Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, 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: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 91 of 160
Found at i:17167555 original size:13 final size:13
Alignment explanation
Indices: 17167537--17167575 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
17167527 CCTTAGACCT
17167537 CTAAAACCTAACC
1 CTAAAACCTAACC
**
17167550 CTAAAACCTAGTC
1 CTAAAACCTAACC
*
17167563 CTAAACCCTAACC
1 CTAAAACCTAACC
17167576 TAGACCTTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.41, C:0.38, G:0.03, T:0.18
Consensus pattern (13 bp):
CTAAAACCTAACC
Found at i:17169079 original size:5 final size:5
Alignment explanation
Indices: 17169071--17169114 Score: 52
Period size: 5 Copynumber: 8.0 Consensus size: 5
17169061 AAATGGGTTA
17169071 AAAAT AAAAT AAAAT AAAAT AAAATT AGAAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAA-T --AAAAT -AAAAT AAAAT
17169115 GGAAAAGAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
5 24 0.69
6 6 0.17
7 1 0.03
8 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:17169119 original size:18 final size:17
Alignment explanation
Indices: 17169069--17169125 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
17169059 AAAAATGGGT
17169069 TAAAAATAAAAT-AAAA
1 TAAAAATAAAATGAAAA
17169085 T-AAAATAAAATTAGAAAA
1 TAAAAATAAAA-T-GAAAA
17169103 TAAAAATAAAATGGAAAA
1 TAAAAATAAAAT-GAAAA
*
17169121 GAAAA
1 TAAAA
17169126 TCTTGCGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 9 0.26
16 2 0.06
18 15 0.43
19 9 0.26
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (17 bp):
TAAAAATAAAATGAAAA
Found at i:17169739 original size:51 final size:51
Alignment explanation
Indices: 17169683--17169824 Score: 152
Period size: 51 Copynumber: 2.9 Consensus size: 51
17169673 TTGACTTCTG
*
17169683 TTTTAATGAGAATTGATTTTGAAATCAAATCCCAAAAATCTCTCC-CTATCA
1 TTTTAATGAGAATTGATTTTGAAATTAAATCCCAAAAATCTCTCCAC-ATCA
* ** *
17169734 TTTTAATGTGAATTGATTATTG-AATTAAATCCTGACAATCTCTCCACATCA
1 TTTTAATGAGAATTGATT-TTGAAATTAAATCCCAAAAATCTCTCCACATCA
** *
17169785 ----AATGCCAATTGATTTTGAAATTAAATTCCAAAAATCTCTC
1 TTTTAATGAGAATTGATTTTGAAATTAAATCCCAAAAATCTCTC
17169825 AACTACGGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
46 3 0.04
47 30 0.39
51 40 0.52
52 4 0.05
ACGTcount: A:0.37, C:0.18, G:0.08, T:0.37
Consensus pattern (51 bp):
TTTTAATGAGAATTGATTTTGAAATTAAATCCCAAAAATCTCTCCACATCA
Found at i:17169821 original size:47 final size:48
Alignment explanation
Indices: 17169693--17169824 Score: 128
Period size: 47 Copynumber: 2.7 Consensus size: 48
17169683 TTTTAATGAG
* * **
17169693 AATTGATTTTGAAATCAAATCCCAAAAATCTCTCCCTATCATTTTAATGTG
1 AATTGATTTTGAAATTAAATTCCAAAAATCTCTCCCTATCA---TAATGCC
* *
17169744 AATTGATTATTG-AATTAAA-TCCTGACAATCTCTCCAC-ATCA-AATGCC
1 AATTGATT-TTGAAATTAAATTCC-AAAAATCTCTCC-CTATCATAATGCC
17169791 AATTGATTTTGAAATTAAATTCCAAAAATCTCTC
1 AATTGATTTTGAAATTAAATTCCAAAAATCTCTC
17169825 AACTACGGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 14
0.76 0.09 0.16
Matches are distributed among these distances:
46 3 0.04
47 28 0.41
48 3 0.04
50 2 0.03
51 28 0.41
52 4 0.06
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.36
Consensus pattern (48 bp):
AATTGATTTTGAAATTAAATTCCAAAAATCTCTCCCTATCATAATGCC
Found at i:17170863 original size:69 final size:69
Alignment explanation
Indices: 17170768--17170928 Score: 207
Period size: 69 Copynumber: 2.3 Consensus size: 69
17170758 ACAAGGTTCA
* * * ** *
17170768 CAAGAACTTTCAAATTCATAAAAAAGAAAGATTTACAAGATTTCAAGTTTTGCAAAGGTGCCA-G
1 CAAGGACTTTCAAATTCGTAAAAAAGAAAGATTCACAAGATTTCAAGTTTCACAAAGGTG-AATG
17170832 ATTCG
65 ATTCG
* * *
17170837 CAAGGATTTTCAAATTCGTAAGAAAGAAAGATTCGCAAGATTTCAAGTTTCACAAAGGTGAATGA
1 CAAGGACTTTCAAATTCGTAAAAAAGAAAGATTCACAAGATTTCAAGTTTCACAAAGGTGAATGA
*
17170902 TTCT
66 TTCG
*
17170906 CAAGGACTTTCAAATTCGCAAAA
1 CAAGGACTTTCAAATTCGTAAAA
17170929 CTCTAAGTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
68 1 0.01
69 77 0.99
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (69 bp):
CAAGGACTTTCAAATTCGTAAAAAAGAAAGATTCACAAGATTTCAAGTTTCACAAAGGTGAATGA
TTCG
Found at i:17171030 original size:17 final size:17
Alignment explanation
Indices: 17170994--17171042 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
17170984 TCAAGTTCAC
* *
17170994 AAGATATAAGATTCGTA
1 AAGATACAAGATTCGCA
*
17171011 AAGATACAAGATTTGCA
1 AAGATACAAGATTCGCA
* *
17171028 AAGATGCAAGGTTCG
1 AAGATACAAGATTCG
17171043 TAAGGACTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.43, C:0.10, G:0.22, T:0.24
Consensus pattern (17 bp):
AAGATACAAGATTCGCA
Found at i:17171990 original size:20 final size:18
Alignment explanation
Indices: 17171967--17172080 Score: 122
Period size: 20 Copynumber: 6.0 Consensus size: 18
17171957 TTAAGTCTTC
17171967 TTTTTTTTCTTTGTTTCTTT
1 TTTTTTTTCTTT-TTT-TTT
*
17171987 TTTTTTTTCTATTTTTCTT
1 TTTTTTTTCT-TTTTTTTT
* *
17172006 TTTTGTTT-TTTTGTTTT
1 TTTTTTTTCTTTTTTTTT
*
17172023 TTTTTTTTGTTTTTTTTT
1 TTTTTTTTCTTTTTTTTT
17172041 TTTTTTTTCTCTTCTTTTTT
1 TTTTTTTTCT-TT-TTTTTT
17172061 TTTTTTTCTCTTCTTTTTTT
1 TTTTTTT-TCTT-TTTTTTT
17172081 CTATGATCTT
Statistics
Matches: 81, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
17 13 0.16
18 18 0.22
19 11 0.14
20 33 0.41
21 6 0.07
ACGTcount: A:0.01, C:0.09, G:0.04, T:0.87
Consensus pattern (18 bp):
TTTTTTTTCTTTTTTTTT
Found at i:17171993 original size:21 final size:19
Alignment explanation
Indices: 17171967--17172080 Score: 115
Period size: 19 Copynumber: 5.8 Consensus size: 19
17171957 TTAAGTCTTC
*
17171967 TTTTTTTTCTTTGTTTCTTT
1 TTTTTTTTCTTT-TTTTTTT
17171987 TTTTTTTTCTATTTTTCTTTT
1 TTTTTTTTCT-TTTTT-TTTT
17172008 TTGTTTTTT-TGTTTTTTTTT
1 TT-TTTTTTCT-TTTTTTTTT
*
17172028 TTTGTTTT-TTTTTTTTTT
1 TTTTTTTTCTTTTTTTTTT
* *
17172046 TTTCTCTTCTTTTTTTTTT
1 TTTTTTTTCTTTTTTTTTT
* *
17172065 TTTCTCTTCTTTTTTT
1 TTTTTTTTCTTTTTTT
17172081 CTATGATCTT
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
18 15 0.18
19 32 0.38
20 19 0.22
21 13 0.15
22 6 0.07
ACGTcount: A:0.01, C:0.09, G:0.04, T:0.87
Consensus pattern (19 bp):
TTTTTTTTCTTTTTTTTTT
Found at i:17172070 original size:19 final size:17
Alignment explanation
Indices: 17171964--17172080 Score: 112
Period size: 17 Copynumber: 6.6 Consensus size: 17
17171954 AGTTTAAGTC
* *
17171964 TTCTTTTTTTTCTTTGT
1 TTCTTTTTTTTTTTTTT
17171981 TTCTTTTTTTTTTTCTATTT
1 TTC-TTTTTTTTTT-T-TTT
17172001 TTCTTTTTTGTTTTTTTGT
1 TTCTTTTTT-TTTTTTT-T
*
17172020 TT-TTTTTTTTTGTTTT
1 TTCTTTTTTTTTTTTTT
* *
17172036 TT-TTTTTTTTTTTCTC
1 TTCTTTTTTTTTTTTTT
17172052 TTCTTTTTTTTTTTTTCT
1 TTCTTTTTTTTTTTTT-T
17172070 CTTCTTTTTTT
1 -TTCTTTTTTT
17172081 CTATGATCTT
Statistics
Matches: 84, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
16 16 0.19
17 21 0.25
18 17 0.20
19 21 0.25
20 9 0.11
ACGTcount: A:0.01, C:0.09, G:0.03, T:0.86
Consensus pattern (17 bp):
TTCTTTTTTTTTTTTTT
Found at i:17172080 original size:1 final size:1
