Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 154 of 195
Found at i:25767959 original size:30 final size:30
Alignment explanation
Indices: 25767923--25767983 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
25767913 GACTTTTGAT
*
25767923 ACTTACATGAAAGGCAATAATGTAAGTCTA
1 ACTTACATGAAAGGCAATAAGGTAAGTCTA
* *
25767953 ACTTACATGGAAGGCAATGAGGTAAGTCTA
1 ACTTACATGAAAGGCAATAAGGTAAGTCTA
25767983 A
1 A
25767984 ATTAATAGCC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (30 bp):
ACTTACATGAAAGGCAATAAGGTAAGTCTA
Found at i:25768120 original size:12 final size:12
Alignment explanation
Indices: 25768098--25768131 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
25768088 AAATAAATTA
*
25768098 CATCATCATCAT
1 CATCGTCATCAT
*
25768110 CATTGTCATCAT
1 CATCGTCATCAT
25768122 CATCGTCATC
1 CATCGTCATC
25768132 TTAAATTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (12 bp):
CATCGTCATCAT
Found at i:25769187 original size:76 final size:73
Alignment explanation
Indices: 25769105--25769270 Score: 181
Period size: 73 Copynumber: 2.2 Consensus size: 73
25769095 ACCGAGTCCA
* * *
25769105 AAAATGGGAGGAAACTGATGAAAACAAAAAC-ATAAGAATGCAGAACGTGATGTGGAAACCATGA
1 AAAATGGTAGGAAACTGATG---A-AAAAACTATAACAATGCAGAACGTGATGCGGAAACCATGA
*
25769169 ACACTAGGTTTG
62 ACACCAGGTTTG
* * * * ** * *
25769181 AAAATGGTAGGAAGCTAATGAAGAAACTATAACAATGCGGCCCGTGATGCGTAAACCATGAGCAC
1 AAAATGGTAGGAAACTGATGAAAAAACTATAACAATGCAGAACGTGATGCGGAAACCATGAACAC
25769246 CAGGTTTG
66 CAGGTTTG
25769254 AAAATGGTAGGAAACTG
1 AAAATGGTAGGAAACTG
25769271 GTGTAATTAG
Statistics
Matches: 75, Mismatches: 14, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
72 5 0.07
73 53 0.71
76 17 0.23
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (73 bp):
AAAATGGTAGGAAACTGATGAAAAAACTATAACAATGCAGAACGTGATGCGGAAACCATGAACAC
CAGGTTTG
Found at i:25769611 original size:2 final size:2
Alignment explanation
Indices: 25769606--25769633 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25769596 TATCAGTCAA
25769606 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25769634 CACATGCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25777409 original size:79 final size:79
Alignment explanation
Indices: 25777267--25777425 Score: 230
Period size: 79 Copynumber: 2.0 Consensus size: 79
25777257 ATCATCATTA
* * * * *
25777267 TCATTCATTTATCATTAGCTACGATCACTACTATAACCCGTGACATTGGTCGTCTTGACAATTTC
1 TCATTCATTTATCATTAGCTAAGATCACTACTATAACCCGTGACATTAGCCGTATCGACAATTTC
25777332 ATCCTCATGATCAT
66 ATCCTCATGATCAT
* * *
25777346 TCATTCATTTATCATTAGCTATAG-TCACTATTATAACCTGTGACATTAGCCGTATCGATAATTT
1 TCATTCATTTATCATTAGCTA-AGATCACTACTATAACCCGTGACATTAGCCGTATCGACAATTT
25777410 CATCCTCATGATCAT
65 CATCCTCATGATCAT
25777425 T
1 T
25777426 ATTAACTATT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 70 0.99
80 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.11, T:0.38
Consensus pattern (79 bp):
TCATTCATTTATCATTAGCTAAGATCACTACTATAACCCGTGACATTAGCCGTATCGACAATTTC
ATCCTCATGATCAT
Found at i:25782377 original size:2 final size:2
Alignment explanation
Indices: 25782370--25782396 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25782360 ATAAATTTAA
25782370 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
25782397 ATAATGCAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25787464 original size:10 final size:10
Alignment explanation
Indices: 25787451--25787475 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25787441 TAAAAGTGAG
25787451 AAAAAAAATT
1 AAAAAAAATT
25787461 AAAAAAAATT
1 AAAAAAAATT
25787471 AAAAA
1 AAAAA
25787476 TTGATTTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:25787718 original size:21 final size:21
Alignment explanation
Indices: 25787692--25787733 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
25787682 ATTTTAAATT
25787692 TTTATAATATAAA-ATAATTAA
1 TTTAT-ATATAAATATAATTAA
*
25787713 TTTATATATAAATTTAATTAA
1 TTTATATATAAATATAATTAA
25787734 ATATATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTATATATAAATATAATTAA
Found at i:25788962 original size:22 final size:23
Alignment explanation
Indices: 25788919--25788964 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
25788909 TAAAATTAAA
*
25788919 TATTATATTTTGATTTTGTTATT
1 TATTATATTTTGACTTTGTTATT
25788942 TATTA-ATTTATGACTTT-TTATT
1 TATTATATTT-TGACTTTGTTATT
25788964 T
1 T
25788965 GAAATTTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (23 bp):
TATTATATTTTGACTTTGTTATT
Found at i:25794629 original size:20 final size:20
Alignment explanation
Indices: 25794604--25794652 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
25794594 TTTCTTTAGT
25794604 TTTCAA-TTCAATTCAATTTC
1 TTTCAAGTT-AATTCAATTTC
*
25794624 TTTCAAGTTAATTTAATTT-
1 TTTCAAGTTAATTCAATTTC
25794643 TTTACAAGTT
1 TTT-CAAGTT
25794653 TAATCTAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 3 0.12
20 21 0.81
21 2 0.08
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.53
Consensus pattern (20 bp):
TTTCAAGTTAATTCAATTTC
Found at i:25794665 original size:21 final size:20
Alignment explanation
Indices: 25794627--25794665 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
25794617 CAATTTCTTT
* *
25794627 CAAGTTAATTTAATTTTTTA
1 CAAGTTAATCTAAGTTTTTA
25794647 CAAGTTTAATCTAAGTTTT
1 CAAG-TTAATCTAAGTTTT
25794666 CAAGCAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.51
Consensus pattern (20 bp):
CAAGTTAATCTAAGTTTTTA
Found at i:25799667 original size:23 final size:23
Alignment explanation
Indices: 25799637--25799681 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
25799627 TGATAGATCA
25799637 TCCATTGTTCTT-TTAAGCTTTCT
1 TCCATTGTT-TTCTTAAGCTTTCT
*
25799660 TCCATTGTTTTCTTAAGTTTTC
1 TCCATTGTTTTCTTAAGCTTTC
25799682 AGTTCAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.13, C:0.20, G:0.09, T:0.58
Consensus pattern (23 bp):
TCCATTGTTTTCTTAAGCTTTCT
Found at i:25800742 original size:73 final size:73
Alignment explanation
Indices: 25800606--25800746 Score: 176
Period size: 74 Copynumber: 1.9 Consensus size: 73
25800596 AGGAAGATTT
* * * *
25800606 TTATTTTAAAAAAATTAATACTTTTAACTTTTCCTTAAATCATTTATTTTGAAATATATTTTTTG
1 TTATTTTAAAAAAATTAATACTTTCAACTTTTCCTTAAAGCATTTAGTTAGAAATATATTTTTTG
25800671 AATTTTTA
66 AATTTTTA
* * * * *
25800679 TTATTTTAAAAAAAATTGATACTTTCAAC-TTTCCTTAAAAGCGTTTCGTTAGTAATTTATTTTT
1 TTATTTT-AAAAAAATTAATACTTTCAACTTTTCCTT-AAAGCATTTAGTTAGAAATATATTTTT
25800743 TGAA
64 TGAA
25800747 AAAAAATTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
73 14 0.25
74 43 0.75
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.51
Consensus pattern (73 bp):
TTATTTTAAAAAAATTAATACTTTCAACTTTTCCTTAAAGCATTTAGTTAGAAATATATTTTTTG
AATTTTTA
Found at i:25800803 original size:135 final size:129
Alignment explanation
Indices: 25800664--25800991 Score: 378
Period size: 135 Copynumber: 2.5 Consensus size: 129
25800654 TTGAAATATA
*
25800664 TTTTTTGAATTTTTATTATTTTAAAAAAAATTGATACTTTCAAC-TTTCCTTAAAAGCGTTTCGT
1 TTTTTTTAATTTTT-TTA-TTTAAAAAAAATTGATA-TTTCAACTTTTCCTTAAAA-CGTTT--T
* * *
25800728 TAGTAATTTA-TTTTTTGAAAAAAAATTATTTTCTAAGTAAAATTGATATTTTCAAC-TTTTTCT
60 TAG-AATATATTTTTTTGAAAAAAAATTATTTTCTAAGGAAAATTGATACTTTCAACTTTTTTCT
25800791 TAAAATTT
124 TAAAA--T
*
25800799 TTTTTATTATTATTTTTTTATTTAAGAAAAAA-TGATAGTTTCAACTTTTCCTTAAAAACCTTTT
1 TTTTT-TTA--ATTTTTTTATTTAA-AAAAAATTGATA-TTTCAACTTTTCCTT-AAAACGTTTT
* ** * *
25800863 TTGAATATATTTTTTTGAAAAAATTTTATTTTTTAAGGAAAATTGATGCTTTCAACTTTTTTCTT
60 TAGAATATATTTTTTTGAAAAAAAATTATTTTCTAAGGAAAATTGATACTTTCAACTTTTTTCTT
25800928 AAAAT
125 AAAAT
* *
25800933 TTTTTTT-ATTTTTTTATTTAAGAAAAGTTGATATTTCAACTTTTCCTTAAAACGTTTTT
1 TTTTTTTAATTTTTTTATTTAAAAAAAATTGATATTTCAACTTTTCCTTAAAACGTTTTT
25800992 TGAAAATTTT
Statistics
Matches: 170, Mismatches: 14, Indels: 25
0.81 0.07 0.12
Matches are distributed among these distances:
128 10 0.06
129 19 0.11
130 19 0.11
133 2 0.01
134 11 0.06
135 48 0.28
136 31 0.18
137 20 0.12
138 10 0.06
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.52
Consensus pattern (129 bp):
TTTTTTTAATTTTTTTATTTAAAAAAAATTGATATTTCAACTTTTCCTTAAAACGTTTTTAGAAT
ATATTTTTTTGAAAAAAAATTATTTTCTAAGGAAAATTGATACTTTCAACTTTTTTCTTAAAAT
Found at i:25800878 original size:61 final size:60
Alignment explanation
Indices: 25800761--25800878 Score: 148
Period size: 60 Copynumber: 1.9 Consensus size: 60
25800751 AATTATTTTC
* * * * * * *
25800761 TAAGTAAAATTGATATTTTCAACTTTTTCTTAAAATTTTTTTTATTATTATTTTTTTATT
1 TAAGAAAAAATGATAGTTTCAACTTTTCCTTAAAACTTTTTTGAATATTATTTTTTTATT
25800821 TAAGAAAAAATGATAGTTTCAACTTTTCCTTAAAAACCTTTTTTGAATA-TATTTTTTT
1 TAAGAAAAAATGATAGTTTCAACTTTTCCTT-AAAA-CTTTTTTGAATATTATTTTTTT
25800879 GAAAAAATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
60 27 0.55
61 13 0.27
62 9 0.18
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (60 bp):
TAAGAAAAAATGATAGTTTCAACTTTTCCTTAAAACTTTTTTGAATATTATTTTTTTATT
Found at i:25800991 original size:54 final size:55
Alignment explanation
Indices: 25800885--25801035 Score: 134
Period size: 54 Copynumber: 2.7 Consensus size: 55
25800875 TTTTGAAAAA
* * *
25800885 ATTTTATTTTTTAAGGAAAATTGATGCTTTCAACTTTTTTCTTAAAATTTTTTTT
1 ATTTTATTTTTTAAGGAAAATTGATGATTTCAACTTTTTCCTTAAAAGTTTTTTT
*
25800940 ATTTT-TTTATTTAA-GAAAAGTTGAT-ATTTCAAC-TTTTCCTTAAAACGTTTTTTGAAA
1 ATTTTATTT-TTTAAGGAAAA-TTGATGATTTCAACTTTTTCCTTAAAA-GTTTTTT---T
* **
25800997 ATTTT-TATTTTTAAGGGAAATTGATTCTTT-AACTTTTTC
1 ATTTTAT-TTTTTAAGGAAAATTGATGATTTCAACTTTTTC
25801036 AAAATTTTGA
Statistics
Matches: 80, Mismatches: 6, Indels: 17
0.78 0.06 0.17
Matches are distributed among these distances:
53 11 0.14
54 21 0.26
55 15 0.19
57 19 0.24
58 14 0.17
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (55 bp):
ATTTTATTTTTTAAGGAAAATTGATGATTTCAACTTTTTCCTTAAAAGTTTTTTT
Found at i:25802697 original size:15 final size:15
Alignment explanation
Indices: 25802677--25802725 Score: 71
Period size: 15 Copynumber: 3.1 Consensus size: 15
25802667 ACAATTTTGA
25802677 AATTCAAAGATTCGC
1 AATTCAAAGATTCGC
