Found at i:48967467 original size:18 final size:18
Alignment explanation
Indices: 48967429--48967475 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
48967419 ACCTCCTTGA
48967429 ATTAAATT-ATT-AAATT
1 ATTAAATTAATTAAAATT
48967445 A--AAATTAATTAAAATT
1 ATTAAATTAATTAAAATT
*
48967461 ATTAAATAAATTAAA
1 ATTAAATTAATTAAA
48967476 TTAAAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 5 0.19
15 3 0.12
16 7 0.27
18 11 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATTAAATTAATTAAAATT
Found at i:48967481 original size:23 final size:24
Alignment explanation
Indices: 48967428--48967484 Score: 84
Period size: 23 Copynumber: 2.5 Consensus size: 24
48967418 GACCTCCTTG
48967428 AATT-AAATTATTAAATTAAAATT
1 AATTAAAATTATTAAATTAAAATT
48967451 AATTAAAATTATTAAA-T-AAATT
1 AATTAAAATTATTAAATTAAAATT
48967473 AAATTAAAATTA
1 -AATTAAAATTA
48967485 AAGAATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 5 0.16
23 16 0.50
24 11 0.34
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTAAAATTATTAAATTAAAATT
Found at i:48969291 original size:29 final size:29
Alignment explanation
Indices: 48969242--48969299 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
48969232 TAACATTATT
* *
48969242 TTATATTTATATATTACATATATAAATAA
1 TTATATATATATATTACATATAAAAATAA
*
48969271 TTATATATATTTATCTA-ATATAAAAATAA
1 TTATATATATATAT-TACATATAAAAATAA
48969300 ATTAATTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
TTATATATATATATTACATATAAAAATAA
Found at i:48969915 original size:3 final size:3
Alignment explanation
Indices: 48969869--48969897 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
48969859 ATGTGCTAGT
48969869 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48969898 TAAGCAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:48991988 original size:12 final size:12
Alignment explanation
Indices: 48991973--48992019 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
48991963 AAACAGCAAA
48991973 AACAACAAAAAT
1 AACAACAAAAAT
*
48991985 AACAGCAAAAAGT
1 AACAACAAAAA-T
*
48991998 -GCAACAAAAAT
1 AACAACAAAAAT
*
48992009 AACAGCAAAAA
1 AACAACAAAAA
48992020 CAACTCCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 1 0.04
12 26 0.93
13 1 0.04
ACGTcount: A:0.68, C:0.17, G:0.09, T:0.06
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:48992007 original size:24 final size:21
Alignment explanation
Indices: 48991964--48992023 Score: 93
Period size: 24 Copynumber: 2.7 Consensus size: 21
48991954 TAATAGTACA
48991964 AACAGCAAAAACAACAAAAAT
1 AACAGCAAAAACAACAAAAAT
48991985 AACAGCAAAAAGTGCAACAAAAAT
1 AACAGCAAAAA---CAACAAAAAT
48992009 AACAGCAAAAACAAC
1 AACAGCAAAAACAAC
48992024 TCCAAAACAC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 15 0.42
24 21 0.58
ACGTcount: A:0.67, C:0.20, G:0.08, T:0.05
Consensus pattern (21 bp):
AACAGCAAAAACAACAAAAAT
Found at i:49003077 original size:4 final size:4
Alignment explanation
Indices: 49003068--49003141 Score: 148
Period size: 4 Copynumber: 18.5 Consensus size: 4
49003058 GTAATTAGGA
49003068 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
49003116 ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT AT
49003142 TTGAATTGTA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 70 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:49005276 original size:54 final size:54
Alignment explanation
Indices: 49005215--49005323 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
49005205 GTGATTCTTG
49005215 TCCAAAAAAATTAATTAGGAGTTATTTAAGTTAAATATATAAAGAGACTATAGA
1 TCCAAAAAAATTAATTAGGAGTTATTTAAGTTAAATATATAAAGAGACTATAGA
49005269 TCCAAAAAAATTAATTAGGAGTTATTTAAGTTAAATATATAAAGAGACTATAGA
1 TCCAAAAAAATTAATTAGGAGTTATTTAAGTTAAATATATAAAGAGACTATAGA
49005323 T
1 T
49005324 TTTAATTATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.50, C:0.06, G:0.13, T:0.32
Consensus pattern (54 bp):
TCCAAAAAAATTAATTAGGAGTTATTTAAGTTAAATATATAAAGAGACTATAGA
Found at i:49006292 original size:21 final size:22
Alignment explanation
Indices: 49006261--49006301 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
49006251 CATCTTTGAT
*
49006261 TTTTGTAAATATTTTTTTATAA
1 TTTTGTAAATATTATTTTATAA
49006283 TTTT-TAAATATTATTTTAT
1 TTTTGTAAATATTATTTTAT
49006302 TTCTATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTGTAAATATTATTTTATAA
Found at i:49006327 original size:19 final size:19
Alignment explanation
Indices: 49006271--49006328 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
49006261 TTTTGTAAAT
49006271 ATTTTTTTATAATTTTTA-A
1 ATTTTTTT-TAATTTTTATA
* *
49006290 ATATTATTTT-ATTTCTATA
1 AT-TTTTTTTAATTTTTATA
49006309 ATTTTTTTTAATTTTTATA
1 ATTTTTTTTAATTTTTATA
49006328 A
1 A
49006329 ATAATTGAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 12 0.38
19 15 0.47
20 5 0.16
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTTTTAATTTTTATA
Found at i:49006410 original size:13 final size:13
Alignment explanation
Indices: 49006392--49006423 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
49006382 ATTCAAACTA
49006392 AAAAAAAACAATT
1 AAAAAAAACAATT
*
49006405 AAAAAAAACAGTT
1 AAAAAAAACAATT
49006418 AAAAAA
1 AAAAAA
49006424 TCATATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.12
Consensus pattern (13 bp):
AAAAAAAACAATT
Found at i:49006542 original size:19 final size:19
Alignment explanation
Indices: 49006507--49006553 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
49006497 ATAATTTCTC
*
49006507 ATAATTTCTTTATTTTTTAT
1 ATAATTT-TTAATTTTTTAT
49006527 ATAATTTTTAATTTTTTAT
1 ATAATTTTTAATTTTTTAT
*
49006546 AAAATTTT
1 ATAATTTT
49006554 CTTAATTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
ATAATTTTTAATTTTTTAT
Found at i:49008479 original size:23 final size:23
Alignment explanation
Indices: 49008452--49008504 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
49008442 CTTCGATGGC
* * *
49008452 CTTCTTCGAGTGTTCTTTTCAAT
1 CTTCTTCGAGTGGTCTCTTAAAT
*
49008475 CTTCTTTGAGTGGTCTCTTAAAT
1 CTTCTTCGAGTGGTCTCTTAAAT
49008498 CTTCTTC
1 CTTCTTC
49008505 TAATTGATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.13, T:0.51
Consensus pattern (23 bp):
CTTCTTCGAGTGGTCTCTTAAAT
Found at i:49019819 original size:25 final size:26