Alignment explanation
Indices: 17171967--17172067 Score: 94
Period size: 1 Copynumber: 101.0 Consensus size: 1
17171957 TTAAGTCTTC
* * * * * * * * *
17171967 TTTTTTTTCTTTGTTTCTTTTTTTTTTTCTATTTTTCTTTTTTGTTTTTTTGTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
17172032 TTTTTTTTTTTTTTTTTCTCTTCTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
17172068 CTCTTCTTTT
Statistics
Matches: 76, Mismatches: 24, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.01, C:0.07, G:0.04, T:0.88
Consensus pattern (1 bp):
T
Found at i:17172972 original size:4 final size:4
Alignment explanation
Indices: 17172963--17172989 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
17172953 ACTATGTTCC
17172963 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
17172990 CTCATGTCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:17178403 original size:17 final size:18
Alignment explanation
Indices: 17178378--17178416 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
17178368 CTCCATTTCA
17178378 ATTTAAAA-TATTTTTTT
1 ATTTAAAATTATTTTTTT
*
17178395 ATTTCAAATTTATTTTTTT
1 ATTT-AAAATTATTTTTTT
17178414 ATT
1 ATT
17178417 GAAGTAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 3 0.16
19 12 0.63
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTAAAATTATTTTTTT
Found at i:17178953 original size:21 final size:21
Alignment explanation
Indices: 17178925--17178966 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
17178915 TATTAATTTT
17178925 TTAATATAGTTTAAA-TAAAA
1 TTAATATAGTTTAAATTAAAA
*
17178945 TTAAGTATATTTTAAATTAAAA
1 TTAA-TATAGTTTAAATTAAAA
17178967 CTAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
TTAATATAGTTTAAATTAAAA
Found at i:17181376 original size:133 final size:127
Alignment explanation
Indices: 17181065--17181579 Score: 443
Period size: 133 Copynumber: 3.9 Consensus size: 127
17181055 ATATTTTTTA
* * * *
17181065 ATTGAAAAATCA-TTGCAAATAAAACAAATTTGTCGTAACAATATTTTTTTATCGTTACAAATAT
1 ATTGAAAAAT-AGTTGCAAATAAAACAAGTTT-TAGCAACAAT-TTTTGTTATCGTTACAAATAT
* * * * * *
17181129 GATAAAAATTTTCAAAACAAATTTTTGGTCATTGCATAAGATATTAAAAAATTAAATTAAGCAAC
63 GATAAAATTTTTCAAAA-AATTTTTTTGTCGTTGTATAA-ATATTAAAAAA-TAAATTAAGCAAT
* *
17181194 AAC
125 GAT
* * ** *
17181197 ATTGAAAAATGGTT-CAAATAAAACAAGCTTTCCCAACAATTCTTTGTTATCGTTACAAATATTA
1 ATTGAAAAATAGTTGCAAATAAAACAAGTTTTAGCAACAATT-TTTGTTATCGTTACAAATATGA
*
17181261 TAAAATTTTTCAATATAATTTTTTTTTTGTCGTTGTATAAATTATTAAAAAATAAATTAAGCAAT
65 TAAAATTTTTCAA-A-AA--ATTTTTTTGTCGTTGTATAAA-TATTAAAAAATAAATTAAGCAAT
17181326 GAT
125 GAT
* ** *
17181329 ATTGAAAAATAGTTGCAAATAAAATAAGTTTTAGCAACAACTTTTTGTTGCCGTTACAAATATTA
1 ATTGAAAAATAGTTGCAAATAAAACAAGTTTTAGCAACAA-TTTTTGTTATCGTTACAAATATGA
* * *
17181394 TAAAACTTTTGGT-AACAAATTTTTTTGTTGTTGTATAAAATATTAAAAAAATAACTTAAAGCAA
65 TAAAA-TTTT--TCAAAAAATTTTTTTGTCGTTGTAT-AAATATT-AAAAAATAAATT-AAGCAA
17181458 TGAT
124 TGAT
* ** * * *
17181462 TTTGAAATTTTGTTGCAAATAAAATAAG-TTAATGCAAC--TTTTTGTTATCGTTACAAATATGA
1 ATTGAAAAATAGTTGCAAATAAAACAAGTTTTA-GCAACAATTTTTGTTATCGTTACAAATATGA
* * ** * *
17181524 TAAAATTTTTC--ATAACTTTTTTGTTATTGTGTAGAATATTAAAAAAATAACTTAAG
65 TAAAATTTTTCAAAAAATTTTTTTGTCGTTGTATA-AATATT-AAAAAATAAATTAAG
17181580 TGATTGCACT
Statistics
Matches: 325, Mismatches: 40, Indels: 43
0.80 0.10 0.11
Matches are distributed among these distances:
125 4 0.01
126 35 0.11
127 1 0.00
129 5 0.02
130 66 0.20
131 36 0.11
132 57 0.18
133 112 0.34
134 6 0.02
135 2 0.01
136 1 0.00
ACGTcount: A:0.43, C:0.09, G:0.10, T:0.39
Consensus pattern (127 bp):
ATTGAAAAATAGTTGCAAATAAAACAAGTTTTAGCAACAATTTTTGTTATCGTTACAAATATGAT
AAAATTTTTCAAAAAATTTTTTTGTCGTTGTATAAATATTAAAAAATAAATTAAGCAATGAT
Found at i:17185297 original size:21 final size:21
Alignment explanation
Indices: 17185273--17185312 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
17185263 CTTAAGTGCC
17185273 ACATTATGCTCCACCACAATA
1 ACATTATGCTCCACCACAATA
* * *
17185294 ACATTTTTCTCCATCACAA
1 ACATTATGCTCCACCACAA
17185313 CACCATTCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
ACATTATGCTCCACCACAATA
Found at i:17195842 original size:18 final size:18
Alignment explanation
Indices: 17195819--17195858 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17195809 GCTAGTTTGT
*
17195819 AAAAGATAAAG-AAAAGCA
1 AAAAGAAAAAGCAAAA-CA
17195837 AAAAGAAAAAGCAAAACA
1 AAAAGAAAAAGCAAAACA
17195855 AAAA
1 AAAA
17195859 AGTCATGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.78, C:0.07, G:0.12, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAGCAAAACA
Found at i:17198424 original size:20 final size:21
Alignment explanation
Indices: 17198399--17198438 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
17198389 ATTTACATTT
17198399 TAATTTCT-TTTCAT-TTTTTG
1 TAATTT-TATTTCATGTTTTTG
17198419 TAATTTTATTTCATGTTTTT
1 TAATTTTATTTCATGTTTTT
17198439 AATAGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.06
20 12 0.67
21 5 0.28
ACGTcount: A:0.17, C:0.07, G:0.05, T:0.70
Consensus pattern (21 bp):
TAATTTTATTTCATGTTTTTG
Found at i:17208921 original size:10 final size:10
Alignment explanation
Indices: 17208906--17208935 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
17208896 TGATTGGACA
17208906 CATGTAATAT
1 CATGTAATAT
17208916 CATGTAATAT
1 CATGTAATAT
17208926 CATGTAATAT
1 CATGTAATAT
17208936 GAGCTATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (10 bp):
CATGTAATAT
Found at i:17209147 original size:162 final size:161
Alignment explanation
Indices: 17208920--17210729 Score: 1342
Period size: 162 Copynumber: 11.2 Consensus size: 161
17208910 TAATATCATG
* * * * * * ** * *
17208920 TAATATCATGTAATATGAGCTATCTAAACTGTTAAAATAGAACA-ATAATTGTAAATTTGCATTT
1 TAATATCATGT-ATTTAAGCTATCTAAACTATTAAAACATAA-ATATAACTACAAAATTACATTT
** * * * * *
17208984 TTGCCTTTTAACGTTACAAAAAGTCCTAAGCATATATAAATC-TTAACTTATTCATACATATCAA
64 TTGCCTTTTAACGTTACAAAAAGTCCTAAAAAGACATAAA-CGGTAACTTTTTCACACATATC-A
* *
17209048 ATCGTGAAAACCAAGTTCAATCATTCATATAAGTT
127 ATCGTGGAAACCAAGTTCAATCATTCAAATAAGTT
* * * * * **
17209083 TAATATCATGTATTTAAGCTACCTAAATTGTTAAAATATAAATATCACTGTAAAATTACATTTTT
1 TAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACTACAAAATTACATTTTT
* ** * * * * *
17209148 ACC-TTTAGTGGTATAATAAAGTCCTAAAAAGGCATAAACGATAACTTTTTTACACATATCAATC
66 GCCTTTTAACGTTACAA-AAAGTCCTAAAAAGACATAAACGGTAACTTTTTCACACATATCAATC
* * * * *
17209212 ATGGAAACCAAGTTTAATTATTTAGATAAGTT
130 GTGGAAACCAAGTTCAATCATTCAAATAAGTT
* * *
17209244 TAATATCATGTACTGAAGCTATCTAAA-T-TGT---A-ATATA-ATAACTACAAAATTACATTTT
1 TAATATCATGTATTTAAGCTATCTAAACTAT-TAAAACATAAATATAACTACAAAATTACATTTT
* * * * * * * * * * *
17209302 TACCCTTTAATGGTGTA-ATAAAGTCCTAAAAAGATATAAATGGTGACATTTTCACCCTTATCAG
65 TGCCTTTTAA-CGT-TACAAAAAGTCCTAAAAAGACATAAACGGTAACTTTTTCACACATATCAA
* * *
17209366 TCGTGGAAACCAAGTTCAATCATT-TAGTCAAATT
128 TCGTGGAAACCAAGTTCAATCATTCAAAT-AAGTT
* * * ** *
17209400 TAATATCCTGTATTGAAGCTATCTAAACTATTAAAACA-GAATAATAAAC-ACAATTTTGCATTT