25802692 AATTCAAAGATTCGC
1 AATTCAAAGATTCGC
*
25802707 AAGATTCAAATATTCGC
1 -A-ATTCAAAGATTCGC
25802724 AA
1 AA
25802726 GAATTTCAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
15 16 0.52
16 2 0.06
17 13 0.42
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (15 bp):
AATTCAAAGATTCGC
Found at i:25802715 original size:17 final size:17
Alignment explanation
Indices: 25802678--25802761 Score: 79
Period size: 17 Copynumber: 5.1 Consensus size: 17
25802668 CAATTTTGAA
25802678 ATTCAAAGATTCGC-A-
1 ATTCAAAGATTCGCAAG
25802693 ATTCAAAGATTCGCAAG
1 ATTCAAAGATTCGCAAG
*
25802710 ATTCAAATATTCGCAAG
1 ATTCAAAGATTCGCAAG
*
25802727 AATTTC-AA-ATTCACAAG
1 -A-TTCAAAGATTCGCAAG
*
25802744 AATT-AGAGATTCGCAAG
1 -ATTCAAAGATTCGCAAG
25802761 A
1 A
25802762 ACTAGAGATT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
15 14 0.24
16 5 0.08
17 34 0.58
18 3 0.05
19 3 0.05
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (17 bp):
ATTCAAAGATTCGCAAG
Found at i:25802762 original size:17 final size:17
Alignment explanation
Indices: 25802699--25802781 Score: 69
Period size: 17 Copynumber: 4.9 Consensus size: 17
25802689 CGCAATTCAA
*
25802699 AGATTCGCAAG-ATTCAA
1 AGATTCGCAAGAATT-AG
* **
25802716 ATATTCGCAAGAATTTC
1 AGATTCGCAAGAATTAG
* *
25802733 AAATTCACAAGAATTAG
1 AGATTCGCAAGAATTAG
*
25802750 AGATTCGCAAGAACTAG
1 AGATTCGCAAGAATTAG
**
25802767 AGATTTACAAGAATT
1 AGATTCGCAAGAATT
25802782 TCGGATTCAC
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
17 49 0.94
18 3 0.06
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (17 bp):
AGATTCGCAAGAATTAG
Found at i:25803042 original size:17 final size:17
Alignment explanation
Indices: 25802952--25803082 Score: 68
Period size: 17 Copynumber: 7.7 Consensus size: 17
25802942 TAAGATTTTC
* *
25802952 AGATTCGCAAGAATTAA
1 AGATTTGCAAGAATTGA
* * *
25802969 AAATTTGTAAGATTTTGA
1 AGATTTGCAAGA-ATTGA
* * *
25802987 AAATTTGCCAGAGTT-A
1 AGATTTGCAAGAATTGA
**
25803003 AGATTTGCAAGAACTCAA
1 AGATTTGCAAGAA-TTGA
25803021 AGATTTGCAAGAATTGA
1 AGATTTGCAAGAATTGA
*** * * *
25803038 AGATTCATAAAAACTCA
1 AGATTTGCAAGAATTGA
**
25803055 A-ATTCACAAGAATTGA
1 AGATTTGCAAGAATTGA
25803071 AGATTTGCAAGA
1 AGATTTGCAAGA
25803083 TTTTTTTATT
Statistics
Matches: 84, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
16 23 0.27
17 34 0.40
18 27 0.32
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.28
Consensus pattern (17 bp):
AGATTTGCAAGAATTGA
Found at i:25803114 original size:17 final size:17
Alignment explanation
Indices: 25803028--25803118 Score: 60
Period size: 17 Copynumber: 5.5 Consensus size: 17
25803018 CAAAGATTTG
25803028 CAAGAATTGAAGATTCA
1 CAAGAATTGAAGATTCA
* * * *
25803045 TAAAAACTCAA-ATTCA
1 CAAGAATTGAAGATTCA
**
25803061 CAAGAATTGAAGATTTG
1 CAAGAATTGAAGATTCA
* **** *
25803078 CAAGATTTTTTTATTTA
1 CAAGAATTGAAGATTCA
25803095 CAAGAATTGAAGATTCA
1 CAAGAATTGAAGATTCA
25803112 CAA-AATT
1 CAAGAATT
25803119 CAAAGATTTA
Statistics
Matches: 51, Mismatches: 22, Indels: 3
0.67 0.29 0.04
Matches are distributed among these distances:
16 16 0.31
17 35 0.69
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (17 bp):
CAAGAATTGAAGATTCA
Found at i:25803128 original size:34 final size:34
Alignment explanation
Indices: 25803017--25803130 Score: 97
Period size: 34 Copynumber: 3.4 Consensus size: 34
25803007 TTGCAAGAAC
* * *
25803017 TCAAAGATTTGCAAGAATTGAAGATTCATAAAAAC
1 TCAAAGATTTACAAGAATTGAAGATTCA-CAAAAT
* ** *
25803052 TC-AA-ATTCACAAGAATTGAAGATTTGCAAGAT
1 TCAAAGATTTACAAGAATTGAAGATTCACAAAAT
*****
25803084 TTTTTTATTTACAAGAATTGAAGATTCACAAAAT
1 TCAAAGATTTACAAGAATTGAAGATTCACAAAAT
25803118 TCAAAGATTTACA
1 TCAAAGATTTACA
25803131 TTTGAAAAAC
Statistics
Matches: 58, Mismatches: 19, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
32 4 0.07
33 18 0.31
34 34 0.59
35 2 0.03
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (34 bp):
TCAAAGATTTACAAGAATTGAAGATTCACAAAAT
Found at i:25803241 original size:22 final size:23
Alignment explanation
Indices: 25803210--25803276 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
25803200 CACATTCAAT
25803210 ATTTCAAAGGTTTTCATTCAAAAA
1 ATTTC-AAGGTTTTCATTCAAAAA
*
25803234 ATTT-AAGG-TTTCA-TC-CAAA
1 ATTTCAAGGTTTTCATTCAAAAA
*
25803253 ATTTCAAGGATTTTGATTCAAAAA
1 ATTTCAAGG-TTTTCATTCAAAAA
25803277 CTTTGGGGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
19 7 0.20
20 6 0.17
21 5 0.14
22 8 0.23
23 2 0.06
24 7 0.20
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.37
Consensus pattern (23 bp):
ATTTCAAGGTTTTCATTCAAAAA
Found at i:25807609 original size:15 final size:14
Alignment explanation
Indices: 25807589--25807619 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
25807579 TTATCTTGTT
25807589 TAAATGAAAGAAAAA
1 TAAATGAAA-AAAAA
25807604 TAAATGAAAAAAAA
1 TAAATGAAAAAAAA
25807618 TA
1 TA
25807620 CAACTAACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (14 bp):
TAAATGAAAAAAAA
Found at i:25808865 original size:78 final size:75
Alignment explanation
Indices: 25808744--25808957 Score: 265
Period size: 75 Copynumber: 2.8 Consensus size: 75
25808734 TTTTTTGAAA
* *
25808744 TTGAAAAGATTTTTA-TT-TAAGGAAAATTGATACTTTCAACTTTTACTTAAAAACGTTTCTTGT
1 TTGAAAAAATTTTTATTTCTAAGGAAAATTGATACTTTCAACTTTTACTTAAAAACATTT-TT-T
*
25808807 GAAATTTA-TTTT
64 -AAATATATTTTT
* * *
25808819 TTGAAAAAATTTTTACTTTCTAAGAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTA
1 TTGAAAAAATTTTTA-TTTCTAAGGAAAATTGATACTTTCAACTTTTACTTAAAAACATTTTTTA
25808884 AATATATTTTT
65 AATATATTTTT
* * * *
25808895 TTG-AAAAATTTTTATTTTCTAAGGGAAATTGATACTTTCAACTTTTCCTTAAAATCTTTTTTT
1 TTGAAAAAATTTTTA-TTTCTAAGGAAAATTGATACTTTCAACTTTTACTTAAAAACATTTTTT
25808958 TATTCTTTTA
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
75 73 0.60
76 8 0.07
77 4 0.03
78 37 0.30
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.49
Consensus pattern (75 bp):
TTGAAAAAATTTTTATTTCTAAGGAAAATTGATACTTTCAACTTTTACTTAAAAACATTTTTTAA
ATATATTTTT
Found at i:25809047 original size:53 final size:54
Alignment explanation
Indices: 25808909--25809048 Score: 165
Period size: 53 Copynumber: 2.6 Consensus size: 54
25808899 AAAATTTTTA
* * * ***
25808909 TTTTCTAAGGGAAATTGATACTTTCAACTTTTCCTTAAAATCTTTTTTTTATTCT
1 TTTTTTAAGGAAAATTGATACTTT-AACTTTTCCTTAAAATCTTTTTTTGAAAAT
* **
25808964 TTTATTTAAGAAAAATTGATACTTCGACTTTTCCTTAAAA-CTTTTTTTGAAAAT
1 TTT-TTTAAGGAAAATTGATACTTTAACTTTTCCTTAAAATCTTTTTTTGAAAAT
*
25809018 TTTTTTAAGGAAAATTGATTCTTTAACTTTT
1 TTTTTTAAGGAAAATTGATACTTTAACTTTT
25809049 TCAAAAGTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 4
0.81 0.15 0.05
Matches are distributed among these distances:
53 24 0.34
54 13 0.18
55 17 0.24
56 17 0.24
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (54 bp):
TTTTTTAAGGAAAATTGATACTTTAACTTTTCCTTAAAATCTTTTTTTGAAAAT
Found at i:25809729 original size:25 final size:25
Alignment explanation
Indices: 25809698--25809748 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
25809688 CAATTTTAGT
*
25809698 GGTCGTAGGATTAGGCGGTTTGGTG
1 GGTCGTAGGATTAGGCAGTTTGGTG
*
25809723 GGTCGTAGGATTAGGTAGTTTGGTG
1 GGTCGTAGGATTAGGCAGTTTGGTG
25809748 G
1 G
25809749 TGATGGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.14, C:0.06, G:0.47, T:0.33
Consensus pattern (25 bp):
GGTCGTAGGATTAGGCAGTTTGGTG
Found at i:25819755 original size:2 final size:2
Alignment explanation
Indices: 25819748--25819773 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25819738 AAATATTAAT
25819748 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
25819774 ATGGTAGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25820342 original size:24 final size:24
Alignment explanation
Indices: 25820315--25820404 Score: 85
Period size: 24 Copynumber: 3.6 Consensus size: 24
25820305 AATAATAAAA
25820315 TATATT-TTTTTATTTTATTAAATT
1 TATATTATTTTTATTTT-TTAAATT
*
25820339 TATATATAATTTTATTAAAATTTTAAA-T
1 TATAT-TATTTTTATT----TTTTAAATT
* *
25820367 TATATTACTTTTATATTTTAAATT
1 TATATTATTTTTATTTTTTAAATT
25820391 TATATTATTTTTAT
1 TATATTATTTTTAT
25820405 GTTATTATAT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
23 7 0.13
24 19 0.35
25 1 0.02
26 7 0.13
27 8 0.15
28 6 0.11
29 5 0.09
30 2 0.04
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (24 bp):
TATATTATTTTTATTTTTTAAATT
Found at i:25821782 original size:179 final size:181
Alignment explanation
Indices: 25821466--25821828 Score: 588
Period size: 179 Copynumber: 2.0 Consensus size: 181
25821456 ATAAAATTTC
25821466 TAAGCATTTTCTTAGCCTTTTGCGAATCAAACCGACATTAAATAAATTAAAAAACAGAAAAAAAA
1 TAAGCATTTTCTTAGCCTTTTGCGAATCAAACCGACATTAAATAAATT-----A-AGAAAAAAAA
* *
25821531 AAAAAAGGCCTGTAAGCTAGTCTTTTCAAAACGCGTATAAGGATAAAAGGGCGGATAAGACCCAC
60 AAAAAAGGCCTGTAAGCTAGTATTTTCAAAACGCGTATAAGGATAAAAGGACGGATAAGACCCAC
25821596 ACAAATTACTTACATTTCCATTCTTCGTGGCCAAAACACGTCGAAACTCGCATGCAT
125 ACAAATTACTTACATTTCCATTCTTCGTGGCCAAAACACGTCGAAACTCGCATGCAT
*
25821653 TAAGCATTTTCTTGGCCTTTTGCGAATCAAACCGACATTAAATAAATT-A-AAAAAAAAAAAAAA
1 TAAGCATTTTCTTAGCCTTTTGCGAATCAAACCGACATTAAATAAATTAAGAAAAAAAAAAAAAA
* *
25821716 GGCCTGTAAGCTAGTATTTTCAAAACGCGTGTAAGGATAAAAGGACGGATAAGACCTC-CTCAAA
66 GGCCTGTAAGCTAGTATTTTCAAAACGCGTATAAGGATAAAAGGACGGATAAGACC-CACACAAA
*
25821780 TTACTTACATTTTCATTCTTCGTGGCCAAAACACGTCGAAACTCGCATG
130 TTACTTACATTTCCATTCTTCGTGGCCAAAACACGTCGAAACTCGCATG
25821829 TATTGAAAGA
Statistics
Matches: 169, Mismatches: 6, Indels: 10
0.91 0.03 0.05
Matches are distributed among these distances:
179 120 0.71
180 2 0.01
187 47 0.28
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.25
Consensus pattern (181 bp):
TAAGCATTTTCTTAGCCTTTTGCGAATCAAACCGACATTAAATAAATTAAGAAAAAAAAAAAAAA
GGCCTGTAAGCTAGTATTTTCAAAACGCGTATAAGGATAAAAGGACGGATAAGACCCACACAAAT
TACTTACATTTCCATTCTTCGTGGCCAAAACACGTCGAAACTCGCATGCAT
Found at i:25829050 original size:11 final size:11
Alignment explanation
Indices: 25829030--25829064 Score: 56
Period size: 10 Copynumber: 3.4 Consensus size: 11
25829020 AAGTAAAAGG
25829030 AAAA-AGAAAA
1 AAAAGAGAAAA
25829040 AAAAGAGAAAA