Alignment explanation
Indices: 49019763--49019833 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 26
49019753 ATTTTCTCAA
49019763 AATTTTA-CCAGGGTTAAAATCATCAT
1 AATTTTATCCAGGG-TAAAATCATCAT
*
49019789 AATTTTATCCAGGGTAAAA-CGTCAT
1 AATTTTATCCAGGGTAAAATCATCAT
**
49019814 AATTTTATCGTGGGTAAAAT
1 AATTTTATCCAGGGTAAAAT
49019834 TGGGATGAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
25 22 0.55
26 12 0.30
27 6 0.15
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (26 bp):
AATTTTATCCAGGGTAAAATCATCAT
Found at i:49025601 original size:42 final size:43
Alignment explanation
Indices: 49025492--49025607 Score: 128
Period size: 42 Copynumber: 2.7 Consensus size: 43
49025482 CTCGTACAAT
* * * *
49025492 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAATTAACGAT
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAATTAACGAC
* * *
49025535 GCCACTATCCCAGACAGGGTCTTACACGTAATC-A-TATACGAC
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAATTA-ACGAC
* *
49025577 GCCAATGTCCCAAACATGATCTTACACGTAA
1 GCCAATGTCCCAGACATGGTCTTACACGTAA
49025608 ATCTCAAATA
Statistics
Matches: 60, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.03
42 31 0.52
43 27 0.45
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGTAATCAATTAACGAC
Found at i:49027876 original size:19 final size:19
Alignment explanation
Indices: 49027805--49027877 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 19
49027795 TAATTATTTA
*
49027805 TATTTAATCATATAATAAAT
1 TATTTAAT-ATTTAATAAAT
49027825 TA-TTAATATGATTAATATAAT
1 TATTTAATAT--TTAATA-AAT
*
49027846 T-TATT-ATTTTTAATAAAT
1 TAT-TTAATATTTAATAAAT
49027864 TATTTAATATTTAA
1 TATTTAATATTTAA
49027878 ATTTTATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 15
0.70 0.05 0.25
Matches are distributed among these distances:
18 8 0.19
19 19 0.44
20 7 0.16
21 7 0.16
22 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (19 bp):
TATTTAATATTTAATAAAT
Found at i:49027923 original size:16 final size:17
Alignment explanation
Indices: 49027887--49027923 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
49027877 AATTTTATTT
*
49027887 TAATAGTAAGTTTTAAA
1 TAATAATAAGTTTTAAA
49027904 -AATAATAA-TTTTAAA
1 TAATAATAAGTTTTAAA
49027919 TAATA
1 TAATA
49027924 TTATTATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TAATAATAAGTTTTAAA
Found at i:49029114 original size:21 final size:21
Alignment explanation
Indices: 49029088--49029137 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
49029078 GCCTTTCAGC
*
49029088 CACACGGTCATGT-CTCTTAGT
1 CACACGGTCATGTACCCTT-GT
*
49029109 CACACGGCCATGTACCCTTGT
1 CACACGGTCATGTACCCTTGT
49029130 CACACGGT
1 CACACGGT
49029138 TTGAACTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.26
Consensus pattern (21 bp):
CACACGGTCATGTACCCTTGT
Found at i:49032069 original size:42 final size:42
Alignment explanation
Indices: 49032008--49032093 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
49031998 GTAGATTCTA
* * *
49032008 CACAGTTCATGTGAGCAGCATCATGTAGCTAACATCTCGACC
1 CACAGCTCATGTGAACAGCATCATGTAGCTAACATCCCGACC
*
49032050 CACAGCTCATGTTAACAGCATCATGTAGCTAACATCCCGACC
1 CACAGCTCATGTGAACAGCATCATGTAGCTAACATCCCGACC
49032092 CA
1 CA
49032094 TTTCACAGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.22
Consensus pattern (42 bp):
CACAGCTCATGTGAACAGCATCATGTAGCTAACATCCCGACC
Found at i:49033258 original size:53 final size:53
Alignment explanation
Indices: 49033165--49033270 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
49033155 AAGTGAAAGA
* *
49033165 TGAACCACACGGTCACAGAGAGTTACATGGCCTGGCGACACGGCCGTGTGACC
1 TGAACCACACGGTCACAGAGAGTTACACGACCTGGCGACACGGCCGTGTGACC
* * * *
49033218 TGAACCACACGGTCACAGAGGGTTACACGACCTTGTGACACGGTCGTGTGACC
1 TGAACCACACGGTCACAGAGAGTTACACGACCTGGCGACACGGCCGTGTGACC
49033271 CTATATTGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.25, C:0.29, G:0.29, T:0.17
Consensus pattern (53 bp):
TGAACCACACGGTCACAGAGAGTTACACGACCTGGCGACACGGCCGTGTGACC
Found at i:49039226 original size:27 final size:26
Alignment explanation
Indices: 49039158--49039226 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 26
49039148 GCGGACCACC
49039158 CCGTGTTTAATGTCCCAACAGACTAT
1 CCGTGTTTAATGTCCCAACAGACTAT
* * * *
49039184 CCTATGTTTAACGTCCCATCGGACTAT
1 CC-GTGTTTAATGTCCCAACAGACTAT
*
49039211 CTCGTGTTTATTGTCC
1 C-CGTGTTTAATGTCC
49039227 TGTCAGACTA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
26 2 0.06
27 31 0.91
28 1 0.03
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (26 bp):
CCGTGTTTAATGTCCCAACAGACTAT
Found at i:49039496 original size:45 final size:44
Alignment explanation
Indices: 49039438--49039564 Score: 146
Period size: 45 Copynumber: 2.8 Consensus size: 44
49039428 ATCACCAAAT
* * * *
49039438 GTCATAGCGTCTTTCATCTATGGTCTTACTCATTTCTATCATGAT
1 GTCATAACATCTTTCAACTATGGTCTTACTCATTT-TATCATGAC
* * * *
49039483 GTCATAATATCTTTTAGCTATGGTCTTACTCATCTTTGTCATGAC
1 GTCATAACATCTTTCAACTATGGTCTTACTCAT-TTTATCATGAC
* *
49039528 GTCATAGCATCTTTCAACTATGGTCTTACTTATTTTA
1 GTCATAACATCTTTCAACTATGGTCTTACTCATTTTA
49039565 GGCATATAGC
Statistics
Matches: 68, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 3 0.04
45 63 0.93
46 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.13, T:0.45
Consensus pattern (44 bp):
GTCATAACATCTTTCAACTATGGTCTTACTCATTTTATCATGAC
Found at i:49042189 original size:19 final size:19
Alignment explanation
Indices: 49042167--49042238 Score: 67
Period size: 19 Copynumber: 3.8 Consensus size: 19
49042157 GGGGCATTGG
*
49042167 TTTTGGTTTTAGTTTAGGA
1 TTTTGATTTTAGTTTAGGA
* *
49042186 TTTTGATTTGAGGTTTTGGA
1 TTTTGATTTTA-GTTTAGGA
* *
49042206 -TTTGATTTTAGTTTGGGG
1 TTTTGATTTTAGTTTAGGA
49042224 TCTTT-ATTTTAGTTT
1 T-TTTGATTTTAGTTT
49042239 CGATTTGGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 6 0.14
19 28 0.64
20 10 0.23
ACGTcount: A:0.14, C:0.01, G:0.25, T:0.60
Consensus pattern (19 bp):
TTTTGATTTTAGTTTAGGA
Found at i:49042976 original size:24 final size:24
Alignment explanation
Indices: 49042921--49042977 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
49042911 GGGTTTCAAT
* *
49042921 TTTGGGTTTTAGATTCAATTTTGG
1 TTTGGGATTTAGATTCAATTTTGA