1 TAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAAT-AT-AACTACAAAATTACATTT
* * ** * * * *
17209463 TGGCCTTTTAATGGCACAAATAAGTGCTAAATAGATATAAACAGTAACTTTTTCACACATATCAA
64 TTGCCTTTTAACGTTACAAA-AAGTCCTAAAAAGACATAAACGGTAACTTTTTCACACATATCAA
* * *
17209528 TCATGGAAACCAAGCTCAATCATTCAAAAAAGTT
128 TCGTGGAAACCAAGTTCAATCATTCAAATAAGTT
* * * *
17209562 TCATATCATATATTTAAGCTATCTAAACTATTAAAACATAAATACAACTACAAAATTATATTTTT
1 TAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACTACAAAATTACATTTTT
* * * * * *
17209627 ACCCTTTAACGGCGTTAC--AAAGTCCTAAAAAGATATAAACGGTAACATTTTCATACATACCAA
66 GCCTTTTAA---CGTTACAAAAAGTCCTAAAAAGACATAAACGGTAACTTTTTCACACATATCAA
* * * * * *
17209690 CCATGGAAACCAAGTTCAATCATTTAGACAAATT
128 TCGTGGAAACCAAGTTCAATCATTCAAATAAGTT
* * * * * * *
17209724 TCATATCATGTATTAAAGTTATCTAAACTGTTAAAACA-AAATAATAAAC-ACAAATTTGCACTT
1 TAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAAT-AT-AACTACAAAATTACATTT
* ** * * * * * *
17209787 TGGCCTTTTAACAATACAAATAAATGCTAAACAGGCATAAATGGTAACTTTTTTACAC--ATCAA
64 TTGCCTTTTAACGTTACAAA-AAGTCCTAAAAAGACATAAACGGTAACTTTTTCACACATATCAA
* *
17209850 TCGTGGAAATCAAGTTCAATCATTCAAAAAAGTT
128 TCGTGGAAACCAAGTTCAATCATTCAAATAAGTT
* *
17209884 TAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACTGCAAAATTATATTTTT
1 TAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACTACAAAATTACATTTTT
* * * * * *
17209949 GCCCTTTAATGGCTTA-ACAAAGTCCTAAAAAGACATACACGGTAA-TATTTTCACACATATTAG
66 GCCTTTTAA-CG-TTACAAAAAGTCCTAAAAAGACATAAACGGTAACT-TTTTCACACATATCAA
* * * *
17210012 CCATGGAAACCAGGTTCAATCATTCAAATGAGTT
128 TCGTGGAAACCAAGTTCAATCATTCAAATAAGTT
* * * * *
17210046 TAATTTTATGTATTGAAGCTATCTAAACTATT-AAA-ATAGAATAACAAAC-ACAAATTTACATT
1 TAATATCATGTATTTAAGCTATCTAAACTATTAAAACATA-AAT-A-TAACTACAAAATTACATT
* * * * * * *
17210108 TTGGCCTTTTAACAG-TACAAAAAAATGCTAAACAGACATAAATGGTAACTTTTTTACACATAGC
63 TTTGCCTTTTAAC-GTTAC-AAAAAGTCCTAAAAAGACATAAACGGTAACTTTTTCACACATATC
* *
17210172 AATGGTGAAAACCAAGTTCAATCATTCGAAA-AAGTT
126 AATCGTGGAAACCAAGTTCAATCATTC-AAATAAGTT
* * *
17210208 TAATATCATGTATTTAAGCCATCTAAACTATTAAAACATAAATATAATTACAAAATTATATTTTT
1 TAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACTACAAAATTACATTTTT
* * * * * * *
17210273 GTCC-TTTAACAGCATA-ACAAAGTCTTGAAAAGATATATACGGTAACATTTTCACACATATC-A
66 G-CCTTTTAAC-G-TTACAAAAAGTCCTAAAAAGACATAAACGGTAACTTTTTCACACATATCAA
* * **
17210335 GCTATGGAAACCAAGTTCAATCATAT-GGATAAGTT
128 TC-GTGGAAACCAAGTTCAATCAT-TCAAATAAGTT
* * * *
17210370 TAATATCATGTATTGAAGCTATCTAAACTATTAAAATA-AAATAATAAAC-ACAAATTTGCA-TT
1 TAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAAT-AT-AACTACAAAATTACATTT
* * * * *
17210432 TTGACTTTTTAACG--ACATAAAAGTGCTAAATAA-ACATAAACGGTAACTTTTTTATACATAGC
64 TTG-CCTTTTAACGTTACA-AAAAGTCCTAAA-AAGACATAAACGGTAACTTTTTCACACATATC
* * *
17210494 AATCGTGAAAACCAAGTTTAATCATTCAAAAAAGTT
126 AATCGTGGAAACCAAGTTCAATCATTCAAATAAGTT
* * * * * * *
17210530 CAATATCATATATTTAAGCTATTTAAACTATTAAAACATAAATATAAATGCAAAATGATATTTTT
1 TAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACTACAAAATTACATTTTT
* * * *
17210595 GCCCTTTAACAGCATA-ACAAAGTCCTAAAAAG--ATAAAAGGTAACTTTTTTTCACACATATCA
66 GCCTTTTAAC-G-TTACAAAAAGTCCTAAAAAGACATAAACGGTAAC--TTTTTCACACATATCA
* * ** *
17210657 ATTGTGAAAACCAAGTTCAATCATTCGGACAAGTT
127 ATCGTGGAAACCAAGTTCAATCATTCAAATAAGTT
* * * * * *
17210692 TAATATAATGTATTGAAGCAACCCAAACTGTTAAAACA
1 TAATATCATGTATTTAAGCTATCTAAACTATTAAAACA
17210730 AAAAAAAAAT
Statistics
Matches: 1288, Mismatches: 287, Indels: 145
0.75 0.17 0.08
Matches are distributed among these distances:
155 23 0.02
156 93 0.07
157 5 0.00
158 4 0.00
159 13 0.01
160 237 0.18
161 120 0.09
162 743 0.58
163 41 0.03
164 6 0.00
165 3 0.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (161 bp):
TAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACTACAAAATTACATTTTT
GCCTTTTAACGTTACAAAAAGTCCTAAAAAGACATAAACGGTAACTTTTTCACACATATCAATCG
TGGAAACCAAGTTCAATCATTCAAATAAGTT
Found at i:17209993 original size:322 final size:322
Alignment explanation
Indices: 17209162--17210732 Score: 1838
Period size: 322 Copynumber: 4.9 Consensus size: 322
17209152 TTAGTGGTAT
* * * * * *
17209162 AATAAAGTCCTAAAAAGGCATAAACGATAACTTTTTTACACATATCAATCATGGAAACCAAGTTT
1 AATAAA-TGCTAAACAGACATAAACGGTAACTTTTTTACAC--ATCAATCGTGGAAACCAAGTTC
* * * * * * *
17209227 AATTATTTAGATAAGTTTAATATCATGTACTGAAGCTATCTAAA-T-TGT---A-ATATA-ATAA
63 AATCATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTAT-TAAAACATAAATATAA
* * * * * *
17209285 CTACAAAATTACATTTTTACCCTTTAATGG-TGTAATAAAGTCCTAAAAAGATATAAATGGTGAC
127 CTACAAAATTATATTTTTGCCCTTTAACGGCT-TAACAAAGTCCTAAAAAGATATAAACGGTAAC
* * * * * * *
17209349 ATTTTCACCCTTATCAGTCGTGGAAACCAAGTTCAATCATTTAGTCAAATTTAATATCCTGTATT
191 ATTTTCACACATATCAGCCATGGAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATT
* * ** *
17209414 GAAGCTATCTAAACTATTAAAACAGAATAATAAACACAATTTTGCATTTTGGCCTTTTAATGGCA
256 GAAGCTATCTAAACTATTAAAACAAAATAATAAACACAAATTTGCATTTTGGCCTTTTAACAGTA
17209479 CA
321 CA
* * * * * * *
17209481 AATAAGTGCTAAATAGATATAAACAGTAACTTTTTCACACATATCAATCATGGAAACCAAGCTCA
1 AATAAATGCTAAACAGACATAAACGGTAACTTTTTTACAC--ATCAATCGTGGAAACCAAGTTCA
* * *
17209546 ATCATTCAAAAAAGTTTCATATCATATATTTAAGCTATCTAAACTATTAAAACATAAATACAACT
64 ATCATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACT
*
17209611 ACAAAATTATATTTTTACCCTTTAACGGCGTT-ACAAAGTCCTAAAAAGATATAAACGGTAACAT
129 ACAAAATTATATTTTTGCCCTTTAACGGC-TTAACAAAGTCCTAAAAAGATATAAACGGTAACAT
* * * * * *
17209675 TTTCATACATACCAACCATGGAAACCAAGTTCAATCATTTAGACAAATTTCATATCATGTATTAA
193 TTTCACACATATCAGCCATGGAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATTGA
* * * *
17209740 AGTTATCTAAACTGTTAAAACAAAATAATAAACACAAATTTGCACTTTGGCCTTTTAACAATACA
258 AGCTATCTAAACTATTAAAACAAAATAATAAACACAAATTTGCATTTTGGCCTTTTAACAGTACA
* * *
17209805 AATAAATGCTAAACAGGCATAAATGGTAACTTTTTTACACATCAATCGTGGAAATCAAGTTCAAT
1 AATAAATGCTAAACAGACATAAACGGTAACTTTTTTACACATCAATCGTGGAAACCAAGTTCAAT
*
17209870 CATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACTGC
66 CATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACTAC
* * * *
17209935 AAAATTATATTTTTGCCCTTTAATGGCTTAACAAAGTCCTAAAAAGACATACACGGTAATATTTT
131 AAAATTATATTTTTGCCCTTTAACGGCTTAACAAAGTCCTAAAAAGATATAAACGGTAACATTTT
* * * * ** * *
17210000 CACACATATTAGCCATGGAAACCAGGTTCAATCATTCAAATGAGTTTAATTTTATGTATTGAAGC
196 CACACATATCAGCCATGGAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATTGAAGC
* * * *
17210065 TATCTAAACTATTAAAATAGAATAACAAACACAAATTTACATTTTGGCCTTTTAACAGTACA
261 TATCTAAACTATTAAAACAAAATAATAAACACAAATTTGCATTTTGGCCTTTTAACAGTACA
* * * *
17210127 AAAAAATGCTAAACAGACATAAATGGTAACTTTTTTACACATAGCAATGGTGAAAACCAAGTTCA
1 AATAAATGCTAAACAGACATAAACGGTAACTTTTTTACACAT--CAATCGTGGAAACCAAGTTCA
* * *
17210192 ATCATTCGAAAAAGTTTAATATCATGTATTTAAGCCATCTAAACTATTAAAACATAAATATAATT
64 ATCATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACT
* * * * * *
17210257 ACAAAATTATATTTTTGTCCTTTAACAGCATAACAAAGTCTTGAAAAGATATATACGGTAACATT