1 AAAAGAGAAAA
25829051 AAAAGA-AAAA
1 AAAAGAGAAAA
25829061 AAAA
1 AAAA
25829065 CCAAAAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.50
11 12 0.50
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AAAAGAGAAAA
Found at i:25829899 original size:14 final size:14
Alignment explanation
Indices: 25829880--25829906 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25829870 CTTAGGGAGT
25829880 TTTCTTGATTTTTC
1 TTTCTTGATTTTTC
25829894 TTTCTTGATTTTT
1 TTTCTTGATTTTT
25829907 TTTAATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.11, G:0.07, T:0.74
Consensus pattern (14 bp):
TTTCTTGATTTTTC
Found at i:25835639 original size:15 final size:15
Alignment explanation
Indices: 25835621--25835663 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
25835611 GAAGATTCGA
*
25835621 ATTTTAAGGTTTTGG
1 ATTTTAAGGGTTTGG
*
25835636 ATTTTAGGGGTTTGG
1 ATTTTAAGGGTTTGG
25835651 A-TTTAAGTGGTTT
1 ATTTTAAG-GGTTT
25835664 TAGAAATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.19, C:0.00, G:0.30, T:0.51
Consensus pattern (15 bp):
ATTTTAAGGGTTTGG
Found at i:25835673 original size:24 final size:24
Alignment explanation
Indices: 25835646--25835692 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
25835636 ATTTTAGGGG
*
25835646 TTTGGATTTAAGTGGTTTTAGAAA
1 TTTGGATTTAAGGGGTTTTAGAAA
*
25835670 TTTGGATTTTAGGGGTTTTAGAA
1 TTTGGATTTAAGGGGTTTTAGAA
25835693 TCCTAGGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.47
Consensus pattern (24 bp):
TTTGGATTTAAGGGGTTTTAGAAA
Found at i:25835979 original size:19 final size:19
Alignment explanation
Indices: 25835957--25836007 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
25835947 ATTTTATTTT
25835957 TATTTTTATTTTTTAGAG-A
1 TATTTTTATTTTTTA-AGCA
*
25835976 TATTATTATTTTTTAAGCA
1 TATTTTTATTTTTTAAGCA
*
25835995 T-TTTTAATTTTTT
1 TATTTTTATTTTTT
25836008 TTAATTATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.25, C:0.02, G:0.06, T:0.67
Consensus pattern (19 bp):
TATTTTTATTTTTTAAGCA
Found at i:25836103 original size:23 final size:22
Alignment explanation
Indices: 25836055--25836105 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
25836045 TTAAAACAAT
* *
25836055 TAAAAATTTATCCTAACAAATT
1 TAAAAATTTATCATAACAAATA
* *
25836077 TAAAAATTTATCATGTATAAATA
1 TAAAAATTTATCAT-AACAAATA
25836100 TAAAAA
1 TAAAAA
25836106 ATACTCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.35
Consensus pattern (22 bp):
TAAAAATTTATCATAACAAATA
Found at i:25836979 original size:19 final size:19
Alignment explanation
Indices: 25836955--25836994 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
25836945 GTTGGGACTA
*
25836955 GGTAGGGTGGCTGTCTGAT
1 GGTAGGGTGGCTATCTGAT
25836974 GGTAGGGTGGCTATCTGAT
1 GGTAGGGTGGCTATCTGAT
25836993 GG
1 GG
25836995 GGTCAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.10, G:0.47, T:0.30
Consensus pattern (19 bp):
GGTAGGGTGGCTATCTGAT
Found at i:25837116 original size:12 final size:12
Alignment explanation
Indices: 25837095--25837139 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
25837085 TTTTTAATTT
*
25837095 TTAATGTTATTA
1 TTAATATTATTA
25837107 TTAATATTATTA
1 TTAATATTATTA
*
25837119 TCGAA-ATTATTA
1 T-TAATATTATTA
25837131 TTAATATTA
1 TTAATATTA
25837140 AACTAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
11 2 0.07
12 24 0.86
13 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (12 bp):
TTAATATTATTA
Found at i:25837767 original size:102 final size:102
Alignment explanation
Indices: 25837659--25838126 Score: 567
Period size: 102 Copynumber: 4.6 Consensus size: 102
25837649 GAGTTAGAGG
* * *
25837659 ATAACAACAACCAAGATTAAACTACGATTTTGAATTAAAGAGATTGAGATTGAATCGCGAATTGG
1 ATAACAACAATCAAGATTAAACTACGATTTTGAATTAAAGAGATCGAGATTGAATCGCGAATCGG
*
25837724 AGAATAAAGAGACCGAGATTAAACCACGAGTCAAAAA
66 AGAATAAAGAGACCGAGATTAAACCACAAGTCAAAAA
* * * * * *
25837761 ATAACAACAATCAAGATTAAACTATGATTTTGAATTAAAGAGATCGGGATTGAACCACAAATCGA
1 ATAACAACAATCAAGATTAAACTACGATTTTGAATTAAAGAGATCGAGATTGAATCGCGAATCGG
* * * **
25837826 AGAATAAAGAGATCAAGATTAAATCATGAGTCAAAAA
66 AGAATAAAGAGACCGAGATTAAACCACAAGTCAAAAA
* * * * * * *
25837863 ATAACAACAATCGAGATTAAACTGCAATTTTGAATTAAAGAGATTGAGATTGAACCGCGAATTGT
1 ATAACAACAATCAAGATTAAACTACGATTTTGAATTAAAGAGATCGAGATTGAATCGCGAATCGG
* * * * * *
25837928 AGAATAAAAAGATCGGGATTAAATCATAAGTCAGAAA
66 AGAATAAAGAGACCGAGATTAAACCACAAGTCAAAAA
* * * * *
25837965 ATAACAACAATCAAGATTAAACTGCGATTTTGAATTAAAGAGATCGAGATTAAATCACGAGTCAG
1 ATAACAACAATCAAGATTAAACTACGATTTTGAATTAAAGAGATCGAGATTGAATCGCGAATCGG
* * *
25838030 AGAATAAAGAGACCGAGTTTAAACCGCAAGTTAAAAA
66 AGAATAAAGAGACCGAGATTAAACCACAAGTCAAAAA
* * * * *
25838067 ATAATAACAATCGAGATTAAACTATGATTTTGAATTAAAGAGATCGGGATTAAATCGCGA
1 ATAACAACAATCAAGATTAAACTACGATTTTGAATTAAAGAGATCGAGATTGAATCGCGA
25838127 GTCAAAATAA
Statistics
Matches: 313, Mismatches: 53, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
102 313 1.00
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.23
Consensus pattern (102 bp):
ATAACAACAATCAAGATTAAACTACGATTTTGAATTAAAGAGATCGAGATTGAATCGCGAATCGG
AGAATAAAGAGACCGAGATTAAACCACAAGTCAAAAA
Found at i:25838371 original size:22 final size:22
Alignment explanation
Indices: 25838346--25838405 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
25838336 AATCAAATTT
*
25838346 ATGCCCGGAAGTTTTAAAAATC
1 ATGCCCGGAAGTCTTAAAAATC
* **
25838368 ATGCCCGGTAGTCTTAGGAATC
1 ATGCCCGGAAGTCTTAAAAATC
* *
25838390 ATGCCCGCAGGTCTTA
1 ATGCCCGGAAGTCTTA
25838406 TAGAATTGAC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (22 bp):
ATGCCCGGAAGTCTTAAAAATC
Found at i:25838735 original size:23 final size:23
Alignment explanation
Indices: 25838699--25838744 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
25838689 ATTAAAATTA
* *
25838699 TGCCTGGAGATCTTATAGAATCG
1 TGCCTAGAGATCTTACAGAATCG
*
25838722 TGCCTAGAGGTCTTACAGAATCG
1 TGCCTAGAGATCTTACAGAATCG
25838745 ACTCAGACAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (23 bp):
TGCCTAGAGATCTTACAGAATCG
Found at i:25838755 original size:220 final size:220
Alignment explanation
Indices: 25838368--25838833 Score: 634
Period size: 220 Copynumber: 2.1 Consensus size: 220
25838358 TTTAAAAATC
* ** * * *
25838368 ATGCCCGGTA-GTCTTAGGAATCATGCCCGCAGGTCTTATAGAATTGACTGGGACAACACTGCAA
1 ATGCCCGG-AGGTCTTAGAAATCATGCCCGCAGGTCTTATAGAATCAACTAGAACAACACCGCAA
* *
25838432 GCCAAAAAATCAAGAATCGATCAAGATAACACCACGAATTGAATTAATGCCCGGAGGTCTTACAA
65 GCCAAAAAA-CAAGAATCGATCAAGATAACACCACGAATTAAATTAATGCCCGGAGATCTTACAA
25838497 AATCGTGCCCAAAGGTCTTACAGAATCGACTAAGACAACATCGCAAGTCAAAAAATCAAGAATCG
129 AATCGTGCCCAAAGGTCTTACAGAATCGACTAAGACAACATCGCAAGTCAAAAAATCAAGAATCG
* *
25838562 ATCGGGATAACACCGCGAATCGAATTT
194 ATCAGGATAACACCGCGAATCAAATTT
* *
25838589 ATGCCCGGAGGTCTTAGAAATCATGCTCGGAGGTCTTATAGAATCAACTAGAACAACACCGCAAG
1 ATGCCCGGAGGTCTTAGAAATCATGCCCGCAGGTCTTATAGAATCAACTAGAACAACACCGCAAG
* * * * *
25838654 TCGAAAAGAA-AA-AATCGATCAGGATAACATCACGAATTAAAATT-ATGCCTGGAGATCTTATA
66 -CCAAAA-AACAAGAATCGATCAAGATAACACCACGAATT-AAATTAATGCCCGGAGATCTTACA
* * * * * *
25838716 GAATCGTGCCTAGAGGTCTTACAGAATCGACTCAGACAACATCGTAAGTCAAAAAATCAAGAATT
128 AAATCGTGCCCAAAGGTCTTACAGAATCGACTAAGACAACATCGCAAGTCAAAAAATCAAGAATC
*
25838781 GATCAGGATAACACTGCGAATCAAATTT
193 GATCAGGATAACACCGCGAATCAAATTT
*
25838809 ATGCCCAGAGGTCTTAGAAATCATG
1 ATGCCCGGAGGTCTTAGAAATCATG
25838834 GTCAAAGGTC
Statistics
Matches: 216, Mismatches: 25, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
220 148 0.69
221 61 0.28
222 5 0.02
223 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (220 bp):
ATGCCCGGAGGTCTTAGAAATCATGCCCGCAGGTCTTATAGAATCAACTAGAACAACACCGCAAG
CCAAAAAACAAGAATCGATCAAGATAACACCACGAATTAAATTAATGCCCGGAGATCTTACAAAA
TCGTGCCCAAAGGTCTTACAGAATCGACTAAGACAACATCGCAAGTCAAAAAATCAAGAATCGAT
CAGGATAACACCGCGAATCAAATTT
Found at i:25838843 original size:110 final size:109
Alignment explanation
Indices: 25838368--25838846 Score: 491
Period size: 111 Copynumber: 4.3 Consensus size: 109
25838358 TTTAAAAATC
* ** * * *
25838368 ATGCCCGGTA-GTCTTAGGAATCATGCCCGCAGGTCTTATAGAATTGACTGGGACAACA-CTGCA
1 ATGCCCGG-AGGTCTTAGAAATCATGCCCAAAGGTCTTACAGAATCGACT-AGACAACATC-GCA
* * ** *
25838431 AGCCAAAAAATCAAGAATCGATCAAGATAACACCACGAATTGAATTA
63 AGTCAAAAAATCAAGAATCGATCAGGATAACACCACGAATCAAATTT
* *
25838478 ATGCCCGGAGGTCTTACAAAATCGTGCCCAAAGGTCTTACAGAATCGACTAAGACAACATCGCAA
1 ATGCCCGGAGGTCTTA-GAAATCATGCCCAAAGGTCTTACAGAATCGACT-AGACAACATCGCAA
* * *
25838543 GTCAAAAAATCAAGAATCGATCGGGATAACACCGCGAATCGAATTT
64 GTCAAAAAATCAAGAATCGATCAGGATAACACCACGAATCAAATTT
* ** * * *
25838589 ATGCCCGGAGGTCTTAGAAATCATGCTCGGAGGTCTTATAGAATCAACTAGAACAACACCGCAAG
1 ATGCCCGGAGGTCTTAGAAATCATGCCCAAAGGTCTTACAGAATCGACTAG-ACAACATCGCAAG
* * *
25838654 TCGAAAAGAA--AA-AATCGATCAGGATAACATCACGAATTAAAATT
65 TC-AAAA-AATCAAGAATCGATCAGGATAACACCACGAATCAAATTT
* * * * * * *
25838698 ATGCCTGGAGATCTTATAGAATCGTGCCTAGAGGTCTTACAGAATCGACTCAGACAACATCGTAA
1 ATGCCCGGAGGTCTTAGA-AATCATGCCCAAAGGTCTTACAGAATCGACT-AGACAACATCGCAA
* **
25838763 GTCAAAAAATCAAGAATTGATCAGGATAACACTGCGAATCAAATTT
64 GTCAAAAAATCAAGAATCGATCAGGATAACACCACGAATCAAATTT
* **
25838809 ATGCCCAGAGGTCTTAGAAATCATGGTCAAAGGTCTTA
1 ATGCCCGGAGGTCTTAGAAATCATGCCCAAAGGTCTTA
25838847 GAAATCAAGC
Statistics
Matches: 303, Mismatches: 55, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
108 2 0.01
109 48 0.16
110 111 0.37
111 139 0.46
112 3 0.01
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (109 bp):
ATGCCCGGAGGTCTTAGAAATCATGCCCAAAGGTCTTACAGAATCGACTAGACAACATCGCAAGT
CAAAAAATCAAGAATCGATCAGGATAACACCACGAATCAAATTT
Found at i:25838975 original size:132 final size:131
Alignment explanation
Indices: 25838729--25838978 Score: 304
Period size: 132 Copynumber: 1.9 Consensus size: 131
25838719 TCGTGCCTAG
* *
25838729 AGGTCTTACAGAATCGACTCAGACAACATCGTAAGTCAAAAAATCAAGAATTGATCAGGATAACA
1 AGGTCTTACAGAATCAACTCAGACAACATCATAAGTCAAAAAA-CAAGAATTGATCAGGATAACA
* * * **
25838794 CTGCGAATCAAATTTATGCCCAGAGGTCTTAGAAATCATGGTCAAAGGTCTTAGAAATCAAGCCT