*
49042945 TTTGGGGATTT-GATTTCAGTTTTGA
1 TTT-GGGATTTAGA-TTCAATTTTGA
49042970 TTTGGGAT
1 TTTGGGAT
49042978 CACGATTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.16, C:0.04, G:0.28, T:0.53
Consensus pattern (24 bp):
TTTGGGATTTAGATTCAATTTTGA
Found at i:49045325 original size:25 final size:26
Alignment explanation
Indices: 49045284--49045333 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
49045274 ATTTGTTGAA
*
49045284 AGTTTTAAGTTTGGGGTTTCAATTTT
1 AGTTTTAAGTTTAGGGTTTCAATTTT
*
49045310 AGTTTT-AGTTTAGGGTTTTAATTT
1 AGTTTTAAGTTTAGGGTTTCAATTT
49045334 GGGGTTTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.20, C:0.02, G:0.22, T:0.56
Consensus pattern (26 bp):
AGTTTTAAGTTTAGGGTTTCAATTTT
Found at i:49045340 original size:26 final size:25
Alignment explanation
Indices: 49045284--49045343 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
49045274 ATTTGTTGAA
* *
49045284 AGTTTTAAGTTTGGGGTTTCAATTTT
1 AGTTTT-AGTTTAGGGTTTCAATTTG
*
49045310 AGTTTTAGTTTAGGGTTTTAATTTGG
1 AGTTTTAGTTTAGGGTTTCAATTT-G
*
49045336 GGTTTTAG
1 AGTTTTAG
49045344 AGTTTGGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.18, C:0.02, G:0.27, T:0.53
Consensus pattern (25 bp):
AGTTTTAGTTTAGGGTTTCAATTTG
Found at i:49045343 original size:21 final size:20
Alignment explanation
Indices: 49045326--49045372 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
49045316 AGTTTAGGGT
49045326 TTTAATTTGGGGTTTTAGAG
1 TTTAATTTGGGGTTTTAGAG
** *
49045346 TTTGGTTTGGGGTTTT-GAT
1 TTTAATTTGGGGTTTTAGAG
49045365 TTTAATTT
1 TTTAATTT
49045373 CAATTTAGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 8 0.36
20 14 0.64
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.57
Consensus pattern (20 bp):
TTTAATTTGGGGTTTTAGAG
Found at i:49060510 original size:27 final size:27
Alignment explanation
Indices: 49060480--49060537 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
49060470 ATAGGTCAGT
*
49060480 GAGTAGGTATGCGCCAGTAGGCTTAGC
1 GAGTAGGTATGCGCCAGAAGGCTTAGC
* * * * *
49060507 GAGTTGGTGTTCGCCGGAAGGCTTGGC
1 GAGTAGGTATGCGCCAGAAGGCTTAGC
49060534 GAGT
1 GAGT
49060538 TGATGTACAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.17, G:0.41, T:0.24
Consensus pattern (27 bp):
GAGTAGGTATGCGCCAGAAGGCTTAGC
Found at i:49061670 original size:23 final size:23
Alignment explanation
Indices: 49061640--49061687 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
49061630 CATTTTGAGA
* *
49061640 CGTTATAAGGATATACGTTTATC
1 CGTTATAAGGAGATACGCTTATC
*
49061663 CGTTATAAGGAGATTCGCTTATC
1 CGTTATAAGGAGATACGCTTATC
49061686 CG
1 CG
49061688 CTTTATGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (23 bp):
CGTTATAAGGAGATACGCTTATC
Found at i:49062290 original size:25 final size:25
Alignment explanation
Indices: 49062254--49062306 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
49062244 AAAAGATTTA
*
49062254 GAATGTATGAGCTATGCAGGGGTGC
1 GAATGTACGAGCTATGCAGGGGTGC
49062279 GAATGTACGAGCTATGCAGGGGTGC
1 GAATGTACGAGCTATGCAGGGGTGC
49062304 GAA
1 GAA
49062307 CCCTAATGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.26, C:0.13, G:0.40, T:0.21
Consensus pattern (25 bp):
GAATGTACGAGCTATGCAGGGGTGC
Found at i:49064738 original size:16 final size:15
Alignment explanation
Indices: 49064694--49064741 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
49064684 TTAGTCCTGC
49064694 AATACTCAATTCATG
1 AATACTCAATTCATG
*
49064709 AATACATCATTTCAT-
1 AATAC-TCAATTCATG
49064724 ACCATACTCAATTCATG
1 A--ATACTCAATTCATG
49064741 A
1 A
49064742 GTATATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (15 bp):
AATACTCAATTCATG
Found at i:49065539 original size:25 final size:26
Alignment explanation
Indices: 49065510--49065576 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
49065500 TTCGCGTCTG
*
49065510 TTTCTTTC-TTCTTTCTCTTTTTC-TT
1 TTTCTTTCTTTCTTT-TCTGTTTCGTT
* *
49065535 TTTCTGTCTTTCCTTTCTGTTTCGTT
1 TTTCTTTCTTTCTTTTCTGTTTCGTT
*
49065561 TTACTTTCTTTCTTTT
1 TTTCTTTCTTTCTTTT
49065577 TATTTATTTC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
25 14 0.41
26 20 0.59
ACGTcount: A:0.01, C:0.22, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTCTTTCTTTCTTTTCTGTTTCGTT
Found at i:49068361 original size:3 final size:3
Alignment explanation
Indices: 49068353--49068459 Score: 205
Period size: 3 Copynumber: 35.7 Consensus size: 3
49068343 GCTTTGCTAT
49068353 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
49068401 TTC TTC TTC TTC TTC TTA TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
49068449 TTC TTC TTC TT
1 TTC TTC TTC TT
49068460 ATGCTCTCTA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 102 1.00
ACGTcount: A:0.01, C:0.32, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:49070882 original size:16 final size:15
Alignment explanation
Indices: 49070838--49070885 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
49070828 TTAGTCCTAC
49070838 AATACTCAATTCATG
1 AATACTCAATTCATG
*
49070853 AATACATCATTTCAT-
1 AATAC-TCAATTCATG
49070868 ACCATACTCAATTCATG
1 A--ATACTCAATTCATG
49070885 A
1 A
49070886 GTATATAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
15 6 0.22
16 16 0.59
17 5 0.19
ACGTcount: A:0.40, C:0.23, G:0.04, T:0.33
Consensus pattern (15 bp):
AATACTCAATTCATG
Found at i:49071787 original size:25 final size:25
Alignment explanation
Indices: 49071759--49071812 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
49071749 ATATACTTAA
49071759 ATATTAA-GTAAACATATTATAATAT
1 ATATTAACGTAAA-ATATTATAATAT
* * *
49071784 ATATTAACTTTAATTATTATAATAT
1 ATATTAACGTAAAATATTATAATAT
49071809 ATAT
1 ATAT
49071813 AATAAATTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 22 0.88
26 3 0.12
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (25 bp):
ATATTAACGTAAAATATTATAATAT
Found at i:49076193 original size:60 final size:62
Alignment explanation
Indices: 49076119--49076278 Score: 166
Period size: 61 Copynumber: 2.6 Consensus size: 62
49076109 GAAAAAAAAT
* *
49076119 ATTTATT-AATTTTTTAGAGTTAGGACTAAATTGATAGA-TTTTGTAAATATTGAGGGCCAA
1 ATTTATTGAATTTTTTAGAATTAGGACTAAATTGATAGATTTTTGTAAACATTGAGGGCCAA
** * * * * **
49076179 ATTTATTGAA-TTTTTAGAATTACAACTAAAATGACAAATTTTTGTCAACATTGAGGGTTAA