129 ACAAAATTATATTTTTGCCCTTTAACGGCTTAACAAAGTCCTAAAAAGATATAAACGGTAACATT
* * * *
17210322 TTCACACATATCAGCTATGGAAACCAAGTTCAATCATATGGATAAGTTTAATATCATGTATTGAA
194 TTCACACATATCAGCCATGGAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATTGAA
* * *
17210387 GCTATCTAAACTATTAAAATAAAATAATAAACACAAATTTGCATTTTGACTTTTTAAC-G-ACA
259 GCTATCTAAACTATTAAAACAAAATAATAAACACAAATTTGCATTTTGGCCTTTTAACAGTACA
* * * * * *
17210449 TAA-AAGTGCTAAATAAACATAAACGGTAACTTTTTTATACATAGCAATCGTGAAAACCAAGTTT
1 -AATAAATGCTAAACAGACATAAACGGTAACTTTTTTACACAT--CAATCGTGGAAACCAAGTTC
* * * *
17210513 AATCATTCAAAAAAGTTCAATATCATATATTTAAGCTATTTAAACTATTAAAACATAAATATAAA
63 AATCATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAAC
* * * *
17210578 TGCAAAATGATATTTTTGCCCTTTAACAGCATAACAAAGTCCTAAAAAGATA-AAA-GGTAACTT
128 TACAAAATTATATTTTTGCCCTTTAACGGCTTAACAAAGTCCTAAAAAGATATAAACGGTAAC--
* **** * ** *
17210641 TTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCGGACAAGTTTAATATAATGTATT
191 ATTTTCACACATATCAGCCATGGAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATT
* * * *
17210706 GAAGCAACCCAAACTGTTAAAACAAAA
256 GAAGCTATCTAAACTATTAAAACAAAA
17210733 AAAAAATAAT
Statistics
Matches: 1085, Mismatches: 152, Indels: 27
0.86 0.12 0.02
Matches are distributed among these distances:
318 85 0.08
319 7 0.01
320 7 0.01
321 4 0.00
322 527 0.49
323 7 0.01
324 446 0.41
325 1 0.00
326 1 0.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (322 bp):
AATAAATGCTAAACAGACATAAACGGTAACTTTTTTACACATCAATCGTGGAAACCAAGTTCAAT
CATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACTAC
AAAATTATATTTTTGCCCTTTAACGGCTTAACAAAGTCCTAAAAAGATATAAACGGTAACATTTT
CACACATATCAGCCATGGAAACCAAGTTCAATCATTTAGACAAGTTTAATATCATGTATTGAAGC
TATCTAAACTATTAAAACAAAATAATAAACACAAATTTGCATTTTGGCCTTTTAACAGTACA
Found at i:17210158 original size:646 final size:645
Alignment explanation
Indices: 17209160--17210807 Score: 1892
Period size: 646 Copynumber: 2.6 Consensus size: 645
17209150 CTTTAGTGGT
* * *
17209160 ATAATAAAGTCCTAAAAAGGCATAAACGATAACTTTTTTACACATATCAATCATGGAAACCAAGT
1 ATAATAAA-TGCTAAAAAGGCATAAACGGTAACTTTTTTACAC--ATCAATCGTGGAAACCAAGT
* * * * * * *
17209225 TTAATTATTTAGATAAGTTTAATATCATGTACTGAAGCTATCTAAA-T-TGT---A-ATATA-AT
63 TTAATCATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTAT-TAAAACATAAATAT
* * * * * * *
17209283 AACTACAAAATTACATTTTTACCCTTTAATGG-TGTAATAAAGTCCTAAAAAGATATAAATGGTG
127 AACTGCAAAATTATATTTTTGCCCTTTAATGGCT-TAACAAAGTCCTAAAAAGACATAAACGGTA
* * * * * * *
17209347 ACATTTTCACCCTTATCAGTCGTGGAAACCAAGTTCAATCATTTAGTCAAATTTAATATCCTGTA
191 ACATTTTCACACATATCAGCCATGGAAACCAAGTTCAATCATTAAATCAAATTTAATATCATGTA
* * * **
17209412 TTGAAGCTATCTAAACTATTAAAACAGAATAATAAACACAATTTTGCATTTTGGCCTTTTAATGG
256 TTGAAGCTATCTAAACTATTAAAACAGAATAACAAACACAAATTTACATTTTGGCCTTTTAACAG
* * * * * *
17209477 CACAAATAAGTGCTAAATAGATATAAACAGTAACTTTTTCACACATATCAATCATGGAAACCAAG
321 CACAAAAAAATGCTAAACAGACATAAACAGTAACTTTTTCACACATAGCAATCATGAAAACCAAG
* *
17209542 CTCAATCATTCAAAAAAGTTTCATATCATATATTTAAGCTATCTAAACTATTAAAACATAAATAC
386 CTCAATCATTCAAAAAAGTTTAATATCATATATTTAAGCCATCTAAACTATTAAAACATAAATAC
* * *
17209607 AACTACAAAATTATATTTTTACCCTTTAACGGCGTTACAAAGTCCTAAAAAGATATAAACGGTAA
451 AACTACAAAATTATATTTTTACCCTTTAACAGCATAACAAAGTCCTAAAAAGATATAAACGGTAA
* * *
17209672 CATTTTCATACATACCAACCATGGAAACCAAGTTCAATCATTTAGACAAATTTCATATCATGTAT
516 CATTTTCACACATACCAACCATGGAAACCAAGTTCAATCATATAGACAAATTTAATATCATGTAT
* * * *
17209737 TAAAGTTATCTAAACTGTTAAAACAAAATAATAAACACAAATTTGCACTTTGGCCTTTTAACAAT
581 TAAAGCTATCTAAACTATTAAAACAAAATAATAAACACAAATTTGCACTTTGACCTTTTAAC--G
17209802 AC
644 AC
* * * *
17209804 A-AATAAATGCTAAACAGGCATAAATGGTAACTTTTTTACACATCAATCGTGGAAATCAAGTTCA
1 ATAATAAATGCTAAAAAGGCATAAACGGTAACTTTTTTACACATCAATCGTGGAAACCAAGTTTA
17209868 ATCATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACT
66 ATCATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACT
* *
17209933 GCAAAATTATATTTTTGCCCTTTAATGGCTTAACAAAGTCCTAAAAAGACATACACGGTAATATT
131 GCAAAATTATATTTTTGCCCTTTAATGGCTTAACAAAGTCCTAAAAAGACATAAACGGTAACATT
* * * * * *
17209998 TTCACACATATTAGCCATGGAAACCAGGTTCAATCATTCAAAT-GAGTTTAATTTTATGTATTGA
196 TTCACACATATCAGCCATGGAAACCAAGTTCAATCATT-AAATCAAATTTAATATCATGTATTGA
* *
17210062 AGCTATCTAAACTATTAAAATAGAATAACAAACACAAATTTACATTTTGGCCTTTTAACAGTACA
260 AGCTATCTAAACTATTAAAACAGAATAACAAACACAAATTTACATTTTGGCCTTTTAACAGCACA
** * ** *
17210127 AAAAAATGCTAAACAGACATAAATGGTAACTTTTTTACACATAGCAATGGTGAAAACCAAGTTCA
325 AAAAAATGCTAAACAGACATAAACAGTAACTTTTTCACACATAGCAATCATGAAAACCAAGCTCA
* * * *
17210192 ATCATTCGAAAAAGTTTAATATCATGTATTTAAGCCATCTAAACTATTAAAACATAAATATAATT
390 ATCATTCAAAAAAGTTTAATATCATATATTTAAGCCATCTAAACTATTAAAACATAAATACAACT
** * * *
17210257 ACAAAATTATATTTTTGTCCTTTAACAGCATAACAAAGTCTTGAAAAGATATATACGGTAACATT
455 ACAAAATTATATTTTTACCCTTTAACAGCATAACAAAGTCCTAAAAAGATATAAACGGTAACATT
* * * * * * *
17210322 TTCACACATATCAGCTATGGAAACCAAGTTCAATCATATGGATAAGTTTAATATCATGTATTGAA
520 TTCACACATACCAACCATGGAAACCAAGTTCAATCATATAGACAAATTTAATATCATGTATTAAA
* * *
17210387 GCTATCTAAACTATTAAAATAAAATAATAAACACAAATTTGCATTTTGACTTTTTAACGAC
585 GCTATCTAAACTATTAAAACAAAATAATAAACACAAATTTGCACTTTGACCTTTTAACGAC
* * * *
17210448 ATAA-AAGTGCTAAATAA-ACATAAACGGTAACTTTTTTATACATAGCAATCGTGAAAACCAAGT
1 ATAATAAATGCTAAA-AAGGCATAAACGGTAACTTTTTTACACAT--CAATCGTGGAAACCAAGT
* * *
17210511 TTAATCATTCAAAAAAGTTCAATATCATATATTTAAGCTATTTAAACTATTAAAACATAAATATA
63 TTAATCATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATA
* * ** * *
17210576 AATGCAAAATGATATTTTTGCCCTTTAACAGCATAACAAAGTCCTAAAAAG--ATAAAAGGTAAC
128 ACTGCAAAATTATATTTTTGCCCTTTAATGGCTTAACAAAGTCCTAAAAAGACATAAACGGTAAC
* **** * ** * *
17210639 TTTTTTTCACACATATCAATTGTGAAAACCAAGTTCAATCATTCGGA-CAAGTTTAATATAATGT
193 --ATTTTCACACATATCAGCCATGGAAACCAAGTTCAATCATT-AAATCAAATTTAATATCATGT
* * * * * * * * * *
17210703 ATTGAAGCAACCCAAACTGTTAAAACA-AAAAAAAAATAATTGCATATTTACATTTTTGCCATTT
255 ATTGAAGCTATCTAAACTATTAAAACAGAATAACAAA-CA---CAAATTTACATTTTGGCCTTTT
* * * *
17210767 AA-TG-ACACAAAAAATGCTAAACAAATATAAACAATAACTTT
316 AACAGCACA-AAAAAATGCTAAACAGACATAAACAGTAACTTT
17210808 CTTATTTTAT
Statistics
Matches: 848, Mismatches: 135, Indels: 38
0.83 0.13 0.04
Matches are distributed among these distances:
640 57 0.07
641 2 0.00
642 31 0.04
643 6 0.01
644 46 0.05
645 14 0.02
646 636 0.75
647 6 0.01
648 29 0.03
649 21 0.02
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (645 bp):
ATAATAAATGCTAAAAAGGCATAAACGGTAACTTTTTTACACATCAATCGTGGAAACCAAGTTTA
ATCATTCAAAAAAGTTTAATATCATGTATTTAAGCTATCTAAACTATTAAAACATAAATATAACT
GCAAAATTATATTTTTGCCCTTTAATGGCTTAACAAAGTCCTAAAAAGACATAAACGGTAACATT
TTCACACATATCAGCCATGGAAACCAAGTTCAATCATTAAATCAAATTTAATATCATGTATTGAA
GCTATCTAAACTATTAAAACAGAATAACAAACACAAATTTACATTTTGGCCTTTTAACAGCACAA
AAAAATGCTAAACAGACATAAACAGTAACTTTTTCACACATAGCAATCATGAAAACCAAGCTCAA
TCATTCAAAAAAGTTTAATATCATATATTTAAGCCATCTAAACTATTAAAACATAAATACAACTA
CAAAATTATATTTTTACCCTTTAACAGCATAACAAAGTCCTAAAAAGATATAAACGGTAACATTT