65 CGGCGAATCAAAATTATACCCAGAGGTCTTAGAAATCATGCCCAAAGGTCTTAGAAATCAAGCCT
25838859 GA
130 GA
** * *
25838861 AGGTCTTACAGAATCAACTGGGACAATATCATAAGTCAAAAAA-AAGAAATTGATCGGGATAACA
1 AGGTCTTACAGAATCAACTCAGACAACATCATAAGTCAAAAAACAAG-AATTGATCAGGATAACA
* * * * * * *
25838925 CGGTGAATTAAAATTATATCCGGAGGTCTTATAGAATCGTGCCCAGAGGTCTTA
65 CGGCGAATCAAAATTATACCCAGAGGTCTTAGA-AATCATGCCCAAAGGTCTTA
25838979 CAGAATCGAC
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
130 3 0.03
131 41 0.42
132 54 0.55
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (131 bp):
AGGTCTTACAGAATCAACTCAGACAACATCATAAGTCAAAAAACAAGAATTGATCAGGATAACAC
GGCGAATCAAAATTATACCCAGAGGTCTTAGAAATCATGCCCAAAGGTCTTAGAAATCAAGCCTG
A
Found at i:25839034 original size:242 final size:242
Alignment explanation
Indices: 25838597--25839074 Score: 608
Period size: 242 Copynumber: 2.0 Consensus size: 242
25838587 TTATGCCCGG
* * * * *
25838597 AGGTCTTAGAAATCATGCTCGGAGGTCTTATAGAATCAACTAGAACAACACCGCAAGTCGAAAAG
1 AGGTCTTAGAAATCAAGCTCGAAGGTCTTACAGAATCAACTAGAACAACACCACAAGTCGAAAAA
*
25838662 AAAAAATCGATCAGGATAACATCACGAATTAAAATTATGCCTGGAGATCTTATAGAATCGTGCCT
66 AAAAAATCGATCAGGATAACATCACGAATTAAAATTATGCCTGGAGATCTTATAGAATCGTGCCC
*
25838727 AGAGGTCTTACAGAATCGACTCAGACAACATCGTAAGTCAAAAAATCAAGAATTGATCAGGATAA
131 AGAGGTCTTACAGAATCGACTCAGACAACATCGTAAGTCAAAAAATCAAGAATCGATCAGGATAA
** *
25838792 CACTGCGAATCAAATTTATGCCC-AGAGGTCTTAGAAATCATGGTCAA
196 CACCACAAATCAAATTTATGCCCGA-AGGTCTTAGAAATCATGGTCAA
* * * * *
25838839 AGGTCTTAGAAATCAAGC-CTGAAGGTCTTACAGAATCAACTGGGACAATATCATAAGTC-AAAA
1 AGGTCTTAGAAATCAAGCTC-GAAGGTCTTACAGAATCAACTAGAACAACACCACAAGTCGAAAA
* * ** * *
25838902 AAAAGAAATTGATCGGGATAACA-CGGTGAATTAAAATTATATCC-GGAGGTCTTATAGAATCGT
65 AAAA-AAATCGATCAGGATAACATC-ACGAATTAAAATTAT-GCCTGGAGATCTTATAGAATCGT
* * **
25838965 GCCCAGAGGTCTTACAGAATCGACTGAGATAACA-CTGTAAGTCAAAAAATCAAGAATCGATTGG
127 GCCCAGAGGTCTTACAGAATCGACTCAGACAACATC-GTAAGTCAAAAAATCAAGAATCGATCAG
** *
25839029 GATAACACCACAAATTGAATTTATGCTCGAAGGTCTTAGAAATCAT
191 GATAACACCACAAATCAAATTTATGCCCGAAGGTCTTAGAAATCAT
25839075 ACCAGGAGGT
Statistics
Matches: 202, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
241 10 0.05
242 189 0.94
243 3 0.01
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (242 bp):
AGGTCTTAGAAATCAAGCTCGAAGGTCTTACAGAATCAACTAGAACAACACCACAAGTCGAAAAA
AAAAAATCGATCAGGATAACATCACGAATTAAAATTATGCCTGGAGATCTTATAGAATCGTGCCC
AGAGGTCTTACAGAATCGACTCAGACAACATCGTAAGTCAAAAAATCAAGAATCGATCAGGATAA
CACCACAAATCAAATTTATGCCCGAAGGTCTTAGAAATCATGGTCAA
Found at i:25843050 original size:15 final size:15
Alignment explanation
Indices: 25843032--25843130 Score: 87
Period size: 15 Copynumber: 6.4 Consensus size: 15
25843022 GAAGATTCGA
25843032 ATTTTAAGGTTTTGG
1 ATTTTAAGGTTTTGG
*
25843047 ATTTTAAGGGTTTGG
1 ATTTTAAGGTTTTGG
*
25843062 A-TTTAACGGTTTAAAGG
1 ATTTTAA-GGTTT--TGG
*
25843079 -TTTAAAGGTTTTGG
1 ATTTTAAGGTTTTGG
*
25843093 ATTTTAAAGGGTTTGG
1 ATTTT-AAGGTTTTGG
25843109 A-TTTAAGGGATTTTGG
1 ATTTTAA-GG-TTTTGG
25843125 ATTTTA
1 ATTTTA
25843131 GGGGTTTAAG
Statistics
Matches: 67, Mismatches: 8, Indels: 16
0.74 0.09 0.18
Matches are distributed among these distances:
14 9 0.13
15 27 0.40
16 21 0.31
17 10 0.15
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.46
Consensus pattern (15 bp):
ATTTTAAGGTTTTGG
Found at i:25843098 original size:16 final size:16
Alignment explanation
Indices: 25843032--25843130 Score: 84
Period size: 16 Copynumber: 6.4 Consensus size: 16
25843022 GAAGATTCGA
25843032 ATTTT-AAGGTTTTGG
1 ATTTTAAAGGTTTTGG
*
25843047 ATTTT-AAGGGTTTGG
1 ATTTTAAAGGTTTTGG
* *
25843062 A-TTTAACGGTTTAAAGG
1 ATTTTAAAGGTTT--TGG
25843079 --TTTAAAGGTTTTGG
1 ATTTTAAAGGTTTTGG
*
25843093 ATTTTAAAGGGTTTGG
1 ATTTTAAAGGTTTTGG
*
25843109 A-TTTAAGGGATTTTGG
1 ATTTTAAAGG-TTTTGG
25843125 ATTTTA
1 ATTTTA
25843131 GGGGTTTAAG
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
14 5 0.07
15 27 0.40
16 30 0.44
17 6 0.09
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.46
Consensus pattern (16 bp):
ATTTTAAAGGTTTTGG
Found at i:25843137 original size:31 final size:31
Alignment explanation
Indices: 25843032--25843130 Score: 89
Period size: 31 Copynumber: 3.2 Consensus size: 31
25843022 GAAGATTCGA
* * *
25843032 ATTTT-AAGGTTTTGGATTTTAAGGGTTTGG
1 ATTTTAAAGGGTTTGGATTTAAAGGTTTTGG
*
25843062 A-TTT-AACGGTTTAAAGG-TTTAAAGGTTTTGG
1 ATTTTAAAGGGTTT---GGATTTAAAGGTTTTGG
*
25843093 ATTTTAAAGGGTTTGGATTTAAGGGATTTTGG
1 ATTTTAAAGGGTTTGGATTTAAAGG-TTTTGG
25843125 ATTTTA
1 ATTTTA
25843131 GGGGTTTAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
29 9 0.16
30 3 0.05
31 20 0.36
32 17 0.30
33 7 0.12
ACGTcount: A:0.25, C:0.01, G:0.27, T:0.46
Consensus pattern (31 bp):
ATTTTAAAGGGTTTGGATTTAAAGGTTTTGG
Found at i:25843446 original size:19 final size:21
Alignment explanation
Indices: 25843408--25843461 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 21
25843398 TTTATTTTTA
25843408 TTATTATTTTTT-AGAAA-TT
1 TTATTATTTTTTAAGAAATTT
*
25843427 TTATTATTTTTTAAG-CATTT
1 TTATTATTTTTTAAGAAATTT
*
25843447 TTAATATATTTTTAA
1 TTATTAT-TTTTTAA
25843462 TTATTATCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 13 0.43
20 10 0.33
21 7 0.23
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (21 bp):
TTATTATTTTTTAAGAAATTT
Found at i:25843459 original size:22 final size:21
Alignment explanation
Indices: 25843401--25843459 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
25843391 AAATTATTTT
*
25843401 ATTTTTATTATTATTTTTTAGA
1 ATTTTTAATA-TATTTTTTAGA
* *
25843423 AATTTT-AT-TATTTTTTAAGC
1 ATTTTTAATATATTTTTT-AGA
25843443 ATTTTTAATATATTTTT
1 ATTTTTAATATATTTTT
25843460 AATTATTATC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 8 0.27
20 7 0.23
21 3 0.10
22 12 0.40
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (21 bp):
ATTTTTAATATATTTTTTAGA
Found at i:25844521 original size:3 final size:3
Alignment explanation
Indices: 25844515--25844613 Score: 76
Period size: 3 Copynumber: 32.0 Consensus size: 3
25844505 TCTTTTCTTT
* *
25844515 TTA TTA TTA TTA TTA TTA TTA TTA TTAA TAA TT- TTGA TCA TTAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TT-A TTA TT-A TTA
* * * *
25844562 TTAA TTA TTA ATG TTA TTA TTA ATA TTA TTA TCTA -AA TTA TTA TTA
1 TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
25844608 ATA TTA
1 TTA TTA
25844614 AACTAAAAAA
Statistics
Matches: 75, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
2 3 0.04
3 61 0.81
4 11 0.15
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:25845184 original size:11 final size:12
Alignment explanation
Indices: 25845154--25845185 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
25845144 TGATTAAAAG
25845154 GCAATATATTTT
1 GCAATATATTTT
25845166 G-AATATATTTT
1 GCAATATATTTT
25845177 GCAA-ATATT
1 GCAATATATT
25845186 ACGGTGAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 16 0.84
12 3 0.16
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (12 bp):
GCAATATATTTT
Found at i:25847961 original size:10 final size:10
Alignment explanation
Indices: 25847946--25847970 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
25847936 TAAACTTAAT
25847946 AAATAAATAA
1 AAATAAATAA
25847956 AAATAAATAA
1 AAATAAATAA
25847966 AAATA
1 AAATA
25847971 CAACATGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATAAATAA
Found at i:25848814 original size:26 final size:26
Alignment explanation
Indices: 25848762--25848820 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
25848752 ATCATAAAAA
* * *
25848762 TATGGTGAGTTGTCATTAATTTTTTT
1 TATGGTGAGTTGTCACTAAATTCTTT
*
25848788 TATGGTGAGTTGTTACTAAATTCTTT
1 TATGGTGAGTTGTCACTAAATTCTTT
*
25848814 TAGGGTG
1 TATGGTG
25848821 TGATTGATTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.05, G:0.24, T:0.51
Consensus pattern (26 bp):
TATGGTGAGTTGTCACTAAATTCTTT
Found at i:25849761 original size:20 final size:19
Alignment explanation
Indices: 25849736--25849836 Score: 69
Period size: 19 Copynumber: 5.2 Consensus size: 19
25849726 TTTGAATGGA
25849736 TTTTAGGTTTCACTTTAAGG
1 TTTTAGGTTTCAC-TTAAGG
** *
25849756 TTTTAGGGTTTTGCTTATGG
1 TTTTA-GGTTTCACTTAAGG
** *
25849776 -TTTAGGGTTTCTTTTAGGG
1 TTTTA-GGTTTCACTTAAGG
* *
25849795 TTTTGGGTTTTCACCTAAGG
1 TTTTAGG-TTTCACTTAAGG
* *
25849815 TTTAAGATTTCACTTAAGG
1 TTTTAGGTTTCACTTAAGG
25849834 TTT
1 TTT
25849837 CCAAATTCAC
Statistics
Matches: 62, Mismatches: 16, Indels: 7
0.73 0.19 0.08
Matches are distributed among these distances:
19 31 0.50
20 25 0.40
21 6 0.10
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (19 bp):
TTTTAGGTTTCACTTAAGG
Found at i:25849780 original size:39 final size:39
Alignment explanation
Indices: 25849737--25849836 Score: 98
Period size: 39 Copynumber: 2.6 Consensus size: 39
25849727 TTGAATGGAT
* * *
25849737 TTTAGGTTTCACTTTAAGGTTTTAGGGTTTT-GCTTATGG
1 TTTAGGTTTCACTTTAAGGTTTT-GGGTTTTCACCTAAGG
* *
25849776 TTTAGGGTTTC-TTTTAGGGTTTTGGGTTTTCACCTAAGG
1 TTTA-GGTTTCACTTTAAGGTTTTGGGTTTTCACCTAAGG
*
25849815 TTTAAGATTTCAC-TTAAGGTTT
1 TTT-AGGTTTCACTTTAAGGTTT
25849837 CCAAATTCAC
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
38 7 0.14
39 35 0.71
40 7 0.14
ACGTcount: A:0.17, C:0.09, G:0.24, T:0.50
Consensus pattern (39 bp):
TTTAGGTTTCACTTTAAGGTTTTGGGTTTTCACCTAAGG
Found at i:25849827 original size:19 final size:19
Alignment explanation
Indices: 25849803--25849869 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
25849793 GGTTTTGGGT
25849803 TTTCACCTAAGGTTTAAGA
1 TTTCACCTAAGGTTTAAGA
*
25849822 TTTCACTTAAGGTTTCCAA-A
1 TTTCACCTAAGGTTT--AAGA
*
25849842 -TTCACCT-AGGATTTAAGG
1 TTTCACCTAAGG-TTTAAGA
25849860 TTTCACCTAA
1 TTTCACCTAA
25849870 AATTAGGAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
17 2 0.05
18 3 0.08
19 30 0.77
20 2 0.05
21 2 0.05
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (19 bp):
TTTCACCTAAGGTTTAAGA
Found at i:25850357 original size:1 final size:1
Alignment explanation
Indices: 25850351--25850388 Score: 76
Period size: 1 Copynumber: 38.0 Consensus size: 1
25850341 GTCTTTACAT