1 ATTTATTGAATTTTTTAGAATTAGGACTAAATTGATAGATTTTTGTAAACATTGAGGGCCAA
* * *
49076240 ATTTGTTGAATTTTTTATATTTAGGA-TCAAATTGATAGA
1 ATTTATTGAATTTTTTAGAATTAGGACT-AAATTGATAGA
49076279 ACGTGTAAAC
Statistics
Matches: 78, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
60 29 0.37
61 30 0.38
62 19 0.24
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (62 bp):
ATTTATTGAATTTTTTAGAATTAGGACTAAATTGATAGATTTTTGTAAACATTGAGGGCCAA
Found at i:49077673 original size:18 final size:18
Alignment explanation
Indices: 49077626--49077682 Score: 50
Period size: 18 Copynumber: 3.2 Consensus size: 18
49077616 TTTAAAAATT
49077626 AAAAATTAAAAATA-ATTTTA
1 AAAAATTAAAAATACA---TA
49077646 AAAAA-T-AAAATACATA
1 AAAAATTAAAAATACATA
49077662 AAAAATTAAAAAGTAC-TA
1 AAAAATTAAAAA-TACATA
49077680 AAA
1 AAA
49077683 TTTATAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
16 7 0.21
17 1 0.03
18 15 0.45
19 5 0.15
20 5 0.15
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAATTAAAAATACATA
Found at i:49077704 original size:11 final size:11
Alignment explanation
Indices: 49077688--49077713 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49077678 TAAAATTTAT
49077688 AAAAATTTTCA
1 AAAAATTTTCA
49077699 AAAAATTTTCA
1 AAAAATTTTCA
49077710 AAAA
1 AAAA
49077714 CTTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAAATTTTCA
Found at i:49087328 original size:6 final size:6
Alignment explanation
Indices: 49087317--49087376 Score: 111
Period size: 6 Copynumber: 10.0 Consensus size: 6
49087307 AATCGACATA
49087317 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
1 TATATT TATATT TATATT TATATT TATATT TATATT TATATT TATATT
*
49087365 TATATT TGTATT
1 TATATT TATATT
49087377 AAATCACTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:49088799 original size:30 final size:30
Alignment explanation
Indices: 49088763--49088828 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
49088753 ATTTGATCTT
**
49088763 ATTTGATTTTTTTTAATAGTAAAAGGACTA
1 ATTTGATTTCATTTAATAGTAAAAGGACTA
* * *
49088793 ATTTGA-TTCATTTAATAGTAGATGGCCTA
1 ATTTGATTTCATTTAATAGTAAAAGGACTA
49088822 ATTTGAT
1 ATTTGAT
49088829 ATAATCTCTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 24 0.80
30 6 0.20
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (30 bp):
ATTTGATTTCATTTAATAGTAAAAGGACTA
Found at i:49089653 original size:16 final size:16
Alignment explanation
Indices: 49089632--49089664 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49089622 TATAATCATT
49089632 TTAAATTACTAG-TATA
1 TTAAATTA-TAGATATA
49089648 TTAAATTATAGATATA
1 TTAAATTATAGATATA
49089664 T
1 T
49089665 ATTAGTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (16 bp):
TTAAATTATAGATATA
Found at i:49090021 original size:11 final size:11
Alignment explanation
Indices: 49089999--49090057 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
49089989 TTCTACTTTT
*
49089999 TCAATTCACTC
1 TCAATTCTCTC
49090010 TCAACTT-TCTC
1 TCAA-TTCTCTC
*
49090021 TCAATT-TATTC
1 TCAATTCT-CTC
49090032 TCAATTCTCTC
1 TCAATTCTCTC
*
49090043 TCAATTCTCAC
1 TCAATTCTCTC
49090054 TCAA
1 TCAA
49090058 CTCAATTCTC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 3 0.07
11 35 0.85
12 3 0.07
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.42
Consensus pattern (11 bp):
TCAATTCTCTC
Found at i:49090025 original size:22 final size:22
Alignment explanation
Indices: 49089999--49090081 Score: 78
Period size: 22 Copynumber: 3.6 Consensus size: 22
49089989 TTCTACTTTT
49089999 TCAATTCACTCTCAACTTTCTC
1 TCAATTCACTCTCAACTTTCTC
* *
49090021 TCAATTTATTCTCAA-TTCTCTC
1 TCAATTCACTCTCAACTT-TCTC
* *
49090043 TCAATTCTCACTCAACTCAATTCTC
1 TCAATTCACTCTCAACT---TTCTC
*
49090068 TCAGTTCACTCTCA
1 TCAATTCACTCTCA
49090082 TTTTTTTATT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.04
22 28 0.60
23 1 0.02
25 15 0.32
26 1 0.02
ACGTcount: A:0.24, C:0.34, G:0.01, T:0.41
Consensus pattern (22 bp):
TCAATTCACTCTCAACTTTCTC
Found at i:49103973 original size:28 final size:28
Alignment explanation
Indices: 49103913--49104011 Score: 128
Period size: 28 Copynumber: 3.6 Consensus size: 28
49103903 TGTAATAAGT
* *
49103913 TCGCACACTTAGTGC-TTAAAAATAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
49103940 TTGCACAGTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
**
49103968 TCGCACACTTAGTGCTTTACAATCGAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
49103996 TTGCACACTTAGTGCT
1 TCGCACACTTAGTGCT
49104012 AATCTCATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
27 13 0.21
28 49 0.79
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:49106298 original size:16 final size:16
Alignment explanation
Indices: 49106277--49106310 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49106267 CCAATATCCA
* *
49106277 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
49106293 ATTATCACATTTACAC
1 ATTATCACATTTACAC
49106309 AT
1 AT
49106311 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:49112035 original size:19 final size:18
Alignment explanation
Indices: 49112013--49112061 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 18
49112003 ATATAAATAT
*
49112013 TATAAAAAATTTTAAAGAA
1 TATAAAAAATGTTAAA-AA
49112032 TATATAAAAATGTT-AAAA
1 TATA-AAAAATGTTAAAAA
49112050 -ATAAAAAATGTT
1 TATAAAAAATGTT
49112062 TCCTAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 9 0.32
17 3 0.11
18 2 0.07
19 6 0.21
20 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
TATAAAAAATGTTAAAAA
Found at i:49115805 original size:95 final size:95
Alignment explanation
Indices: 49115682--49115941 Score: 385
Period size: 96 Copynumber: 2.7 Consensus size: 95
49115672 GGATTAAGGT
* * * ** *
49115682 TTAGGGTTTAGGGTTTCTTAATTAAATTAATTATAAATTTTTCAAAATTAGATTAGGGTTTCGTG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTG
* * *
49115747 TTTATGGTTTTTAAGAAAAAATTAATTAAA
66 TTTAGGGTTTTTAAGAAAAAATCAAATAAA
49115777 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAAATTTTAAAAAATTAGATTAGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT-AAATTTTAAAAAATTAGATTAGGGTTTAGT
* *
49115842 GTTAAGGGTTTTTAAGGAAAAATCAAATAAA
65 GTTTAGGGTTTTTAAGAAAAAATCAAATAAA