TCACACATACCAACCATGGAAACCAAGTTCAATCATATAGACAAATTTAATATCATGTATTAAAG
CTATCTAAACTATTAAAACAAAATAATAAACACAAATTTGCACTTTGACCTTTTAACGAC
Found at i:17214235 original size:21 final size:21
Alignment explanation
Indices: 17214209--17214262 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
17214199 AACTTTCTCC
17214209 TTATC-ACTATGAATATCAATA
1 TTATCAACT-TGAATATCAATA
* *
17214230 TTATCAACTTGAGTATCAACA
1 TTATCAACTTGAATATCAATA
* *
17214251 TCACCAACTTGA
1 TTATCAACTTGA
17214263 GGAATAAGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.33
Consensus pattern (21 bp):
TTATCAACTTGAATATCAATA
Found at i:17219207 original size:22 final size:22
Alignment explanation
Indices: 17219144--17219219 Score: 111
Period size: 22 Copynumber: 3.5 Consensus size: 22
17219134 CCCGAAATTA
17219144 ATAAAATATTATTTTTTTTAAAAT
1 ATAAAATATTA--TTTTTTAAAAT
17219168 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
*
17219190 ATAAAATATTATTGTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
17219211 AT-AAATATT
1 ATAAAATATT
17219220 TAAATATATA
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
20 7 0.14
21 6 0.12
22 27 0.53
24 11 0.22
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:17219212 original size:14 final size:14
Alignment explanation
Indices: 17219204--17219243 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
17219194 AATATTATTG
17219204 TTTAAATATAAATA
1 TTTAAATATAAATA
17219218 TTTAAATATATAATTA
1 TTTAAATATA-AA-TA
*
17219234 TATAAATATA
1 TTTAAATATA
17219244 TATAAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 11 0.48
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAAATATAAATA
Found at i:17219225 original size:8 final size:8
Alignment explanation
Indices: 17219209--17219245 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
17219199 TATTGTTTAA
17219209 ATATAAAT
1 ATATAAAT
*
17219217 ATTTAAAT
1 ATATAAAT
*
17219225 ATATAATT
1 ATATAAAT
17219233 ATATAAAT
1 ATATAAAT
17219241 ATATA
1 ATATA
17219246 TAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATAAAT
Found at i:17219251 original size:26 final size:24
Alignment explanation
Indices: 17219209--17219260 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
17219199 TATTGTTTAA
* *
17219209 ATATAAATATTTAAATATATAATT
1 ATATAAATATTTAAATAAAAAATT
17219233 ATATAAATATATATAAATAAAAAATT
1 ATATAAATAT-T-TAAATAAAAAATT
17219259 AT
1 AT
17219261 TTTATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
25 1 0.04
26 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATAAATATTTAAATAAAAAATT
Found at i:17219252 original size:14 final size:14
Alignment explanation
Indices: 17219206--17219253 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
17219196 TATTATTGTT
* *
17219206 TAAATATAAATATT
1 TAAATATATATATA
17219220 TAAATATATAATTATA
1 TAAATATAT-A-TATA
*
17219236 TAAATATATATAAA
1 TAAATATATATATA
17219250 TAAA
1 TAAA
17219254 AAATTATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 15 0.52
15 2 0.07
16 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TAAATATATATATA
Found at i:17222672 original size:6 final size:6
Alignment explanation
Indices: 17222656--17222735 Score: 61
Period size: 6 Copynumber: 12.8 Consensus size: 6
17222646 AATAATTTGG
* * * * * * *
17222656 ATTTCA ATTTTA ATTTTG ATTTTG TTTTTA ACTCTA ATTTTG ATTTTA
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA
*
17222704 ATTCTTA ATTTTTA ATTTGA ATTTTGA ATTTT
1 ATT-TTA A-TTTTA ATTTTA ATTTT-A ATTTT
17222736 TTTTAAAATT
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
6 42 0.72
7 14 0.24
8 2 0.03
ACGTcount: A:0.26, C:0.05, G:0.06, T:0.62
Consensus pattern (6 bp):
ATTTTA
Found at i:17222677 original size:24 final size:24
Alignment explanation
Indices: 17222650--17222701 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
17222640 AAGCCAAATA
* *
17222650 ATTTGGATTTCAATTTTAATTTTG
1 ATTTGGATTTCAACTCTAATTTTG
* * *
17222674 ATTTTGTTTTTAACTCTAATTTTG
1 ATTTGGATTTCAACTCTAATTTTG
17222698 ATTT
1 ATTT
17222702 TAATTCTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.06, G:0.10, T:0.62
Consensus pattern (24 bp):
ATTTGGATTTCAACTCTAATTTTG
Found at i:17222684 original size:18 final size:17
Alignment explanation
Indices: 17222663--17222756 Score: 62
Period size: 18 Copynumber: 5.1 Consensus size: 17
17222653 TGGATTTCAA
*
17222663 TTTTAATTTTGATTTTGT
1 TTTTAATTTTAATTTT-T
* * *
17222681 TTTTAACTCTAATTTTGA
1 TTTTAATTTTAATTTT-T
17222699 TTTTAATTCTTAATTTTT
1 TTTTAATT-TTAATTTTT
*
17222717 AATTTGAATTTTGAATTTTT
1 --TTTTAATTTT-AATTTTT
* *
17222737 TTTAAAATTTTAGTTTTT
1 TTT-TAATTTTAATTTTT
17222755 TT
1 TT
17222757 ATTTAATCTT
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
18 32 0.52
19 15 0.25
20 14 0.23
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.66
Consensus pattern (17 bp):
TTTTAATTTTAATTTTT
Found at i:17223201 original size:34 final size:34
Alignment explanation
Indices: 17223159--17223238 Score: 135
Period size: 34 Copynumber: 2.4 Consensus size: 34
17223149 ATCGGCAAAG
17223159 CAAG-ATCAAGCAGAAAGCAATTCGGGCAATTCA
1 CAAGCATCAAGCAGAAAGCAATTCGGGCAATTCA
*
17223192 CAAGCATCAAGCAGAAAGTAATTCGGGCAATTCA
1 CAAGCATCAAGCAGAAAGCAATTCGGGCAATTCA
*
17223226 CAAGCATTAAGCA
1 CAAGCATCAAGCA
17223239 TCAAGCTCTA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 4 0.09
34 40 0.91
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.16
Consensus pattern (34 bp):
CAAGCATCAAGCAGAAAGCAATTCGGGCAATTCA
Found at i:17224893 original size:20 final size:20
Alignment explanation
Indices: 17224868--17224913 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
17224858 ATATTTGCAA
17224868 TTGCATGACTTA-TAATATAT
1 TTGCATGA-TTATTAATATAT
17224888 TTGCATGATTATTAATATAT
1 TTGCATGATTATTAATATAT
17224908 TTGCAT
1 TTGCAT
17224914 AATTCACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.48
Consensus pattern (20 bp):
TTGCATGATTATTAATATAT
Found at i:17228597 original size:17 final size:18
Alignment explanation
Indices: 17228577--17228620 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
17228567 ATAAAAAGAA
17228577 GAAAAGAAAAGG-AAAAG
1 GAAAAGAAAAGGAAAAAG
17228594 GAAAA-AACAAGGAAAAAG
1 GAAAAGAA-AAGGAAAAAG
*
17228612 AAAAAGAAA
1 GAAAAGAAA
17228621 TTGATGATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 2 0.09
17 9 0.39
18 10 0.43
19 2 0.09
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (18 bp):
GAAAAGAAAAGGAAAAAG
Found at i:17230095 original size:34 final size:34
Alignment explanation
Indices: 17230052--17230129 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
17230042 ATCTGCAAAG
*
17230052 CAAG-ATCAAGCAAAAAGCAATTC-GAGCAATTCA
1 CAAGCATCAAGCAAAAAGCAATTCAG-GCAAGTCA
* * *
17230085 CAGGCATCAAGTAGAAAGCAATTCAGGCAAGTCA
1 CAAGCATCAAGCAAAAAGCAATTCAGGCAAGTCA
17230119 CAAGCATCAAG
1 CAAGCATCAAG
17230130 GATCAAGCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
33 3 0.08
34 34 0.89
35 1 0.03
ACGTcount: A:0.45, C:0.22, G:0.19, T:0.14
Consensus pattern (34 bp):