25850351 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
25850389 CTAAAGCTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:25851846 original size:20 final size:19
Alignment explanation
Indices: 25851821--25851898 Score: 63
Period size: 20 Copynumber: 3.9 Consensus size: 19
25851811 ATCCCTTTTT
25851821 TATTTTTTATTTATTATTA
1 TATTTTTTATTTATTATTA
25851840 CTATTTTATTATTATATT-TTA
1 -TATTTT-TTATT-TATTATTA
* *
25851861 TTATATTATATTT-TTATT-
1 -TATTTTTTATTTATTATTA
25851879 TATTTAATTTATTTATTATT
1 TATTT--TTTATTTATTATT
25851899 TTTTATTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
17 4 0.09
18 2 0.04
19 9 0.19
20 15 0.32
21 13 0.28
22 4 0.09
ACGTcount: A:0.28, C:0.01, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTTTTATTTATTATTA
Found at i:25851857 original size:13 final size:13
Alignment explanation
Indices: 25851818--25851905 Score: 74
Period size: 13 Copynumber: 6.5 Consensus size: 13
25851808 TCAATCCCTT
*
25851818 TTTTATT-TTTTA
1 TTTTATTATTATA
25851830 -TTTATTATTACTA
1 TTTTATTATTA-TA
25851843 TTTTATTATTATA
1 TTTTATTATTATA
25851856 TTTTATTATATTATA
1 TTTTA-T-TATTATA
25851871 TTTTTATTTATT-TA
1 -TTTTA-TTATTATA
* *
25851885 ATTTATTTATTATT
1 TTTTA-TTATTATA
25851899 TTTTATT
1 TTTTATT
25851906 TATGACCAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
11 6 0.09
12 2 0.03
13 21 0.32
14 18 0.28
15 11 0.17
16 7 0.11
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTATTATTATA
Found at i:25852711 original size:35 final size:35
Alignment explanation
Indices: 25852664--25852756 Score: 123
Period size: 35 Copynumber: 2.7 Consensus size: 35
25852654 GAAATTGAGT
*
25852664 CGCAAGTTAGAAAATAAAGATGACAAGGACAAAGC
1 CGCAAGTCAGAAAATAAAGATGACAAGGACAAAGC
* * **
25852699 CGCAAGTCAGAAAATAAAGATGACCAGGATAAATT
1 CGCAAGTCAGAAAATAAAGATGACAAGGACAAAGC
* *
25852734 TGCAAGTCAGAAAATAAAAATGA
1 CGCAAGTCAGAAAATAAAGATGA
25852757 TCTGGATGAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 51 1.00
ACGTcount: A:0.52, C:0.13, G:0.20, T:0.15
Consensus pattern (35 bp):
CGCAAGTCAGAAAATAAAGATGACAAGGACAAAGC
Found at i:25852823 original size:21 final size:21
Alignment explanation
Indices: 25852799--25852848 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
25852789 TGATTGATAC
*
25852799 AAAATTACAAGTCAAAAAATA
1 AAAATAACAAGTCAAAAAATA
* * *
25852820 AAAATAACAGGTTAGAAAATA
1 AAAATAACAAGTCAAAAAATA
*
25852841 AAGATAAC
1 AAAATAAC
25852849 CGGAACTAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.64, C:0.08, G:0.10, T:0.18
Consensus pattern (21 bp):
AAAATAACAAGTCAAAAAATA
Found at i:25853062 original size:32 final size:33
Alignment explanation
Indices: 25853018--25853490 Score: 284
Period size: 32 Copynumber: 14.7 Consensus size: 33
25853008 GGGTGTCAGG
* * *
25853018 TAAACTACGCTTAAATTTTCATTTGGTGCTAGC
1 TAAACTAGGCTTAAATTTTCATTTGGTGCCAAC
* * * *
25853051 TAAACTA-GCTTAAATTGTCA-TTAGTACAAAC
1 TAAACTAGGCTTAAATTTTCATTTGGTGCCAAC
* *
25853082 TAAACTAGGCTTTAAATTTTCA-TTGGTACCAGC
1 TAAACTAGGC-TTAAATTTTCATTTGGTGCCAAC
*
25853115 TAAACTAGGCTTAAATTTGCA-TTGGTGCC-A-
1 TAAACTAGGCTTAAATTTTCATTTGGTGCCAAC
** * * *
25853145 TAAACT-GAATTAAAATTTT--TATGAATGCCAAT
1 TAAACTAGGCTT-AAATTTTCATTTG-GTGCCAAC
* * * * * *
25853177 TACACTAGGCTTAAATTTTTATTAGATACTAAC
1 TAAACTAGGCTTAAATTTTCATTTGGTGCCAAC
* * *
25853210 TAAATTTGGCTTAAATTTTCA-TTGGTACCAGA-
1 TAAACTAGGCTTAAATTTTCATTTGGTGCCA-AC
* * *
25853242 TAATCTAGGCTTAAA-TTTCATTAGGTGACAAC
1 TAAACTAGGCTTAAATTTTCATTTGGTGCCAAC
* *
25853274 TAAACTGGGCTTAAATTTTCA-TTGGTACCAGA-
1 TAAACTAGGCTTAAATTTTCATTTGGTGCCA-AC
* * *
25853306 TAATCTAGGCTTAAA-TTTCATTAGGTGACAAC
1 TAAACTAGGCTTAAATTTTCATTTGGTGCCAAC
* * * **
25853338 TAAACTGGGCTTAAATTTTTATTTGGTGACATT
1 TAAACTAGGCTTAAATTTTCATTTGGTGCCAAC
* *
25853371 TAAA-TTGAGCTTAAATTTTCA-TTGGATACCAAC
1 TAAACTAG-GCTTAAATTTTCATTTGG-TGCCAAC
* * * * *
25853404 T-AATTTGGACTTAAATTTT-AATTGGTACCAAA
1 TAAACTAGG-CTTAAATTTTCATTTGGTGCCAAC
* * *
25853436 AAAACTAGGCTTAAAATTTCA-TTGGTGCCAGC
1 TAAACTAGGCTTAAATTTTCATTTGGTGCCAAC
* * *
25853468 TAAATTGGGCTTAAATTTGCATT
1 TAAACTAGGCTTAAATTTTCATT
25853491 GTTGCCATAT
Statistics
Matches: 341, Mismatches: 73, Indels: 52
0.73 0.16 0.11
Matches are distributed among these distances:
29 5 0.01
30 16 0.05
31 27 0.08
32 167 0.49
33 124 0.36
34 2 0.01
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (33 bp):
TAAACTAGGCTTAAATTTTCATTTGGTGCCAAC
Found at i:25853086 original size:64 final size:62
Alignment explanation
Indices: 25853018--25853505 Score: 344
Period size: 64 Copynumber: 7.6 Consensus size: 62
25853008 GGGTGTCAGG
* * * *
25853018 TAAACTACGCTTAAATTTTCATTTGGTGCTAGCTAAACTA-GCTTAAATTGTCATTAGTACAAAC
1 TAAACTAGGCTTAAATTTTCA-TTGGTACCAGATAAACTAGGCTTAAATT-TCATTAGTAC-AAC
* * * *
25853082 TAAACTAGGCTTTAAATTTTCATTGGTACCAGCTAAACTAGGCTTAAATTTGCATTGGTGCCA-
1 TAAACTAGGC-TTAAATTTTCATTGGTACCAGATAAACTAGGCTTAAATTT-CATTAGTACAAC
** * * * * *
25853145 TAAACT-GAATTAAAATTTTTA-TGAATGCCA-ATTACACTAGGCTTAAATTTTTATTAGATACT
1 TAAACTAGGCTT-AAATTTTCATTG-GTACCAGA-TAAACTAGGCTTAAA-TTTCATTAG-TAC-
25853207 AAC
60 AAC
* * *
25853210 TAAATTTGGCTTAAATTTTCATTGGTACCAGATAATCTAGGCTTAAATTTCATTAGGTGACAAC
1 TAAACTAGGCTTAAATTTTCATTGGTACCAGATAAACTAGGCTTAAATTTCATTA-GT-ACAAC
* *
25853274 TAAACTGGGCTTAAATTTTCATTGGTACCAGATAATCTAGGCTTAAATTTCATTAGGTGACAAC
1 TAAACTAGGCTTAAATTTTCATTGGTACCAGATAAACTAGGCTTAAATTTCATTA-GT-ACAAC
* * ** * *
25853338 TAAACTGGGCTTAAATTTTTATTTGGTGA-CATTTAAA-TTGAGCTTAAATTTTCATTGGATACC
1 TAAACTAGGCTTAAATTTTCA-TTGGT-ACCAGATAAACTAG-GCTTAAA-TTTCATTAG-TA-C
25853401 AAC
60 AAC
* * * * * * * *
25853404 T-AATTTGGACTTAAATTTTAATTGGTACCAAAAAAACTAGGCTTAAAATTTCATTGGTGCCAGC
1 TAAACTAGG-CTTAAATTTTCATTGGTACCAGATAAACTAGGCTT-AAATTTCATTAGT-ACAAC
* * * * * *
25853468 TAAATTGGGCTTAAATTTGCATTGTTGCCATATAAACT
1 TAAACTAGGCTTAAATTTTCATTGGTACCAGATAAACT
25853506 GGACTTACTA
Statistics
Matches: 347, Mismatches: 50, Indels: 54
0.77 0.11 0.12
Matches are distributed among these distances:
61 4 0.01
62 31 0.09
63 11 0.03
64 152 0.44
65 113 0.33
66 36 0.10
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (62 bp):
TAAACTAGGCTTAAATTTTCATTGGTACCAGATAAACTAGGCTTAAATTTCATTAGTACAAC
Found at i:25853428 original size:130 final size:129
Alignment explanation
Indices: 25853250--25853485 Score: 325
Period size: 130 Copynumber: 1.8 Consensus size: 129
25853240 GATAATCTAG
* * * * *
25853250 GCTTAAATTTCATTAGGTGACAACTAAACTGGGCTTAAATTTTCATTGGTACCAGATAATCTAGG
1 GCTTAAATTTCATTAGGTGACAACTAAACTGGACTTAAATTTTAATTGGTACCAAAAAAACTAGG
25853315 CTT-AAATTTCATTAGGTGACAACTAAACTGGGCTTAAATTTTTATTTGGTGACATTTAAATTGA
66 CTTAAAATTTCATT-GGTGACAACTAAACTGGGCTTAAATTTTTATTTGGTGACATTTAAATTGA
**
25853379 GCTTAAATTTTCATT-GGAT-ACCAACTAATTTGGACTTAAATTTTAATTGGTACCAAAAAAACT
1 GCTTAAA-TTTCATTAGG-TGA-CAACTAAACTGGACTTAAATTTTAATTGGTACCAAAAAAACT
* * *
25853442 AGGCTTAAAATTTCATTGGTGCCAGCTAAATTGGGCTTAAATTT
63 AGGCTTAAAATTTCATTGGTGACAACTAAACTGGGCTTAAATTT
25853486 GCATTGTTGC
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
129 10 0.11
130 73 0.78
131 10 0.11
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (129 bp):
GCTTAAATTTCATTAGGTGACAACTAAACTGGACTTAAATTTTAATTGGTACCAAAAAAACTAGG
CTTAAAATTTCATTGGTGACAACTAAACTGGGCTTAAATTTTTATTTGGTGACATTTAAATTGA
Found at i:25853811 original size:22 final size:22
Alignment explanation
Indices: 25853793--25853865 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
25853783 TTAAGCTTGT
25853793 ATGCTAACTAATATGAGCTTAC
1 ATGCTAACTAATATGAGCTTAC
* * * *
25853815 ATGCCAGCTAA-ACTGGGCTTAT
1 ATGCTAACTAATA-TGAGCTTAC
* * * *
25853837 GTGCTAGCTAATTTGAGCTTGC
1 ATGCTAACTAATATGAGCTTAC
25853859 ATGCTAA
1 ATGCTAA
25853866 TTAGACTGGG
Statistics
Matches: 37, Mismatches: 12, Indels: 4
0.70 0.23 0.08
Matches are distributed among these distances:
21 1 0.03
22 36 0.97
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.32
Consensus pattern (22 bp):
ATGCTAACTAATATGAGCTTAC
Found at i:25853874 original size:44 final size:44
Alignment explanation
Indices: 25853794--25853879 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 44
25853784 TAAGCTTGTA
*
25853794 TGCTAACTAATATGAGCTTACATGCCAGCTAAACTGGGCTTATG
1 TGCTAACTAATATGAGCTTACATGCCAACTAAACTGGGCTTATG
* * * * * *
25853838 TGCTAGCTAATTTGAGCTTGCATGCTAATTAGACTGGGCTTA
1 TGCTAACTAATATGAGCTTACATGCCAACTAAACTGGGCTTA
25853880 AAACTTGGGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (44 bp):
TGCTAACTAATATGAGCTTACATGCCAACTAAACTGGGCTTATG
Found at i:25854054 original size:32 final size:33
Alignment explanation
Indices: 25854004--25854065 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
25853994 TAGATTTAAA
* * *
25854004 TTTCATTGAGTGCTAGCTAGACTAGGCTTAGAT
1 TTTCATAGAGTGCCAGCTAAACTAGGCTTAGAT
25854037 TTTCATAG-GTGCCAGCTAAACTAGGCTTA
1 TTTCATAGAGTGCCAGCTAAACTAGGCTTA
25854066 AAACCTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 19 0.73
33 7 0.27
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (33 bp):
TTTCATAGAGTGCCAGCTAAACTAGGCTTAGAT
Found at i:25854990 original size:6 final size:6
Alignment explanation
Indices: 25854974--25855053 Score: 56
Period size: 6 Copynumber: 13.0 Consensus size: 6
25854964 TTTCATTTAT
* * **
25854974 TTTTTC TTTTTTC TTTTTA TTTCTT- TGTTTC TTTCAC TTTTTC TTTTT-
1 TTTTTC -TTTTTC TTTTTC TTT-TTC TTTTTC TTTTTC TTTTTC TTTTTC
**
25855022 TTTTTC TTTTTC TCTTCACC TTTTTC TTTTTC
1 TTTTTC TTTTTC T-TT-TTC TTTTTC TTTTTC
25855054 ATTCTTTCAC
Statistics
Matches: 57, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
5 7 0.12
6 36 0.63
7 12 0.21
8 2 0.04
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTC
Found at i:25855017 original size:30 final size:32
Alignment explanation
Indices: 25854981--25855060 Score: 98
Period size: 30 Copynumber: 2.6 Consensus size: 32
25854971 TATTTTTTCT
25854981 TTTTTCTTTTTATTTCTTTGTTTCT-TTCA-C
1 TTTTTCTTTTTATTTCTTTGTTTCTCTTCACC
*
25855011 TTTTTCTTTTT-TTT-TTCTTTTTCTCTTCACC
1 TTTTTCTTTTTATTTCTT-TGTTTCTCTTCACC
25855042 TTTTTCTTTTTCA-TTCTTT
1 TTTTTCTTTTT-ATTTCTTT