* *
49115873 TTAGGGTTTAGGGCTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGGTTAGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTT-AAAAAATTAGATTAGGGTTTAGT
49115938 GTTT
65 GTTT
49115942 GTTAATTTAA
Statistics
Matches: 149, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
95 38 0.26
96 111 0.74
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.42
Consensus pattern (95 bp):
TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTG
TTTAGGGTTTTTAAGAAAAAATCAAATAAA
Found at i:49115834 original size:53 final size:53
Alignment explanation
Indices: 49115770--49115936 Score: 140
Period size: 53 Copynumber: 3.3 Consensus size: 53
49115760 AGAAAAAATT
49115770 AATTAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAAATTTTAAAA
1 AATTAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAAATTTTAAAA
* * * * ** ** *
49115823 AATTAGATTAGGGTTTAGTGTTA--AGGGT-TTTTAAGGA-AAAA---T--CA
1 AATTAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAAATTTTAAAA
*
49115867 AA-TAAATTAGGGTTTAGGGCTACTTGAGTAAATTAATTAT-AAATTTTAAAAA
1 AATTAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAAATTTT-AAAA
**
49115919 AATTAGGTTAGGGTTTAG
1 AATTAAATTAGGGTTTAG
49115937 TGTTTGTTAA
Statistics
Matches: 82, Mismatches: 21, Indels: 22
0.66 0.17 0.18
Matches are distributed among these distances:
43 17 0.21
44 3 0.04
45 3 0.04
46 9 0.11
49 5 0.06
50 5 0.06
51 3 0.04
52 3 0.04
53 34 0.41
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.38
Consensus pattern (53 bp):
AATTAAATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAAATTTTAAAA
Found at i:49116182 original size:126 final size:126
Alignment explanation
Indices: 49115954--49116242 Score: 452
Period size: 126 Copynumber: 2.3 Consensus size: 126
49115944 TAATTTAAAA
* * * * *
49115954 AAGCTCCCACGTGGACACTTTTTTGCTACAGTAGTTATTGAAAAAATATTTTTGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTCGAGAAGACGTTT
* * **
49116019 CTGAGGAAATAGTGGCAAAAACGCTTTAAGTAAGATGCATTGTCAGCAAAAGTGCTGAAAG
66 CTGAGCAAATAGTGGCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGCACTGAAAG
*
49116080 AAGCTCCTACGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTCGAGAAGACGTTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTCGAGAAGACGTTT
* * * *
49116145 CTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTTAGCAAAAGCACTGAAAG
66 CTGAGCAAATAGTGGCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGCACTGAAAG
49116206 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTC
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTC
49116243 CTATTTGGCC
Statistics
Matches: 148, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 148 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (126 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCTTGAAAAAATAATTTCGAGAAGACGTTT
CTGAGCAAATAGTGGCAAAAACGCTTTAAGCAAGATGCATTGTCAGCAAAAGCACTGAAAG
Found at i:49116985 original size:34 final size:34
Alignment explanation
Indices: 49116907--49117009 Score: 137
Period size: 34 Copynumber: 3.1 Consensus size: 34
49116897 TTGCTTTATT
49116907 TAAAAGAATTTCTATTTTATTA-A--AAAT-ATA
1 TAAAAGAATTTCTATTTTATTACATGAAATAATA
*
49116937 -AAATTA-AATTTCTATATTATTACATGAAATAATA
1 TAAA--AGAATTTCTATTTTATTACATGAAATAATA
49116971 TAAAAGAATTTCTATTTTATTACATGAAATAATA
1 TAAAAGAATTTCTATTTTATTACATGAAATAATA
49117005 TAAAA
1 TAAAA
49117010 ATATTCAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 12
0.82 0.03 0.16
Matches are distributed among these distances:
29 3 0.05
30 15 0.24
31 2 0.03
33 5 0.08
34 35 0.56
35 3 0.05
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.41
Consensus pattern (34 bp):
TAAAAGAATTTCTATTTTATTACATGAAATAATA
Found at i:49117442 original size:18 final size:18
Alignment explanation
Indices: 49117416--49117458 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
49117406 GACTAGAAAA
* * *
49117416 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
49117434 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
49117452 AGGATAC
1 AGGATAC
49117459 GTACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:49119271 original size:11 final size:11
Alignment explanation
Indices: 49119257--49119329 Score: 94
Period size: 11 Copynumber: 6.6 Consensus size: 11
49119247 GAGAGCTTTA
49119257 AGAGAAATTTG
1 AGAGAAATTTG
*
49119268 AGAGGAATTTG
1 AGAGAAATTTG
*
49119279 AGAGAAATATG
1 AGAGAAATTTG
*
49119290 AGAGAATATTAG
1 AGAGAA-ATTTG
*
49119302 AGAGAAATATG
1 AGAGAAATTTG
49119313 AGAG-AATTTG
1 AGAGAAATTTG
49119323 AGAGAAA
1 AGAGAAA
49119330 GGATTTAAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
10 9 0.17
11 34 0.65
12 9 0.17
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (11 bp):
AGAGAAATTTG
Found at i:49119308 original size:23 final size:21
Alignment explanation
Indices: 49119257--49119329 Score: 110
Period size: 23 Copynumber: 3.3 Consensus size: 21
49119247 GAGAGCTTTA
*
49119257 AGAGAAATTTGAGAGGAATTTG
1 AGAGAAATATGAGA-GAATTTG
49119279 AGAGAAATATGAGAGAATATTAG
1 AGAGAAATATGAGAGAAT-TT-G
49119302 AGAGAAATATGAGAGAATTTG
1 AGAGAAATATGAGAGAATTTG
49119323 AGAGAAA
1 AGAGAAA
49119330 GGATTTAAGT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
21 12 0.25
22 17 0.35
23 19 0.40
ACGTcount: A:0.49, C:0.00, G:0.29, T:0.22
Consensus pattern (21 bp):
AGAGAAATATGAGAGAATTTG
Found at i:49122488 original size:41 final size:41
Alignment explanation
Indices: 49122443--49122590 Score: 260
Period size: 41 Copynumber: 3.6 Consensus size: 41
49122433 ACTGGCACTT
* *
49122443 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGACGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
49122484 AGCCTGCTAGACTTAAAGTCTGAAATGTTTTACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
49122525 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGACA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
49122566 AGCCTGCTAGACTTAAAGTCTGAAA
1 AGCCTGCTAGACTTAAAGTCTGAAA
49122591 CATATCACTG
Statistics
Matches: 102, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 102 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:49122609 original size:41 final size:41
Alignment explanation
Indices: 49122443--49122616 Score: 242