CAAGCATCAAGCAAAAAGCAATTCAGGCAAGTCA
Found at i:17231445 original size:13 final size:13
Alignment explanation
Indices: 17231411--17231452 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
17231401 CTGGATTTTA
*
17231411 TTTCTGAATTTTTT
1 TTTCTG-ATTTATT
17231425 TCTTCTGATTTATT
1 T-TTCTGATTTATT
17231439 TTTCTGATTTATT
1 TTTCTGATTTATT
17231452 T
1 T
17231453 ATTATTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 13 0.50
14 8 0.31
15 5 0.19
ACGTcount: A:0.14, C:0.10, G:0.07, T:0.69
Consensus pattern (13 bp):
TTTCTGATTTATT
Found at i:17231581 original size:25 final size:26
Alignment explanation
Indices: 17231532--17231581 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
17231522 TATTTTTATG
*
17231532 TTTTATTTATGATTTTATTTGCATGC
1 TTTTATTTATGATTTTATTTACATGC
17231558 TTTTATTT-TGATATTT-TTTACATG
1 TTTTATTTATGAT-TTTATTTACATG
17231582 AACATATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.20, C:0.06, G:0.10, T:0.64
Consensus pattern (26 bp):
TTTTATTTATGATTTTATTTACATGC
Found at i:17231700 original size:20 final size:20
Alignment explanation
Indices: 17231677--17231738 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
17231667 AATTGTAAGG
17231677 TTATATATTTAATTAGATGA
1 TTATATATTTAATTAGATGA
* *
17231697 TTATATATTTATTTATATGA
1 TTATATATTTAATTAGATGA
*
17231717 TTATTTA-TTAATT-GCATGA
1 TTATATATTTAATTAG-ATGA
17231736 TTA
1 TTA
17231739 CTTAAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 12 0.33
20 24 0.67
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (20 bp):
TTATATATTTAATTAGATGA
Found at i:17231792 original size:26 final size:26
Alignment explanation
Indices: 17231763--17231812 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
17231753 TGATTAATAT
17231763 ATTTACATG-ACTAATAATATATTTGC
1 ATTTACATGTA-TAATAATATATTTGC
* *
17231789 ATTTGCATGTATAGTAATATATTT
1 ATTTACATGTATAATAATATATTT
17231813 TCATGGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.36, C:0.08, G:0.10, T:0.46
Consensus pattern (26 bp):
ATTTACATGTATAATAATATATTTGC
Found at i:17231817 original size:20 final size:20
Alignment explanation
Indices: 17231789--17231836 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
17231779 ATATATTTGC
17231789 ATTTGCAT-GTATAGTAATAT
1 ATTTGCATGGT-TAGTAATAT
* *
17231809 ATTTTCATGGTTATTAATAT
1 ATTTGCATGGTTAGTAATAT
17231829 ATTTGCAT
1 ATTTGCAT
17231837 CATCTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.31, C:0.06, G:0.12, T:0.50
Consensus pattern (20 bp):
ATTTGCATGGTTAGTAATAT
Found at i:17233488 original size:15 final size:15
Alignment explanation
Indices: 17233468--17233592 Score: 69
Period size: 15 Copynumber: 8.3 Consensus size: 15
17233458 TCTATTAAAG
*
17233468 AGTTGTTTTATGAAT
1 AGTTGTTCTATGAAT
17233483 AGTTG-TCTATGAAT
1 AGTTGTTCTATGAAT
* * *
17233497 AATTGTTCCATGAAAA
1 AGTTGTTCTATG-AAT
*
17233513 AGTTGTTCGATGAAT
1 AGTTGTTCTATGAAT
* * *
17233528 AGATATTCCAT-AAGT
1 AGTTGTTCTATGAA-T
* * *
17233543 AATTGTTCCAT-AAA
1 AGTTGTTCTATGAAT
17233557 AGAATTGTT-TCATGAAT
1 AG--TTGTTCT-ATGAAT
*
17233574 AGTTGTTCTATGAAC
1 AGTTGTTCTATGAAT
17233589 AGTT
1 AGTT
17233593 ATTTCAAAAA
Statistics
Matches: 84, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
14 15 0.18
15 45 0.54
16 20 0.24
17 4 0.05
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.40
Consensus pattern (15 bp):
AGTTGTTCTATGAAT
Found at i:17238905 original size:2 final size:2
Alignment explanation
Indices: 17238898--17238926 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17238888 ATTTGGCTGA
17238898 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
17238927 AAACATTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:17239569 original size:17 final size:17
Alignment explanation
Indices: 17239547--17239580 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
17239537 CAACGGTTAG
17239547 AACTTTAGATTTTATGT
1 AACTTTAGATTTTATGT
17239564 AACTTTAGATTTTATGT
1 AACTTTAGATTTTATGT
17239581 TGGAATGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (17 bp):
AACTTTAGATTTTATGT
Found at i:17240574 original size:32 final size:32
Alignment explanation
Indices: 17240538--17240600 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
17240528 GGAAATAGAA
*
17240538 AATTGTATATTATAATGTTTAGATAAAAAAAG
1 AATTGTATATTATAATGTTCAGATAAAAAAAG
*
17240570 AATTGTATGTTATAATGTTCAGATAAAAAAA
1 AATTGTATATTATAATGTTCAGATAAAAAAA
17240601 ATTAAAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.37
Consensus pattern (32 bp):
AATTGTATATTATAATGTTCAGATAAAAAAAG
Found at i:17241513 original size:141 final size:141
Alignment explanation
Indices: 17241258--17241521 Score: 465
Period size: 141 Copynumber: 1.9 Consensus size: 141
17241248 ACATAGAAAC
*
17241258 TTCCTTTGCATCAATAGTAATAAAATTGTAAGGTTTGAAATTTATTATTAATGCCCAAATTACTG
1 TTCCTTTGCATCAATAGTAATAAAATTGTAAGGTTTGAAATTTATTATTAACGCCCAAATTACTG
* *
17241323 CAACAGGGAAATCTTACACAACACATTTGAACCCACAAGGGTTATTCCAGTTGGTAAGATAAAAC
66 CAACAGGGAAATCTTACACAACACATTTGAACCCAAAAGGGTTAATCCAGTTGGTAAGATAAAAC
17241388 TAATGGAAAAT
131 TAATGGAAAAT
* *
17241399 TTCCTTTGCATCAATAGTAATAAAATTGTAAGTTTTTAAATTTATTATTAACGCCCAAATTACTG
1 TTCCTTTGCATCAATAGTAATAAAATTGTAAGGTTTGAAATTTATTATTAACGCCCAAATTACTG
* *
17241464 CAACTGGGAATTCTTACACAACACATTTGAACCCAAAAGGGTTAATCCAGTTGGTAAG
66 CAACAGGGAAATCTTACACAACACATTTGAACCCAAAAGGGTTAATCCAGTTGGTAAG
17241522 GGAGGAGCCC
Statistics
Matches: 116, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
141 116 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (141 bp):
TTCCTTTGCATCAATAGTAATAAAATTGTAAGGTTTGAAATTTATTATTAACGCCCAAATTACTG
CAACAGGGAAATCTTACACAACACATTTGAACCCAAAAGGGTTAATCCAGTTGGTAAGATAAAAC
TAATGGAAAAT
Found at i:17245846 original size:14 final size:14
Alignment explanation
Indices: 17245815--17245848 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
17245805 TGTCTAATTT
*
17245815 ATGAAAAATTTTAA
1 ATGAAAAATTTCAA
*
17245829 ATGAAAAATTTCAG
1 ATGAAAAATTTCAA
17245843 ATGAAA
1 ATGAAA
17245849 TTGATGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (14 bp):
ATGAAAAATTTCAA
Found at i:17246090 original size:19 final size:19
Alignment explanation
Indices: 17246066--17246106 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
17246056 ATAACAAATT
* *
17246066 TTTTCATTTATGATTTTAA
1 TTTTCAATTATAATTTTAA
*
17246085 TTTTCAATTATAATTTTTA
1 TTTTCAATTATAATTTTAA
17246104 TTT
1 TTT
17246107 AATATTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTTCAATTATAATTTTAA
Found at i:17247282 original size:27 final size:29
Alignment explanation
Indices: 17247252--17247317 Score: 91
Period size: 27 Copynumber: 2.3 Consensus size: 29
17247242 GGTATATCAA
17247252 AGTAATGGCTTGGTGGTGGT-GTG-TTGT
1 AGTAATGGCTTGGTGGTGGTGGTGATTGT
* *
17247279 AGTAGTGGTTTGGTGGTGGTGGTGTATTGT
1 AGTAATGGCTTGGTGGTGGTGGTG-ATTGT
17247309 AGTAATGGC
1 AGTAATGGC
17247318 CGGATGGAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 18 0.56
28 3 0.09
30 11 0.34