25855061 CACATCTTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
28 2 0.05
29 9 0.21
30 15 0.35
31 12 0.28
32 3 0.07
33 2 0.05
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (32 bp):
TTTTTCTTTTTATTTCTTTGTTTCTCTTCACC
Found at i:25855022 original size:31 final size:32
Alignment explanation
Indices: 25854981--25855060 Score: 98
Period size: 31 Copynumber: 2.6 Consensus size: 32
25854971 TATTTTTTCT
25854981 TTTTTC-TTTTTATTTCTTTGTTTCT-TTCA-C
1 TTTTTCTTTTTTATTTCTTT-TTTCTCTTCACC
*
25855011 TTTTTCTTTTTTTTTTC-TTTTTCTCTTCACC
1 TTTTTCTTTTTTATTTCTTTTTTCTCTTCACC
*
25855042 TTTTTCTTTTTCA-TTCTTT
1 TTTTTCTTTTTTATTTCTTT
25855061 CACATCTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 5 0.12
30 15 0.35
31 23 0.53
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (32 bp):
TTTTTCTTTTTTATTTCTTTTTTCTCTTCACC
Found at i:25855058 original size:24 final size:23
Alignment explanation
Indices: 25855016--25855077 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 23
25855006 TTCACTTTTT
*
25855016 CTTTTTTTTTTCTTTTTCTCTTCAC-
1 CTTTTTTTTTTC--ATTCT-TTCACA
25855041 CTTTTTCTTTTTCATTCTTTCACA
1 CTTTTT-TTTTTCATTCTTTCACA
25855065 TCTTTTTTTTTTC
1 -CTTTTTTTTTTC
25855078 TTTGAGTGGA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 5 0.15
24 10 0.30
25 12 0.36
26 6 0.18
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (23 bp):
CTTTTTTTTTTCATTCTTTCACA
Found at i:25855078 original size:20 final size:20
Alignment explanation
Indices: 25855022--25855080 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 20
25855012 TTTTCTTTTT
* *
25855022 TTTTTCTTTTTCTCTTCACCTT
1 TTTTT-TTTTTCT-TTCACATC
25855044 TTTCTTTTTCATTCTTTCACATC
1 TTT-TTTTT--TTCTTTCACATC
25855067 TTTTTTTTTTCTTT
1 TTTTTTTTTTCTTT
25855081 GAGTGGATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
20 6 0.19
22 11 0.34
23 11 0.34
24 4 0.12
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTTTTTCTTTCACATC
Found at i:25855440 original size:21 final size:19
Alignment explanation
Indices: 25855408--25855458 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
25855398 TTTTTTCTTT
*
25855408 GTTTTTTCTTGA-TTTTTG
1 GTTTTTTCTTGAGCTTTTG
25855426 GCTTTTTTCTTTTGAGCTTTTG
1 G-TTTTTTC--TTGAGCTTTTG
*
25855448 GTTTTTCCTTG
1 GTTTTTTCTTG
25855459 TTTCTTTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
18 1 0.04
19 10 0.37
21 10 0.37
22 6 0.22
ACGTcount: A:0.04, C:0.12, G:0.18, T:0.67
Consensus pattern (19 bp):
GTTTTTTCTTGAGCTTTTG
Found at i:25855562 original size:12 final size:11
Alignment explanation
Indices: 25855538--25855599 Score: 60
Period size: 10 Copynumber: 5.9 Consensus size: 11
25855528 GTCATAACCA
*
25855538 TTTTCTTTCTC
1 TTTTCTTTTTC
25855549 TTTATCTTTTTC
1 TTT-TCTTTTTC
25855561 TTTTCTTTTT-
1 TTTTCTTTTTC
*
25855571 TTTTC-TCTTC
1 TTTTCTTTTTC
*
25855581 TTTT-TGTTTC
1 TTTTCTTTTTC
25855591 TTTT-TTTTT
1 TTTTCTTTTT
25855600 TTGACATACC
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
9 3 0.07
10 20 0.47
11 10 0.23
12 10 0.23
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:25855579 original size:29 final size:29
Alignment explanation
Indices: 25855538--25855601 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
25855528 GTCATAACCA
*
25855538 TTTTCTTTCTCTT-TATCTT-TTTCTTTTCT
1 TTTTTTTTCTCTTCT-TCTTGTTTCTTTT-T
*
25855567 TTTTTTTTCTCTTCTTTTTGTTTCTTTTT
1 TTTTTTTTCTCTTCTTCTTGTTTCTTTTT
25855596 TTTTTT
1 TTTTTT
25855602 GACATACCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.81
Consensus pattern (29 bp):
TTTTTTTTCTCTTCTTCTTGTTTCTTTTT
Found at i:25855601 original size:5 final size:5
Alignment explanation
Indices: 25855538--25855598 Score: 54
Period size: 5 Copynumber: 11.8 Consensus size: 5
25855528 GTCATAACCA
* *
25855538 TTTTC TTTCTC TTTATC TTTTTC TTTTC TTTTT TTTTC TCTTC TTTT-
1 TTTTC TTT-TC TTT-TC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
25855585 TGTTTC TTTT- TTTT
1 T-TTTC TTTTC TTTT
25855599 TTTGACATAC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
4 5 0.11
5 29 0.62
6 10 0.21
7 3 0.06
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:25856252 original size:9 final size:9
Alignment explanation
Indices: 25856238--25856272 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
25856228 AATCAAAACT
25856238 TTTTTTTTC
1 TTTTTTTTC
25856247 TTTTTTTTCC
1 TTTTTTTT-C
*
25856257 TTTTTTTCC
1 TTTTTTTTC
25856266 TTTTTTT
1 TTTTTTT
25856273 AAAGGCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.67
10 8 0.33
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:25857091 original size:6 final size:6
Alignment explanation
Indices: 25857065--25857114 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
25857055 GTTATAACCA
* * * *
25857065 TTTTCT TTATCT TTATCT TTTTCT TTTCCT TTTT-T TTCTCT TTTT-T
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
25857111 TTTT
1 TTTT
25857115 GACATGCCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
5 9 0.24
6 28 0.76
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTCT
Found at i:25857091 original size:23 final size:23
Alignment explanation
Indices: 25857065--25857114 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
25857055 GTTATAACCA
25857065 TTTT-CTTTATCTTTATCTTTTTC
1 TTTTCCTTT-TCTTTATCTTTTTC
* * *
25857088 TTTTCCTTTTTTTTCTCTTTTTT
1 TTTTCCTTTTCTTTATCTTTTTC
25857111 TTTT
1 TTTT
25857115 GACATGCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTCCTTTTCTTTATCTTTTTC
Found at i:25858536 original size:3 final size:3
Alignment explanation
Indices: 25858528--25858574 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
25858518 TGGTATACTA
25858528 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
25858575 GCAATGAATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:25861946 original size:22 final size:22
Alignment explanation
Indices: 25861903--25861946 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
25861893 TGATTTTAGG
* *
25861903 GATACAAATACTTAATTCTAGA
1 GATACAAATACTAAATTATAGA
25861925 GATACAAATA-TAAATATATAGA
1 GATACAAATACTAAAT-TATAGA
25861947 TTACAAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (22 bp):
GATACAAATACTAAATTATAGA
Found at i:25863735 original size:19 final size:19
Alignment explanation
Indices: 25863713--25863754 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
25863703 GGTTTCAGAA
25863713 TTCACC-AAAATTTTAAGGT
1 TTCACCTAAAA-TTTAAGGT
25863732 TTCACCTAAAATTTAAGGT
1 TTCACCTAAAATTTAAGGT
25863751 TTCA
1 TTCA
25863755 TTTAGGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.38
Consensus pattern (19 bp):
TTCACCTAAAATTTAAGGT
Found at i:25866391 original size:53 final size:52
Alignment explanation
Indices: 25866287--25866391 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 52
25866277 TATAATCATA
* * *
25866287 CAAATTTGCTTATTAAGAATCCTTTTTCTCTTAGAATTCTTTTTTTACAAGT
1 CAAACTTGCCTATTAAGAATCCTTTTTCTCTTAGAATTCTTTTTCTACAAGT
** *
25866339 CAAACTTGCCTATTAAGAATTTTTTTTTCTCTTAGAATTCTTTTTCTGCAAGT
1 CAAACTTGCCTATTAAGAA-TCCTTTTTCTCTTAGAATTCTTTTTCTACAAGT
25866392 ATTTTTGTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
52 17 0.37
53 29 0.63
ACGTcount: A:0.26, C:0.16, G:0.09, T:0.50
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATCCTTTTTCTCTTAGAATTCTTTTTCTACAAGT
Found at i:25869825 original size:6 final size:6
Alignment explanation
Indices: 25869816--25869915 Score: 62
Period size: 6 Copynumber: 16.3 Consensus size: 6
25869806 CTATTTCCAT
* ** *
25869816 TTTTTA TTTTTA -TTTTA TTATTA TTTATTA TTACTA TTTTTA -TTATA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA
* * * *
25869863 TTTTATG TTTTTA TATATA -TTTTA TTTGGTTA TTTTTA TTTGTA TTTATTA
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTT--TTA TTTTTA TTTTTA TTT-TTA
25869914 TT
1 TT
25869916 ATTTTTGTTT
Statistics
Matches: 70, Mismatches: 16, Indels: 15
0.69 0.16 0.15
Matches are distributed among these distances:
5 12 0.17
6 38 0.54
7 14 0.20
8 6 0.09
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.72
Consensus pattern (6 bp):
TTTTTA
Found at i:25869841 original size:24 final size:24
Alignment explanation
Indices: 25869814--25869920 Score: 83
Period size: 24 Copynumber: 4.3 Consensus size: 24
25869804 GCCTATTTCC
25869814 ATTTTTTATTTTTATTTTATTATT
1 ATTTTTTATTTTTATTTTATTATT
* **
25869838 ATTTATTATTACTATTTTTATTA-T
1 ATTTTTTATTTTTA-TTTTATTATT
* * *
25869862 ATTTTATGTTTTTATATATATT-TT
1 ATTTTTTATTTTTAT-TTTATTATT
*
25869886 ATTTGGTTATTTTTATTTGTATTTATT
1 ATTT-TTTATTTTTATTT-TA-TTATT
25869913 ATTATTTT
1 ATT-TTTT
25869921 TGTTTAGTGG
Statistics
Matches: 61, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
23 1 0.02
24 32 0.52
25 18 0.30
26 2 0.03
27 7 0.11
28 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.72
Consensus pattern (24 bp):
ATTTTTTATTTTTATTTTATTATT
Found at i:25869844 original size:10 final size:10
Alignment explanation
Indices: 25869818--25869919 Score: 63
Period size: 10 Copynumber: 10.3 Consensus size: 10
25869808 ATTTCCATTT
*
25869818 TTTATTTTTA
1 TTTATTATTA
25869828 TTTTATTATTA
1 -TTTATTATTA
25869839 TTTATTATTA
1 TTTATTATTA
* *
25869849 -CTATTTTTA
1 TTTATTATTA
25869858 TTATATT-TTA
1 TT-TATTATTA
*
25869868 TGTTTTTA-TA
1 T-TTATTATTA
*
25869878 TATATT-TTA
1 TTTATTATTA
*
25869887 TTTGGTTATT-
1 TTT-ATTATTA
25869897 TTTATT-TGTA
1 TTTATTAT-TA
25869907 TTTATTATTA
1 TTTATTATTA
25869917 TTT
1 TTT
25869920 TTGTTTAGTG
Statistics
Matches: 71, Mismatches: 10, Indels: 21
0.70 0.10 0.21
Matches are distributed among these distances:
8 1 0.01
9 17 0.24
10 36 0.51
11 17 0.24
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.72
Consensus pattern (10 bp):
TTTATTATTA
Found at i:25869854 original size:30 final size:28
Alignment explanation
Indices: 25869820--25869915 Score: 81
Period size: 30 Copynumber: 3.4 Consensus size: 28
25869810 TTCCATTTTT
25869820 TATTTTTATTTTATTATTATTTATTATTA
1 TATTTTTATTTTATTATTATTTATTA-TA
* *
25869849 CTATTTTTATTATATT-TTATGTTTTTATA
1 -TATTTTTATTTTATTATTAT-TTATTATA
** *
25869878 TATATTTTATTTGGTTATT-TTTATT-TG