Period size: 41 Copynumber: 4.2 Consensus size: 41
49122433 ACTGGCACTT
* * *
49122443 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGACGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
* *
49122484 AGCCTGCTAGACTTAAAGTCTGAAATGTTTTACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
49122525 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGA-CA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGC-ATCA
** * * *
49122566 AGCCTGCTAGACTTAAAGTCTGAAACATATCACTGGTATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
49122607 AGCCTGCTAG
1 AGCCTGCTAG
49122617 GCACCGAGCC
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
40 1 0.01
41 120 0.99
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCATCA
Found at i:49124280 original size:28 final size:26
Alignment explanation
Indices: 49124249--49124300 Score: 86
Period size: 28 Copynumber: 1.9 Consensus size: 26
49124239 TTTTTAATGT
49124249 TTATTATAACATAATAATATATTATACC
1 TTATTATAACAT-AT-ATATATTATACC
49124277 TTATTATAACATATATATATTATA
1 TTATTATAACATATATATATTATA
49124301 TTAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 10 0.42
27 2 0.08
28 12 0.50
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (26 bp):
TTATTATAACATATATATATTATACC
Found at i:49126021 original size:20 final size:18
Alignment explanation
Indices: 49125992--49126034 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
49125982 TTTTCTCGAT
*
49125992 TCTTTTGTTCTCCTTTCTC
1 TCTTTCGTTCTCC-TTCTC
*
49126011 ATCTTTCGTTCTTCTTCTC
1 -TCTTTCGTTCTCCTTCTC
49126030 TCTTT
1 TCTTT
49126035 AGCAAACCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 5 0.24
20 11 0.52
ACGTcount: A:0.02, C:0.30, G:0.05, T:0.63
Consensus pattern (18 bp):
TCTTTCGTTCTCCTTCTC
Found at i:49145685 original size:3 final size:3
Alignment explanation
Indices: 49145677--49145702 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
49145667 ATTTGTCAAC
49145677 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
49145703 GGGGAATGAC
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:49151062 original size:21 final size:22
Alignment explanation
Indices: 49151020--49151064 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
49151010 ACACCAAAAC
*
49151020 AGGCTTTTAGCGGCGCCTTTTT
1 AGGCCTTTAGCGGCGCCTTTTT
49151042 AGGCCTTTAGCGGCG-CTTTTT
1 AGGCCTTTAGCGGCGCCTTTTT
49151063 AG
1 AG
49151065 CGCCACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.11, C:0.22, G:0.29, T:0.38
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCCTTTTT
Found at i:49151228 original size:43 final size:42
Alignment explanation
Indices: 49151177--49151379 Score: 153
Period size: 43 Copynumber: 4.8 Consensus size: 42
49151167 AAGATTAGGG
*
49151177 TCTTTAGCGACGCTTTTCCCTAAAACGCCGCAAAAGACCCTGA
1 TCTTTAGCGACGCTTTTCCC-AAAACGCCGCTAAAGACCCTGA
* * *** * * *
49151220 TCTATAGCGGCGCTTCGACCACAAACGCCACTAAAGAACCTAA
1 TCTTTAGCGACGCTTTTCCCA-AAACGCCGCTAAAGACCCTGA
* * *
49151263 TCTTTAGCGACGC-TTCCCCACAAACACCGCTAAAGACCATGA
1 TCTTTAGCGACGCTTTTCCCA-AAACGCCGCTAAAGACCCTGA
* * * * * *
49151305 TCTTTAG-G-GGCGTTTCGC-AAATGCCGCGAAAGACCCTTA
1 TCTTTAGCGACGCTTTTCCCAAAACGCCGCTAAAGACCCTGA
* * *
49151344 TCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAG
1 TCTTTAGCGACGCTTTT-CCCAAAACGCCGCTAAAG
49151380 GCCAACACCT
Statistics
Matches: 120, Mismatches: 34, Indels: 12
0.72 0.20 0.07
Matches are distributed among these distances:
39 23 0.19
40 3 0.03
41 10 0.08
42 30 0.25
43 54 0.45
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (42 bp):
TCTTTAGCGACGCTTTTCCCAAAACGCCGCTAAAGACCCTGA
Found at i:49151756 original size:21 final size:21
Alignment explanation
Indices: 49151730--49151842 Score: 82
Period size: 21 Copynumber: 5.4 Consensus size: 21
49151720 TTTGACGCTG
* *
49151730 CTCTGCGTCCCTCGCTGCATC
1 CTCTGCTTCCCTCGCTGCAGC
* **
49151751 CTCTGCTTTCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
*
49151772 CTCTGCTTCCTTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * * *
49151793 CTGTACTTCTCTCACTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
49151814 CTATGCTTCTCTTGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
49151835 ATCTGCTT
1 CTCTGCTT
49151843 TAAGCTGCTG
Statistics
Matches: 71, Mismatches: 21, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 71 1.00
ACGTcount: A:0.06, C:0.41, G:0.17, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:49151890 original size:66 final size:66
Alignment explanation
Indices: 49151818--49151959 Score: 214
Period size: 66 Copynumber: 2.2 Consensus size: 66
49151808 TGCCGCCTAT
*
49151818 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCT
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACCT
49151882 CA
65 CA
* * * **
49151884 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTTTTTTGAACCTC
1 GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTC
49151949 A
66 A
49151950 GCTTCTCTCG
1 GCTTCTCTCG
49151960 ATGTTGCCTC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
65 1 0.01
66 68 0.99
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (66 bp):
GCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTC
A
Found at i:49151975 original size:66 final size:65
Alignment explanation
Indices: 49151818--49151983 Score: 206
Period size: 66 Copynumber: 2.5 Consensus size: 65
49151808 TGCCGCCTAT
* * * * *
49151818 GCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCGTTGAACCTC
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TGCTGGAGTTCTTCATACTTTCGTTGAACCTC
49151883 A
65 A
* * * **
49151884 GCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATTTTTTTTGAACCTC
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT-GCTGGAGTTCTTCATACTTTCGTTGAACCTC
49151949 A
65 A
* *
49151950 GCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTG
49151984 TAATTTGCTC
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
65 2 0.02
66 87 0.98
ACGTcount: A:0.13, C:0.26, G:0.20, T:0.41
Consensus pattern (65 bp):
GCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTGCTGGAGTTCTTCATACTTTCGTTGAACCTCA
Found at i:49157306 original size:9 final size:9
Alignment explanation
Indices: 49157289--49157893 Score: 197