ACGTcount: A:0.14, C:0.03, G:0.44, T:0.39
Consensus pattern (29 bp):
AGTAATGGCTTGGTGGTGGTGGTGATTGT
Found at i:17249367 original size:18 final size:18
Alignment explanation
Indices: 17249344--17249379 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
17249334 TATGATCACT
17249344 TTCCCTATTGCCAGCTAC
1 TTCCCTATTGCCAGCTAC
17249362 TTCCCTATTGCCAGCTAC
1 TTCCCTATTGCCAGCTAC
17249380 CAGGAAACGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.39, G:0.11, T:0.33
Consensus pattern (18 bp):
TTCCCTATTGCCAGCTAC
Found at i:17263401 original size:79 final size:79
Alignment explanation
Indices: 17263192--17263394 Score: 239
Period size: 79 Copynumber: 2.6 Consensus size: 79
17263182 GTGCCATATT
* * * * *
17263192 TATTCTTGCGTTAAGACATATAGACGAACACAAACAACACTTCTTGCCAAGATGCTTAACATACC
1 TATTCTTGCGTTAAGGCATATAGGCAAACACAAACCACACTTCTTGCCAACATGCTTAACATACC
* *
17263257 TTACGCATTATATC
66 CTACGCATTATACC
* * * *
17263271 TATTCTTGTGTTAAGGCATATGGGCTAACACAAACCTCACTTCTTGCCAACATG-TTAA-ATGCA
1 TATTCTTGCGTTAAGGCATATAGGCAAACACAAACCACACTTCTTGCCAACATGCTTAACAT--A
*
17263334 CCCTACGCGTTATACC
64 CCCTACGCATTATACC
* * *
17263350 TATTCTTGCATTAAGGTATATAGGCAAACACAAACCCCACTTCTT
1 TATTCTTGCGTTAAGGCATATAGGCAAACACAAACCACACTTCTT
17263395 ATCAACAAAC
Statistics
Matches: 105, Mismatches: 17, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
77 2 0.02
78 4 0.04
79 99 0.94
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (79 bp):
TATTCTTGCGTTAAGGCATATAGGCAAACACAAACCACACTTCTTGCCAACATGCTTAACATACC
CTACGCATTATACC
Found at i:17267775 original size:48 final size:48
Alignment explanation
Indices: 17267733--17267873 Score: 149
Period size: 49 Copynumber: 2.9 Consensus size: 48
17267723 GCTCATTGAA
* * *
17267733 AGAAAATCCCTCGCCTAAAAGGGATACATCATCAGCAT-GCTCACCAAG
1 AGAACATCCCTCGCCTAAAAGGGACACATCATCAGCATGGCTCA-TAAG
* * * * *
17267781 AGAACATCCCTCACTTAAAAGTGACACATCATTAGCATGGCTCGCTAAG
1 AGAACATCCCTCGCCTAAAAGGGACACATCATCAGCATGGCTC-ATAAG
* * * *
17267830 AGAACATCCCTTGTCTAAAAGGGACACATCATTAGAATGGCTCA
1 AGAACATCCCTCGCCTAAAAGGGACACATCATCAGCATGGCTCA
17267874 CTGAGAGAGT
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
48 32 0.42
49 44 0.58
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (48 bp):
AGAACATCCCTCGCCTAAAAGGGACACATCATCAGCATGGCTCATAAG
Found at i:17267849 original size:49 final size:49
Alignment explanation
Indices: 17267676--17267881 Score: 181
Period size: 48 Copynumber: 4.2 Consensus size: 49
17267666 ATCAACCTGA
* * * *
17267676 CTCACTAAGAAAACAT-CCTTGAACCAAAAAGGACACATCATT--CATAAG
1 CTCACTAAGAGAACATCCCTTG-ACTAAAAGGGACACATCATTAGCAT-GG
* * * * * *
17267724 CTCATTGAA-AGAAAATCCCTCGCCTAAAAGGGATACATCATCAGCAT-G
1 CTCACT-AAGAGAACATCCCTTGACTAAAAGGGACACATCATTAGCATGG
* * *
17267772 CTCACCAAGAGAACATCCC-TCACTTAAAAGTGACACATCATTAGCATGG
1 CTCACTAAGAGAACATCCCTTGAC-TAAAAGGGACACATCATTAGCATGG
* * *
17267821 CTCGCTAAGAGAACATCCCTTGTCTAAAAGGGACACATCATTAGAATGG
1 CTCACTAAGAGAACATCCCTTGACTAAAAGGGACACATCATTAGCATGG
*
17267870 CTCACTGAGAGA
1 CTCACTAAGAGA
17267882 GTGTCCTTCA
Statistics
Matches: 124, Mismatches: 26, Indels: 15
0.75 0.16 0.09
Matches are distributed among these distances:
47 3 0.02
48 59 0.48
49 57 0.46
50 5 0.04
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.20
Consensus pattern (49 bp):
CTCACTAAGAGAACATCCCTTGACTAAAAGGGACACATCATTAGCATGG
Found at i:17270582 original size:4 final size:4
Alignment explanation
Indices: 17270573--17270597 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
17270563 CTATAAAGAA
17270573 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
17270598 GATCATTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:17273691 original size:22 final size:22
Alignment explanation
Indices: 17273640--17273693 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
17273630 TTTGAAAATG
* *
17273640 ATACTTAGAAGTTTTAAAGATC
1 ATACTTAGAGGTCTTAAAGATC
** *
17273662 ATGTTTAGAGGTCTTATAGATC
1 ATACTTAGAGGTCTTAAAGATC
17273684 ATACTTAGAG
1 ATACTTAGAG
17273694 AACTTTAAGA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (22 bp):
ATACTTAGAGGTCTTAAAGATC
Found at i:17274266 original size:27 final size:27
Alignment explanation
Indices: 17274228--17274289 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
17274218 TTGTTGAATA
* *
17274228 CATGGAATGCATGCAATAAATATAATG
1 CATGAAATGCATGCAACAAATATAATG
* *
17274255 CATGAAATGCATGCAACGAATGTAATG
1 CATGAAATGCATGCAACAAATATAATG
*
17274282 TATGAAAT
1 CATGAAAT
17274290 CAATATCATA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.26
Consensus pattern (27 bp):
CATGAAATGCATGCAACAAATATAATG
Found at i:17275484 original size:17 final size:15
Alignment explanation
Indices: 17275464--17275507 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 15
17275454 TTTTCAATTC
17275464 TTTTTCTTTTTTCTT
1 TTTTTCTTTTTTCTT
17275479 TGTTTTCTTTATTTCTT
1 T-TTTTCTTT-TTTCTT
17275496 TATTTTCTTTTT
1 T-TTTTCTTTTT
17275508 ACTTGCTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 1 0.04
16 10 0.38
17 15 0.58
ACGTcount: A:0.05, C:0.11, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTTTCTTTTTTCTT
Found at i:17275486 original size:9 final size:8
Alignment explanation
Indices: 17275464--17275507 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 8
17275454 TTTTCAATTC
17275464 TTTTTC-T
1 TTTTTCTT
17275471 TTTTTCTT
1 TTTTTCTT
17275479 TGTTTTCTT
1 T-TTTTCTT
*
17275488 TATTTCTT
1 TTTTTCTT
17275496 TATTTTCTT
1 T-TTTTCTT
17275505 TTT
1 TTT
17275508 ACTTGCTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 6 0.19
8 11 0.34
9 15 0.47
ACGTcount: A:0.05, C:0.11, G:0.02, T:0.82
Consensus pattern (8 bp):
TTTTTCTT
Found at i:17283310 original size:3 final size:3
Alignment explanation
Indices: 17283302--17283327 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17283292 CTTGAAAATT
17283302 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
17283328 TGAAATTTCA
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:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:17293173 original size:21 final size:20
Alignment explanation
Indices: 17293148--17293190 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
17293138 TGAATTCTTA
17293148 GAAAAAGAAAATTT-TGATTT
1 GAAAAAG-AAATTTATGATTT
17293168 GAAAAAGAAATTTGATGATTT
1 GAAAAAGAAATTT-ATGATTT
17293189 GA
1 GA
17293191 TGAATGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 7 0.33
21 8 0.38
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.33
Consensus pattern (20 bp):
GAAAAAGAAATTTATGATTT
Found at i:17296806 original size:38 final size:38
Alignment explanation
Indices: 17296764--17296837 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
17296754 AGTTGTGTTG
* * * *
17296764 GATTAGGATGCATAAATTGAGGGGGAGTTTTGCCATTA
1 GATTAGGATACACAAATTGAGAGGGAGTTTTACCATTA
17296802 GATTAGGATACACAAATTGAGAGGGAGTTTTACCAT
1 GATTAGGATACACAAATTGAGAGGGAGTTTTACCAT
17296838 GCATTGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.30
Consensus pattern (38 bp):