1 TAT-TTTTATTTTATTATTATTTATTATA
25869905 TATTTATTATT
1 TATTT-TTATT
25869916 ATTTTTGTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
26 2 0.04
27 9 0.16
28 7 0.13
29 16 0.29
30 21 0.38
ACGTcount: A:0.24, C:0.01, G:0.04, T:0.71
Consensus pattern (28 bp):
TATTTTTATTTTATTATTATTTATTATA
Found at i:25869873 original size:18 final size:19
Alignment explanation
Indices: 25869852--25869887 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25869842 ATTATTACTA
25869852 TTTTTAT-TATATTTTATG
1 TTTTTATATATATTTTATG
25869870 TTTTTATATATATTTTAT
1 TTTTTATATATATTTTAT
25869888 TTGGTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTATATATATTTTATG
Found at i:25869895 original size:19 final size:17
Alignment explanation
Indices: 25869850--25869921 Score: 58
Period size: 19 Copynumber: 4.1 Consensus size: 17
25869840 TTATTATTAC
25869850 TATTT-TTATTATATTT
1 TATTTGTTATTATATTT
*
25869866 TATGTTTTTATATATATTT
1 TAT-TTGTTAT-TATATTT
*
25869885 TATTTGGTTATTTTTATTT
1 TATTT-GTTA-TTATATTT
*
25869904 GTATTTATTATTAT-TTT
1 -TATTTGTTATTATATTT
25869921 T
1 T
25869922 GTTTAGTGGC
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
16 4 0.09
17 5 0.11
18 9 0.20
19 22 0.48
20 6 0.13
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (17 bp):
TATTTGTTATTATATTT
Found at i:25877098 original size:120 final size:120
Alignment explanation
Indices: 25876938--25877189 Score: 486
Period size: 120 Copynumber: 2.1 Consensus size: 120
25876928 CAAAAATATG
* *
25876938 CACATTCCACCCCTATCAAAAACCTCTCAGACACAAAAAAAAAAAAAAACACAAACCACACACCT
1 CACAATCCTCCCCTATCAAAAACCTCTCAGACACAAAAAAAAAAAAAAACACAAACCACACACCT
25877003 TTCAAATACCCAAACAGATCTACGAAAATCCAAAAAAATAAAACAAAAAACAAAA
66 TTCAAATACCCAAACAGATCTACGAAAATCCAAAAAAATAAAACAAAAAACAAAA
25877058 CACAATCCTCCCCTATCAAAAACCTCTCAGACACAAAAAAAAAAAAAAACACAAACCACACACCT
1 CACAATCCTCCCCTATCAAAAACCTCTCAGACACAAAAAAAAAAAAAAACACAAACCACACACCT
25877123 TTCAAATACCCAAACAGATCTACGAAAATCCAAAAAAATAAAACAAAAAACAAAA
66 TTCAAATACCCAAACAGATCTACGAAAATCCAAAAAAATAAAACAAAAAACAAAA
25877178 CACAATCCTCCC
1 CACAATCCTCCC
25877190 TGCAGGGAGG
Statistics
Matches: 130, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 130 1.00
ACGTcount: A:0.56, C:0.30, G:0.02, T:0.12
Consensus pattern (120 bp):
CACAATCCTCCCCTATCAAAAACCTCTCAGACACAAAAAAAAAAAAAAACACAAACCACACACCT
TTCAAATACCCAAACAGATCTACGAAAATCCAAAAAAATAAAACAAAAAACAAAA
Found at i:25877866 original size:16 final size:18
Alignment explanation
Indices: 25877847--25877891 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
25877837 TTTTCTAATT
25877847 TTTTTATATATTATT-A-
1 TTTTTATATATTATTAAG
25877863 TTTTTAT-TATT-TTAAG
1 TTTTTATATATTATTAAG
25877879 TTTTTATAT-TTAT
1 TTTTTATATATTAT
25877892 GCATGATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
14 2 0.08
15 5 0.20
16 16 0.64
17 2 0.08
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
TTTTTATATATTATTAAG
Found at i:25877867 original size:19 final size:20
Alignment explanation
Indices: 25877822--25877872 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
25877812 GGTAAAAAAA
* *
25877822 TATTTTTTTTTTAAATTTTC
1 TATTTTTTTTATAAATTATC
* *
25877842 TAATTTTTTTATATATTAT-
1 TATTTTTTTTATAAATTATC
*
25877861 TATTTTTATTAT
1 TATTTTTTTTAT
25877873 TTTAAGTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TATTTTTTTTATAAATTATC
Found at i:25879883 original size:13 final size:14
Alignment explanation
Indices: 25879865--25879893 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
25879855 ATTTACTCAT
25879865 TTTTATTTAT-TTA
1 TTTTATTTATATTA
25879878 TTTTATTTATATTA
1 TTTTATTTATATTA
25879892 TT
1 TT
25879894 GATTTGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTATTTATATTA
Found at i:25889613 original size:16 final size:16
Alignment explanation
Indices: 25889592--25889634 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
25889582 TATTTTGCTT
25889592 AAAAAAATAAATGAAC-
1 AAAAAAATAAA-GAACA
*
25889608 AAAAAAATACAGAACA
1 AAAAAAATAAAGAACA
25889624 AAAAAAATAAA
1 AAAAAAATAAA
25889635 AAGAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.79, C:0.07, G:0.05, T:0.09
Consensus pattern (16 bp):
AAAAAAATAAAGAACA
Found at i:25889643 original size:11 final size:11
Alignment explanation
Indices: 25889623--25889651 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
25889613 AATACAGAAC
25889623 AAAA-AAAATA
1 AAAAGAAAATA
25889633 AAAAGAAAATA
1 AAAAGAAAATA
25889644 AAAAGAAA
1 AAAAGAAA
25889652 GAAAGTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAGAAAATA
Found at i:25891151 original size:171 final size:170
Alignment explanation
Indices: 25890857--25891222 Score: 468
Period size: 171 Copynumber: 2.1 Consensus size: 170
25890847 CCCAGTCATT
** * * *
25890857 TCATTTTCTGACTCATGGTTTAATCTCGATCTTTTTATCATTCGATTCGCAGTTCAATCCCGATC
1 TCATTTTCTGACTCGCGGTTTAATCTCGATCTCTTTATCATTCGATTCACAGTTCAATCACGATC
*
25890922 TCTTTAATTTAAAATCATAATTTAATCTCGATTGTTGTTATCCTCTAACTTATGGTTCAATCCCA
66 TCTTTAATTTAAAATCACAATTTAATCTCGATTGTTGTTATCCTCTAACTTATGGTTCAATCCCA
**
25890987 ATCATT-TTATTTTTGGACTTATGATTCAATCCAAGTTAACG
131 ATC-TTCTTA-TTTCAGACTTATGATTCAATCCAAGTTAACG
* * * *
25891028 TCATTTTCTGACTCGCGGTTTAATCTCGGTCTCTTTATC-CTCTGATTCACGGTTCAATCATGAT
1 TCATTTTCTGACTCGCGGTTTAATCTCGATCTCTTTATCATTC-GATTCACAGTTCAATCACGAT
** * * * *
25891092 CTCTTTAATTTAAAATTGCAGTTTAATCTTGATTGTTGTTATCCTCTGA-TTCGTGGTTCAATCC
65 CTCTTTAATTTAAAATCACAATTTAATCTCGATTGTTGTTATCCTCTAACTT-ATGGTTCAATCC
* *
25891156 CAGTCTTCTTATTTCAGACTTGTGATTCAATCCAAGTTAACG
129 CAATCTTCTTATTTCAGACTTATGATTCAATCCAAGTTAACG
* * *
25891198 TCATTTTTTGACTTGCAGTTTAATC
1 TCATTTTCTGACTCGCGGTTTAATC
25891223 CCAGTCATTC
Statistics
Matches: 169, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
170 56 0.33
171 113 0.67
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (170 bp):
TCATTTTCTGACTCGCGGTTTAATCTCGATCTCTTTATCATTCGATTCACAGTTCAATCACGATC
TCTTTAATTTAAAATCACAATTTAATCTCGATTGTTGTTATCCTCTAACTTATGGTTCAATCCCA
ATCTTCTTATTTCAGACTTATGATTCAATCCAAGTTAACG
Found at i:25891303 original size:36 final size:37
Alignment explanation
Indices: 25891252--25891336 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
25891242 CTCAACTAAT
**
25891252 GGTTTAATCTTAATCA-CTTTTATTTCTCCGACTTGC
1 GGTTTAATCCCAATCATCTTTTATTTCTCCGACTTGC
* * * *
25891288 GGTTTAATCCCAATCATTTTTTTTTTCTCTGACTTTC
1 GGTTTAATCCCAATCATCTTTTATTTCTCCGACTTGC
* *
25891325 GATTCAATCCCA
1 GGTTTAATCCCA
25891337 GTCGTTAATC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 14 0.35
37 26 0.65
ACGTcount: A:0.20, C:0.24, G:0.09, T:0.47
Consensus pattern (37 bp):
GGTTTAATCCCAATCATCTTTTATTTCTCCGACTTGC
Found at i:25895744 original size:25 final size:25
Alignment explanation
Indices: 25895697--25895757 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
25895687 GAAATTAAAA
* *
25895697 ATAA-TAATAAAAATTATCGTAATT
1 ATAATTAAAAAAAATTATCATAATT
*
25895721 ATAATTAAAAAAAATTATTATAATT
1 ATAATTAAAAAAAATTATCATAATT
* *
25895746 GTTATTAAAAAA
1 ATAATTAAAAAA
25895758 TTTAATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
24 4 0.13
25 27 0.87
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (25 bp):
ATAATTAAAAAAAATTATCATAATT
Found at i:25898866 original size:46 final size:47
Alignment explanation
Indices: 25898772--25898866 Score: 113
Period size: 46 Copynumber: 2.0 Consensus size: 47
25898762 TAAAGTCTTA
* * *** *
25898772 TTTGATGGTCTTAAGATTTTAAAGTTTTAGGGTTTTTGATTTAGGGT
1 TTTGAAGGTCTTAAGATTTTAAAGGTTTAGGGTTTCAAATTTAAGGT
25898819 TTTGAAGGT-TTAAGATTTT-AAGGTTTAGGGTTTCAAAGTTTAAGGT
1 TTTGAAGGTCTTAAGATTTTAAAGGTTTAGGGTTTCAAA-TTTAAGGT
25898865 TT
1 TT
25898867 CAGATTTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
45 14 0.34
46 19 0.46
47 8 0.20
ACGTcount: A:0.24, C:0.02, G:0.25, T:0.48
Consensus pattern (47 bp):
TTTGAAGGTCTTAAGATTTTAAAGGTTTAGGGTTTCAAATTTAAGGT
Found at i:25898875 original size:15 final size:15
Alignment explanation
Indices: 25898842--25898918 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
25898832 GATTTTAAGG
* * *
25898842 TTTAGGGTTTCAAAG
1 TTTAAGGTTTCAGAT
25898857 TTTAAGGTTTCAGAT
1 TTTAAGGTTTCAGAT
*
25898872 TTTAAGGTTT-TGAGT
1 TTTAAGGTTTCAGA-T
**
25898887 TTT-AGGATTTTGGAT
1 TTTAAGG-TTTCAGAT
25898902 TTTAAGGTTTCGAGAT
1 TTTAAGGTTTC-AGAT
25898918 T
1 T
25898919 GAGTGTTTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
14 5 0.10
15 36 0.72
16 9 0.18
ACGTcount: A:0.23, C:0.04, G:0.25, T:0.48
Consensus pattern (15 bp):
TTTAAGGTTTCAGAT
Found at i:25898881 original size:30 final size:31
Alignment explanation
Indices: 25898842--25898912 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 31
25898832 GATTTTAAGG
*
25898842 TTTAGGGTTTCAAAGTTTAAGG-TTTCAGAT
1 TTTAAGGTTTCAAAGTTTAAGGATTTCAGAT
** * **
25898872 TTTAAGGTTT-TGAGTTTTAGGATTTTGGAT
1 TTTAAGGTTTCAAAGTTTAAGGATTTCAGAT
25898902 TTTAAGGTTTC
1 TTTAAGGTTTC
25898913 GAGATTGAGT
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 8 0.24
30 25 0.76
ACGTcount: A:0.23, C:0.04, G:0.24, T:0.49
Consensus pattern (31 bp):
TTTAAGGTTTCAAAGTTTAAGGATTTCAGAT
Found at i:25899025 original size:98 final size:98
Alignment explanation
Indices: 25898842--25899048 Score: 217
Period size: 98 Copynumber: 2.1 Consensus size: 98
25898832 GATTTTAAGG
* * *
25898842 TTTAGGG-TTTCAAAGTTTAAGGTTTCAGATTTTAAGGTTTTGAGTTTTAGGATTTTGGATTTTA
1 TTTAGGGTTTTCAAAGTTTAAGGTTTCAGATTTTAAGGTTGTAAGTTTTAGGATTTTGGAGTTTA
*
25898906 AGGTTTCGAGATTGAGTGTTTACGG-TTTTTGAT
66 AGGTTTCGAGATTGAGGGTTTA-GGATTTTTGAT
* * * * *
25898939 TTTAGGGTTTTCAAATTTTAGGGTTTCAGGTTTTAATGG-TGTAAGTTTTAGGGTTTTTTGAGTT
1 TTTAGGGTTTTCAAAGTTTAAGGTTTCAGATTTTAA-GGTTGTAAGTTTTA-GGATTTTGGAGTT
* * *
25899003 T-AGGCTTT-GAGGTTTAGGGTTTAGGATTTTTTAT
64 TAAGG-TTTCGAGATTGAGGGTTTAGGATTTTTGAT
*
25899037 TTATAAGGTTTT
1 TT-TAGGGTTTT
25899049 GGGTTTCATG
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
97 9 0.10
98 58 0.64
99 24 0.26
ACGTcount: A:0.20, C:0.03, G:0.26, T:0.50
Consensus pattern (98 bp):
TTTAGGGTTTTCAAAGTTTAAGGTTTCAGATTTTAAGGTTGTAAGTTTTAGGATTTTGGAGTTTA