Period size: 9 Copynumber: 68.8 Consensus size: 9
49157279 TAAGTATAAT
*
49157289 TAAGCTATG
1 TAAGTTATG
49157298 TAAGTTATG
1 TAAGTTATG
49157307 T-A-TTATG
1 TAAGTTATG
49157314 TAAGTTAT-
1 TAAGTTATG
*
49157322 TTA-TTATG
1 TAAGTTATG
* *
49157330 AAAATTATG
1 TAAGTTATG
*
49157339 TAAGTTGTG
1 TAAGTTATG
49157348 T-A-TTATG
1 TAAGTTATG
*
49157355 -AA--AAT-
1 TAAGTTATG
* *
49157360 TATGCTATG
1 TAAGTTATG
49157369 TAAGTTATG
1 TAAGTTATG
* *
49157378 TAAGTCATA
1 TAAGTTATG
49157387 TAAGTTATG
1 TAAGTTATG
49157396 T-A-TTATG
1 TAAGTTATG
49157403 TAAGTTATG
1 TAAGTTATG
49157412 TAAGTTAT-
1 TAAGTTATG
*
49157420 TTA-TTATG
1 TAAGTTATG
* * *
49157428 AAAATTAAG
1 TAAGTTATG
49157437 TAAGTTATG
1 TAAGTTATG
*
49157446 TAATTTATG
1 TAAGTTATG
*
49157455 -AA-TAAT-
1 TAAGTTATG
***
49157461 TAAAAAAATG
1 T-AAGTTATG
49157471 TAAGTTATG
1 TAAGTTATG
49157480 TAAG-T-TG
1 TAAGTTATG
49157487 TAAGTTATG
1 TAAGTTATG
49157496 TAAGTTATG
1 TAAGTTATG
*
49157505 TATA-ATAT-
1 TA-AGTTATG
49157513 TAA-TTAAT-
1 TAAGTT-ATG
49157521 TAAGTTATG
1 TAAGTTATG
*
49157530 TAATTTATG
1 TAAGTTATG
*
49157539 TATTGCATTAATG
1 TA-AG--TT-ATG
49157552 TAAGTTATG
1 TAAGTTATG
*
49157561 TAATTTATG
1 TAAGTTATG
*
49157570 -AA-TAAT-
1 TAAGTTATG
*** *
49157576 TAAAAAAAAG
1 T-AAGTTATG
49157586 TAAGTTATG
1 TAAGTTATG
49157595 TAAG-T-TG
1 TAAGTTATG
49157602 TAAGTTATG
1 TAAGTTATG
49157611 TAAGTTATG
1 TAAGTTATG
*
49157620 TATA-ATAT-
1 TA-AGTTATG
49157628 TAA-TTAAT-
1 TAAGTT-ATG
49157636 TAAGTTATG
1 TAAGTTATG
*
49157645 TAATTTATG
1 TAAGTTATG
49157654 TATTCCA-TTAATG
1 TA----AGTT-ATG
49157667 TAAGTTATG
1 TAAGTTATG
49157676 TAAGTTATG
1 TAAGTTATG
*
49157685 TATA-ATAT-
1 TA-AGTTATG
49157693 TAA-TTAAT-
1 TAAGTT-ATG
*
49157701 TAAGTCATG
1 TAAGTTATG
*
49157710 TAATTTATG
1 TAAGTTATG
*
49157719 TATAATATTAATG
1 --TAA-GTT-ATG
*
49157732 CAAGTTATG
1 TAAGTTATG
*
49157741 TAATTTATG
1 TAAGTTATG
*
49157750 TATA-ATAT-
1 TA-AGTTATG
49157758 TAA-TTAAT-
1 TAAGTT-ATG
49157766 TAAGTTATG
1 TAAGTTATG
*
49157775 TAATTTATG
1 TAAGTTATG
*
49157784 TATAATATTAATG
1 --TAA-GTT-ATG
49157797 TAAGTTATG
1 TAAGTTATG
*
49157806 TAATTTATG
1 TAAGTTATG
*
49157815 TTTAATATTAATG
1 --TAA-GTT-ATG
49157828 TAAGTTATG
1 TAAGTTATG
49157837 TAAG-T-TG
1 TAAGTTATG
49157844 TAAGTTATG
1 TAAGTTATG
*
49157853 TAAGTTATA
1 TAAGTTATG
*
49157862 TATA-ATAT-
1 TA-AGTTATG
49157870 TAA-TTAAT-
1 TAAGTT-ATG
49157878 TAAGTTATG
1 TAAGTTATG
49157887 TAAGTTA
1 TAAGTTA
49157894 ACTATTTTAA
Statistics
Matches: 459, Mismatches: 68, Indels: 138
0.69 0.10 0.21
Matches are distributed among these distances:
6 3 0.01
7 59 0.13
8 72 0.16
9 260 0.57
10 17 0.04
11 17 0.04
12 11 0.02
13 20 0.04
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.45
Consensus pattern (9 bp):
TAAGTTATG
Found at i:49157315 original size:16 final size:16
Alignment explanation
Indices: 49157294--49157413 Score: 96
Period size: 16 Copynumber: 7.9 Consensus size: 16
49157284 ATAATTAAGC
49157294 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
49157310 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
49157326 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
49157335 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
49157351 TATGAAAATTATG--C
1 TATGTAAGTTATGTAT
49157365 TATGTAAGTTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
49157383 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
49157399 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
49157414 AGTTATTTAT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
9 6 0.08
10 2 0.03
12 1 0.01
14 11 0.14
15 2 0.03
16 45 0.56
17 1 0.01
18 12 0.15
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:49157336 original size:25 final size:25
Alignment explanation
Indices: 49157308--49157462 Score: 129
Period size: 25 Copynumber: 6.2 Consensus size: 25
49157298 TAAGTTATGT
49157308 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
49157333 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
49157358 ATTATGCTATG-TA---AGTTATGTAA
1 ATTATG-TAAGTTATTTA-TTATGAAA
* * * * *
49157381 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATTATGAAA
*
49157406 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
49157431 ATTAAGTAAGTTATGTAATTTATGAATA
1 ATTATGTAAGTTAT-TTA-TTATGAA-A
49157459 ATTA
1 ATTA
49157463 AAAAAATGTA
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
22 4 0.04
23 12 0.11
25 71 0.68
26 6 0.06
27 7 0.07
28 5 0.05
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.45
Consensus pattern (25 bp):
ATTATGTAAGTTATTTATTATGAAA
Found at i:49157440 original size:34 final size:35
Alignment explanation
Indices: 49157334--49157485 Score: 118
Period size: 34 Copynumber: 4.3 Consensus size: 35
49157324 ATTATGAAAA
* *
49157334 TTATGTAAGTTGTGTATTATGAAAATTATGCTATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTA----ATGTAAG
*
49157373 TTATGTAAGTCATAT-AAGTTATG--TATT-ATGTAAG
1 TTATGTAAGT--TATGAA-TTATGAAAATTAATGTAAG
**
49157407 TTATGTAAGTTATTTATTATGAAAATTAA-GTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
* * * *
49157441 TTATGTAATTTATGAATAATTAAAA-AAATGTAAG
1 TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
49157475 TTATGTAAGTT
1 TTATGTAAGTT
49157486 GTAAGTTATG
Statistics
Matches: 93, Mismatches: 12, Indels: 21
0.74 0.10 0.17
Matches are distributed among these distances:
32 8 0.09
33 3 0.03
34 60 0.65
35 1 0.01
39 13 0.14
40 1 0.01
41 7 0.08
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.43
Consensus pattern (35 bp):
TTATGTAAGTTATGAATTATGAAAATTAATGTAAG
Found at i:49157490 original size:16 final size:16
Alignment explanation
Indices: 49157469--49157501 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
49157459 ATTAAAAAAA
49157469 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
49157485 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
49157501 T
1 T
49157502 ATGTATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:49157490 original size:50 final size:50
Alignment explanation
Indices: 49157436--49157647 Score: 165
Period size: 50 Copynumber: 3.9 Consensus size: 50
49157426 TGAAAATTAA
*
49157436 GTAAGTTATGTAATTTATGAATAAT-TAAAAAAATGTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTTATGAATAATATAAAAAAAT-TAAGTTATGTAAGTT
* * ** *
49157486 GTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTAT
1 GTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAA-GT-T
* *
49157538 GTATTGCATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGTAAGTTATGTAAGTT
1 GTA-AG--TT-ATGTAAGTTATG--A---AT-AAT-A-T-AAAAAAATTAAGTTATGTAAGTT
* * **
49157601 GTAAGTTATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAA
1 GTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAA
49157648 TTTATGTATT
Statistics
Matches: 127, Mismatches: 19, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
50 51 0.40
51 8 0.06
52 5 0.04
53 4 0.03
54 2 0.02
55 2 0.02
56 12 0.09
59 12 0.09
60 2 0.02
61 2 0.02
62 4 0.03
63 5 0.04
64 2 0.02
65 16 0.13
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.43
Consensus pattern (50 bp):
GTAAGTTATGTAAGTTATGAATAATATAAAAAAATTAAGTTATGTAAGTT
Found at i:49157496 original size:25 final size:25
Alignment explanation
Indices: 49157365--49157506 Score: 89
Period size: 25 Copynumber: 5.6 Consensus size: 25
49157355 AAAATTATGC
*
49157365 TATGTAAGTTATGTAAGTCATATAAGT
1 TATGTAAGTTATGTAAGT--TGTAAGT
49157392 TATGT-A-TTATGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAG-T-TGTAAGT
* * *
49157417 TAT-TTA-TTATGAAAATTAAGTAAGT
1 TATGTAAGTTATGTAAGTT--GTAAGT
* * **
49157442 TATGTAATTTATGAATAA-TT-AAAAA
1 TATGTAAGTTATG--TAAGTTGTAAGT
*
49157467 AATGTAAGTTATGTAAGTTGTAAGT
1 TATGTAAGTTATGTAAGTTGTAAGT
49157492 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
49157507 TAATATTAAT
Statistics
Matches: 91, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
23 4 0.04
24 4 0.04
25 65 0.71
26 4 0.04
27 10 0.11
28 2 0.02
29 2 0.02
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.43
Consensus pattern (25 bp):
TATGTAAGTTATGTAAGTTGTAAGT
Found at i:49157506 original size:34 final size:33
Alignment explanation
Indices: 49157365--49157506 Score: 119
Period size: 34 Copynumber: 4.2 Consensus size: 33
49157355 AAAATTATGC
49157365 TATGTAAGTTATGTAAGTCATATAAGTTATGT--AT
1 TATGTAAGTTATGTAAGT--TATAA-TTATGTAAAT
* *
49157399 TATGTAAGTTATGTAAGTTATTTATTATGAAAAT
1 TATGTAAGTTATGTAAGTTA-TAATTATGTAAAT
* * * *
49157433 TAAGTAAGTTATGTAATTTATGAATAAT-TAAAAA
1 TATGTAAGTTATGTAAGTTAT-AATTATGT-AAAT
* * *
49157467 AATGTAAGTTATGTAAGTTGTAAGTTATGTAAGT
1 TATGTAAGTTATGTAAGTTATAA-TTATGTAAAT
49157501 TATGTA
1 TATGTA
49157507 TAATATTAAT
Statistics
Matches: 85, Mismatches: 16, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
32 7 0.08
33 5 0.06
34 72 0.85
35 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.17, T:0.43
Consensus pattern (33 bp):
TATGTAAGTTATGTAAGTTATAATTATGTAAAT
Found at i:49157525 original size:34 final size:34
Alignment explanation
Indices: 49157487--49157826 Score: 249
Period size: 34 Copynumber: 9.9 Consensus size: 34
49157477 ATGTAAGTTG
*
49157487 TAAGTTATGTAAGTTATGTATAATATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
**
49157521 TAAGTTATGTAATTTATG--T-AT-TGCATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
* * ** *
49157551 GTAAGTTATGTAATTTATGAATAAT-TAAAAAAAAG
1 -TAAGTTATGTAATTTATGTATAATAT-TAATTAAT
* *
49157586 TAAGTTATGTAAGTTGTAAGTTATGTAAGTTATGT-ATAATAT
1 TAAGTTATGTAA-TT-TATG-TA--TAA--TAT-TAATTA-AT
* * *
49157628 TAA-TTAAT-TAAGTTATGTAATTTATGTATTCCATTAAT
1 TAAGTT-ATGTAATTTATGT-A--TA-ATATT-AATTAAT
*
49157666 GTAAGTTATGTAAGTTATGTATAATATTAATTAAT
1 -TAAGTTATGTAATTTATGTATAATATTAATTAAT
* *
49157701 TAAGTCATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
*
49157732 CAAGTTATGTAATTTATGTATAATATTAATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
*
49157766 TAAGTTATGTAATTTATGTATAATATTAA-T--G
1 TAAGTTATGTAATTTATGTATAATATTAATTAAT
*
49157797 TAAGTTATGTAATTTATGTTTAATATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAAT
49157827 GTAAGTTATG
Statistics
Matches: 250, Mismatches: 30, Indels: 54
0.75 0.09 0.16
Matches are distributed among these distances:
30 7 0.03
31 75 0.30
32 2 0.01
33 3 0.01
34 87 0.35
35 11 0.04
36 7 0.03
37 4 0.02
38 6 0.02
39 19 0.08
40 13 0.05
41 9 0.04
42 7 0.03
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.46
Consensus pattern (34 bp):
TAAGTTATGTAATTTATGTATAATATTAATTAAT
Found at i:49157559 original size:31 final size:31
Alignment explanation
Indices: 49157400--49157839 Score: 301
Period size: 31 Copynumber: 14.5 Consensus size: 31
49157390 GTTATGTATT
* *
49157400 ATGTAAGTTATGTAAGTTATTTATTATGAAAATTA
1 ATGTAAGTTATGTAATTTATGTA-T-T--AAATTA
**
49157435 A-GTAAGTTATGTAATTTATGAATAATTAAAAAA
1 ATGTAAGTTATGTAATTTATG--T-ATTAAATTA
* *
49157468 ATGTAAGTTATGTAA-GT-TG---TAAGTT-
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
*
49157493 ATGTAAGTTATGT-A--TA-ATATT-AATTA
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
**
49157519 AT-TAAGTTATGTAATTTATGTATTGCATTA
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
**
49157549 ATGTAAGTTATGTAATTTATGAATAATTAAAAAA
1 ATGTAAGTTATGTAATTTATG--T-ATTAAATTA
* * *
49157583 AAGTAAGTTATGTAA-GT-TG---TAAGTT-
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
*
49157608 ATGTAAGTTATGT-A--TA-ATATT-AATTA
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
**
49157634 AT-TAAGTTATGTAATTTATGTATTCCATTA
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
*
49157664 ATGTAAGTTATGTAAGTTATGTATAATATTAATTA
1 ATGTAAGTTATGTAATTTATGTAT--TA--AATTA
*
49157699 AT-TAAGTCATGTAATTTATGTA-TAATATTA
1 ATGTAAGTTATGTAATTTATGTATTAA-ATTA
*
49157729 ATGCAAGTTATGTAATTTATGTATAATATTAATTA
1 ATGTAAGTTATGTAATTTATGTAT--TA--AATTA
49157764 AT-TAAGTTATGTAATTTATGTA-TAATATTA
1 ATGTAAGTTATGTAATTTATGTATTAA-ATTA
49157794 ATGTAAGTTATGTAATTTATGT-TTAATATTA
1 ATGTAAGTTATGTAATTTATGTATTAA-ATTA
49157825 ATGTAAGTTATGTAA
1 ATGTAAGTTATGTAA
49157840 GTTGTAAGTT
Statistics
Matches: 328, Mismatches: 34, Indels: 90
0.73 0.08 0.20
Matches are distributed among these distances:
23 2 0.01
24 2 0.01
25 51 0.16
26 14 0.04
28 4 0.01
29 10 0.03
30 24 0.07
31 102 0.31
32 4 0.01
33 9 0.03
34 88 0.27
35 14 0.04
36 3 0.01
37 1 0.00
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (31 bp):
ATGTAAGTTATGTAATTTATGTATTAAATTA
Done.