AGGTTTCGAGATTGAGGGTTTAGGATTTTTGAT
Found at i:25899215 original size:29 final size:30
Alignment explanation
Indices: 25899147--25899219 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
25899137 TGATTTCAGG
* *
25899147 ATTTATGGTTTAGAAATTTAGGGTTTCGAG
1 ATTTATGGTTTTGAAATTTAGGGTTTCGAA
* ** * *
25899177 GTTTGGGGTTTTGAATTTTGGGGTTTC-AA
1 ATTTATGGTTTTGAAATTTAGGGTTTCGAA
25899206 ATTTATGGTTTTGA
1 ATTTATGGTTTTGA
25899220 TATTAAACAA
Statistics
Matches: 33, Mismatches: 10, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
29 12 0.36
30 21 0.64
ACGTcount: A:0.21, C:0.03, G:0.29, T:0.48
Consensus pattern (30 bp):
ATTTATGGTTTTGAAATTTAGGGTTTCGAA
Found at i:25899356 original size:3 final size:3
Alignment explanation
Indices: 25899350--25899388 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
25899340 TTATGAAAAT
* *
25899350 TTA TTA TTA TTGT TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TT
25899389 GTTGTTGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.94
4 2 0.06
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:25899389 original size:6 final size:6
Alignment explanation
Indices: 25899366--25899424 Score: 50
Period size: 6 Copynumber: 9.8 Consensus size: 6
25899356 TTATTGTTTA
* * * *
25899366 TTATTA TTATTA TTATTG TTATTG TTGTTG TTGTTG TTA-T- TTATTTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTA-TTG
25899413 TTATTTG TTATT
1 TTA-TTG TTATT
25899425 TATTTTTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
4 3 0.06
5 1 0.02
6 33 0.70
7 10 0.21
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
TTATTG
Found at i:25899420 original size:18 final size:17
Alignment explanation
Indices: 25899399--25899439 Score: 66
Period size: 18 Copynumber: 2.4 Consensus size: 17
25899389 GTTGTTGTTG
25899399 TTGTTATTTATTTGTTAT
1 TTGTTATTTATTT-TTAT
25899417 TTGTTATTTATTTTTAT
1 TTGTTATTTATTTTTAT
25899434 TT-TTAT
1 TTGTTAT
25899440 AAATACCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.17
17 6 0.26
18 13 0.57
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (17 bp):
TTGTTATTTATTTTTAT
Found at i:25899845 original size:11 final size:11
Alignment explanation
Indices: 25899822--25899859 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
25899812 ATAACACACC
25899822 AAAA-AAAA-A
1 AAAATAAAATA
25899831 AAAATAAAAATA
1 AAAAT-AAAATA
25899843 AAAATAAAATA
1 AAAATAAAATA
25899854 AAAATA
1 AAAATA
25899860 TGGGAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 4 0.15
11 16 0.62
12 6 0.23
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:25899851 original size:17 final size:16
Alignment explanation
Indices: 25899822--25899887 Score: 71
Period size: 17 Copynumber: 4.0 Consensus size: 16
25899812 ATAACACACC
25899822 AAAA-AAAAAAAAATA
1 AAAATAAAAAAAAATA
25899837 AAAATAAAAATAAAATA
1 AAAATAAAAA-AAAATA
***
25899854 AAAATATGGGAAAAATA
1 AAAATA-AAAAAAAATA
25899871 AAAATAACAAAAAAATA
1 AAAATAA-AAAAAAATA
25899888 TCAATTTTGC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
15 4 0.10
16 5 0.12
17 31 0.76
18 1 0.02
ACGTcount: A:0.80, C:0.02, G:0.05, T:0.14
Consensus pattern (16 bp):
AAAATAAAAAAAAATA
Found at i:25899877 original size:6 final size:6
Alignment explanation
Indices: 25899824--25899859 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
25899814 AACACACCAA
*
25899824 AAAAAA AAAAAT AAAAAT AAAAAT -AAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
25899860 TGGGAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:25901117 original size:6 final size:6
Alignment explanation
Indices: 25901103--25901164 Score: 76
Period size: 6 Copynumber: 10.7 Consensus size: 6
25901093 CAAAAAGATT
* *
25901103 TTTTTG TTTTGG TTTTGG TTTTT- TGTTTTG -TTTTG TTTTTG TTTTTG
1 TTTTTG TTTTTG TTTTTG TTTTTG T-TTTTG TTTTTG TTTTTG TTTTTG
25901150 TTTTTG -TTTTG TTTT
1 TTTTTG TTTTTG TTTT
25901165 ATTGGTTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
5 11 0.22
6 39 0.78
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (6 bp):
TTTTTG
Found at i:25901131 original size:5 final size:5
Alignment explanation
Indices: 25901104--25901164 Score: 63
Period size: 5 Copynumber: 11.8 Consensus size: 5
25901094 AAAAAGATTT
*
25901104 TTTTG TTTTGG TTTTG -GTT- TTTTG TTTTG TTTTG TTTTTG TTTTTG
1 TTTTG TTTT-G TTTTG TTTTG TTTTG TTTTG TTTTG -TTTTG -TTTTG
25901150 TTTTTG TTTTG TTTT
1 -TTTTG TTTTG TTTT
25901165 ATTGGTTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
4 4 0.08
5 24 0.48
6 22 0.44
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TTTTG
Found at i:25901146 original size:23 final size:23
Alignment explanation
Indices: 25901103--25901164 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
25901093 CAAAAAGATT
25901103 TTTTTGTTTTGGTTTTGGTTTTT-
1 TTTTTGTTTT-GTTTTGGTTTTTG
*
25901126 TGTTTTGTTTTGTTTTTGTTTTTG
1 T-TTTTGTTTTGTTTTGGTTTTTG
25901150 TTTTTGTTTTGTTTT
1 TTTTTGTTTTGTTTT
25901165 ATTGGTTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
23 26 0.72
24 10 0.28
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (23 bp):
TTTTTGTTTTGTTTTGGTTTTTG
Found at i:25901317 original size:73 final size:73
Alignment explanation
Indices: 25901238--25901386 Score: 174
Period size: 73 Copynumber: 2.0 Consensus size: 73
25901228 GTAAGTTAAG
* * *
25901238 TAATTAAAGAATAACCAAGACAACATCGCAAGTCAGAAAATAAAGAATGAGCGA-GACAATACCA
1 TAATTAAAGAATAACCAAGACAACATCGCAAGTCAAAAAATAAAGAAT-AACGAGGACAACACCA
*
25901302 CTAGTCGAA
65 CAAGTCGAA
* *** * * * *
25901311 TAATTAAAGAATGACTGGGACAATATTGTAAGTCAAAAAATAAAGAATAACTAGGACAACACCAC
1 TAATTAAAGAATAACCAAGACAACATCGCAAGTCAAAAAATAAAGAATAACGAGGACAACACCAC
25901376 AAGTCGAA
66 AAGTCGAA
25901384 TAA
1 TAA
25901387 AATGATTGCT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
72 3 0.05
73 60 0.95
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.17
Consensus pattern (73 bp):
TAATTAAAGAATAACCAAGACAACATCGCAAGTCAAAAAATAAAGAATAACGAGGACAACACCAC
AAGTCGAA
Found at i:25901380 original size:36 final size:37
Alignment explanation
Indices: 25901242--25901389 Score: 95
Period size: 36 Copynumber: 4.0 Consensus size: 37
25901232 GTTAAGTAAT
* * * * *
25901242 TAAAGAATAACCAAGACAACATCGCAAGTC-AGAAAA
1 TAAAGAATAACTAGGACAACACCACAAGTCGAAAAAA
* * * * * *
25901278 TAAAGAATGAGCGA-GACAATACCACTAGTCGAATAAT
1 TAAAGAAT-AACTAGGACAACACCACAAGTCGAAAAAA
* * * ****
25901315 TAAAGAATGACTGGGACAATATTGTAAGTC-AAAAAA
1 TAAAGAATAACTAGGACAACACCACAAGTCGAAAAAA
25901351 TAAAGAATAACTAGGACAACACCACAAGTCGAATAAAA
1 TAAAGAATAACTAGGACAACACCACAAGTCGAA-AAAA
25901389 T
1 T
25901390 GATTGCTAAT
Statistics
Matches: 80, Mismatches: 27, Indels: 8
0.70 0.23 0.07
Matches are distributed among these distances:
36 48 0.60
37 27 0.34
38 5 0.06
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.17
Consensus pattern (37 bp):
TAAAGAATAACTAGGACAACACCACAAGTCGAAAAAA
Found at i:25901565 original size:33 final size:32
Alignment explanation
Indices: 25901528--25901604 Score: 90
Period size: 28 Copynumber: 2.5 Consensus size: 32
25901518 AGGTAAACTG
* *
25901528 GGCTTAAATTTTCATTAGGTGGCAACTAATCTA
1 GGCTTAAA-TTTCATTAGGTGCCAACTAAGCTA
25901561 GGCTTAAA----ATTAGGTGCCAACTAAGCTA
1 GGCTTAAATTTCATTAGGTGCCAACTAAGCTA
25901589 GGCTTAAAGTTTCATT
1 GGCTTAAA-TTTCATT
25901605 CGATGTTAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
28 26 0.70
33 11 0.30
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (32 bp):
GGCTTAAATTTCATTAGGTGCCAACTAAGCTA
Found at i:25901572 original size:28 final size:28
Alignment explanation
Indices: 25901541--25901596 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
25901531 TTAAATTTTC
* *
25901541 ATTAGGTGGCAACTAATCTAGGCTTAAA
1 ATTAGGTGCCAACTAAGCTAGGCTTAAA
25901569 ATTAGGTGCCAACTAAGCTAGGCTTAAA
1 ATTAGGTGCCAACTAAGCTAGGCTTAAA
25901597 GTTTCATTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.27
Consensus pattern (28 bp):
ATTAGGTGCCAACTAAGCTAGGCTTAAA
Found at i:25901693 original size:33 final size:33
Alignment explanation
Indices: 25901656--25901731 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
25901646 AAATAAACTT
* *
25901656 GGCTTAAAATTTCATTGGGCACTAGCTAAGCTG
1 GGCTTAAAATTTCATTGGGCACCAGCTAAGATG
* * ** *
25901689 GGCTTACATTTTCATTGGGTGCCAGCTAATATG
1 GGCTTAAAATTTCATTGGGCACCAGCTAAGATG
25901722 GGCTTAAAAT
1 GGCTTAAAAT
25901732 AGGGTGCCAA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (33 bp):
GGCTTAAAATTTCATTGGGCACCAGCTAAGATG
Found at i:25901808 original size:33 final size:33
Alignment explanation
Indices: 25901757--25901916 Score: 120
Period size: 33 Copynumber: 5.0 Consensus size: 33
25901747 CCTTTTCTTA
*
25901757 GGTGCCAGGTAAACTGAGCTTAAAATTTCATTG
1 GGTGCCAGATAAACTGAGCTTAAAATTTCATTG
* **
25901790 GGTGCCAGCTAAGTTGAGCTTAAAA-TT-A---
1 GGTGCCAGATAAACTGAGCTTAAAATTTCATTG
* * *
25901818 GGTGCC-GACTAAGCTAAGCTTAAAATCTCATTG
1 GGTGCCAGA-TAAACTGAGCTTAAAATTTCATTG
** * * *
25901851 GGTTTCAAATAATA-T-AGGCTTAAACCTTTCCTTG
1 GGTGCCAGATAA-ACTGA-GCTTAAA-ATTTCATTG
25901885 GGTGCCAGATAAACTGAGCTTAAAATTTCATT
1 GGTGCCAGATAAACTGAGCTTAAAATTTCATT
25901917 ACATGCCAAT
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
27 1 0.01
28 20 0.21
29 1 0.01
30 1 0.01
31 1 0.01
32 3 0.03
33 44 0.46
34 24 0.25
35 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (33 bp):
GGTGCCAGATAAACTGAGCTTAAAATTTCATTG
Found at i:25901830 original size:28 final size:28
Alignment explanation
Indices: 25901754--25901843 Score: 74
Period size: 28 Copynumber: 3.0 Consensus size: 28
25901744 AAGCCTTTTC
* * *
25901754 TTAGGTGCCAGGTAAACTGAGCTTAAAA
1 TTAGGTGCCAGCTAAGCTAAGCTTAAAA
* *
25901782 TTTCATTGGGTGCCAGCTAAGTTGAGCTTAAAA
1 -TT-A---GGTGCCAGCTAAGCTAAGCTTAAAA
25901815 TTAGGTGCC-GACTAAGCTAAGCTTAAAA
1 TTAGGTGCCAG-CTAAGCTAAGCTTAAAA
25901843 T
1 T
25901844 CTCATTGGGT
Statistics
Matches: 51, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
27 1 0.02
28 22 0.43
29 2 0.04
30 1 0.02
31 1 0.02
32 2 0.04
33 22 0.43
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (28 bp):
TTAGGTGCCAGCTAAGCTAAGCTTAAAA
Done.