GATTAGGATACACAAATTGAGAGGGAGTTTTACCATTA
Found at i:17296911 original size:19 final size:20
Alignment explanation
Indices: 17296863--17296911 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
17296853 GAGTTTTCCA
17296863 AAATGTTTTTTCAAAATCCT
1 AAATGTTTTTTCAAAATCCT
17296883 AAATGTTTTTTCAAAATCCT
1 AAATGTTTTTTCAAAATCCT
17296903 AAATGTTTT
1 AAATGTTTT
17296912 AAAGAAAGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (20 bp):
AAATGTTTTTTCAAAATCCT
Found at i:17302579 original size:10 final size:10
Alignment explanation
Indices: 17302545--17302579 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
17302535 TTTAAACTCG
17302545 TTTTCTTTTA
1 TTTTCTTTTA
*
17302555 TTTGCTTTTA
1 TTTTCTTTTA
17302565 TTTTTCTTTTA
1 -TTTTCTTTTA
17302576 TTTT
1 TTTT
17302580 GATCTTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.09, C:0.09, G:0.03, T:0.80
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:17305639 original size:19 final size:19
Alignment explanation
Indices: 17305615--17305656 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
17305605 GGATAGAGGT
17305615 TGATTGAGCAAAATAGACG
1 TGATTGAGCAAAATAGACG
17305634 TGATTGAGCAAAATAGACG
1 TGATTGAGCAAAATAGACG
17305653 TGAT
1 TGAT
17305657 GAAAGATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.26, T:0.24
Consensus pattern (19 bp):
TGATTGAGCAAAATAGACG
Found at i:17307616 original size:39 final size:39
Alignment explanation
Indices: 17307573--17307650 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
17307563 ATGTATATAG
*
17307573 CTCAAGTAAAAAAAATGTAAAATATTTCATCACACTTAA
1 CTCAAATAAAAAAAATGTAAAATATTTCATCACACTTAA
* *
17307612 CTCAAATAAAAAGAATGTAAAATATTTCATCACATTTAA
1 CTCAAATAAAAAAAATGTAAAATATTTCATCACACTTAA
17307651 ATTCAAAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.29
Consensus pattern (39 bp):
CTCAAATAAAAAAAATGTAAAATATTTCATCACACTTAA
Found at i:17310572 original size:18 final size:20
Alignment explanation
Indices: 17310551--17310594 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
17310541 AAATTTAATA
*
17310551 TTTTACAAAAA-T-AAAAAT
1 TTTTAAAAAAATTAAAAAAT
17310569 TTTTAAAAAAATTTAAAAAAT
1 TTTTAAAAAAA-TTAAAAAAT
17310590 TTTTA
1 TTTTA
17310595 TCTTAGAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 10 0.45
20 1 0.05
21 11 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTTTAAAAAAATTAAAAAAT
Found at i:17313028 original size:13 final size:13
Alignment explanation
Indices: 17313012--17313036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17313002 TTTTTGTTGA
17313012 AATATTTTTTTAT
1 AATATTTTTTTAT
17313025 AATATTTTTTTA
1 AATATTTTTTTA
17313037 ACAAAGATTA
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
AATATTTTTTTAT
Found at i:17313303 original size:71 final size:69
Alignment explanation
Indices: 17313176--17313354 Score: 171
Period size: 71 Copynumber: 2.6 Consensus size: 69
17313166 TTTTCTTCAT
* * *
17313176 AATATA-TTTTAACAAAATTATATTTTTTATCTTAAAAACGCAGTCTCTATTAAAACTATAGAAT
1 AATATAGTTTTAACAAAATCATATTTTTTATCTTAAAAACACAATCTCTATTAAAACTA-A-AAT
*
17313240 TATTAA
64 TATAAA
* * * * * * *
17313246 AATATAGTTTTAAGAAAATCATTTTTTTTATCTTAAAAACATAATTTTTATTGAAACTAAAATTC
1 AATATAGTTTTAACAAAATCATATTTTTTATCTTAAAAACACAATCTCTATTAAAACTAAAATTA
17313311 TAAA
66 TAAA
* * * * * *
17313315 AATATAGCTTCAATAATGATCATGTTTTTTATTTTAAAAA
1 AATATAGTTTTAACAA-AATCATATTTTTTATCTTAAAAA
17313355 TATTGTCTTT
Statistics
Matches: 90, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
69 20 0.22
70 27 0.30
71 43 0.48
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.43
Consensus pattern (69 bp):
AATATAGTTTTAACAAAATCATATTTTTTATCTTAAAAACACAATCTCTATTAAAACTAAAATTA
TAAA
Found at i:17348137 original size:2 final size:2
Alignment explanation
Indices: 17348130--17348158 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17348120 CTAAGCTTTT
17348130 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
17348159 TTTTAAGCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:17357536 original size:7 final size:7
Alignment explanation
Indices: 17357524--17357575 Score: 58
Period size: 6 Copynumber: 8.0 Consensus size: 7
17357514 CTATAATCCT
17357524 AACCCAA
1 AACCCAA
17357531 AACCCAA
1 AACCCAA
*
17357538 AA-CCTA
1 AACCCAA
17357544 AACCC-A
1 AACCCAA
17357550 AACCC-A
1 AACCCAA
17357556 AACCC-A
1 AACCCAA
17357562 AACCCAA
1 AACCCAA
*
17357569 AATCCAA
1 AACCCAA
17357576 GCCCTAACCT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 23 0.56
7 18 0.44
ACGTcount: A:0.54, C:0.42, G:0.00, T:0.04
Consensus pattern (7 bp):
AACCCAA
Found at i:17357548 original size:13 final size:13
Alignment explanation
Indices: 17357524--17357575 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
17357514 CTATAATCCT
17357524 AACCCAAAACCCA
1 AACCCAAAACCCA
* *
17357537 AAACCTAAACCCA
1 AACCCAAAACCCA
17357550 AACCC-AAACCCA
1 AACCCAAAACCCA
*
17357562 AACCCAAAATCCA
1 AACCCAAAACCCA
17357575 A
1 A
17357576 GCCCTAACCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
12 12 0.35
13 22 0.65
ACGTcount: A:0.54, C:0.42, G:0.00, T:0.04
Consensus pattern (13 bp):
AACCCAAAACCCA
Found at i:17357552 original size:6 final size:6
Alignment explanation
Indices: 17357524--17357569 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
17357514 CTATAATCCT
*
17357524 AACCCAA AACCCAA AACCTA AACCCA AACCCA AACCCA AACCCA AA
1 AACCC-A AACCC-A AACCCA AACCCA AACCCA AACCCA AACCCA AA
17357570 ATCCAAGCCC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
6 26 0.70
7 11 0.30
ACGTcount: A:0.54, C:0.43, G:0.00, T:0.02
Consensus pattern (6 bp):
AACCCA
Found at i:17357584 original size:19 final size:19
Alignment explanation
Indices: 17357521--17357584 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
17357511 TAACTATAAT
*
17357521 CCTAACCCAAAACCCAAAA
1 CCTAACCCAAAACCCAAAC
17357540 CCTAAACCC-AAACCCAAAC
1 CCT-AACCCAAAACCCAAAC
* * *
17357559 CCAAACCCAAAATCCAAGC
1 CCTAACCCAAAACCCAAAC
17357578 CCTAACC
1 CCTAACC
17357585 TTATACTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 5 0.13
19 28 0.74
20 5 0.13
ACGTcount: A:0.47, C:0.45, G:0.02, T:0.06
Consensus pattern (19 bp):
CCTAACCCAAAACCCAAAC
Found at i:17357605 original size:7 final size:7
Alignment explanation
Indices: 17357524--17357687 Score: 73
Period size: 7 Copynumber: 25.1 Consensus size: 7
17357514 CTATAATCCT
*
17357524 AACCCAA
1 AACCCTA
17357531 AACCC-A
1 AACCCTA
*
17357537 AAACCTA
1 AACCCTA
17357544 AACCC-A
1 AACCCTA
17357550 AACCC-A
1 AACCCTA
17357556 AACCC-A
1 AACCCTA
*
17357562 AACCCAA
1 AACCCTA
*
17357569 AATCC-A
1 AACCCTA
*
17357575 AGCCCT-
1 AACCCTA
*
17357581 AACCTTA
1 AACCCTA
* **
17357588 TACTTTA
1 AACCCTA
17357595 AACCCTA
1 AACCCTA
17357602 AACCCTA
1 AACCCTA
**
17357609 AATTCTA
1 AACCCTA
*
17357616 AATCC-A
1 AACCCTA
*
17357622 AA-TC-A
1 AACCCTA
*
17357627 TACCCT-
1 AACCCTA
17357633 AACCCTA
1 AACCCTA
17357640 AACCCTA
1 AACCCTA
*
17357647 AGCCCTA
1 AACCCTA
*
17357654 AA-CTTA
1 AACCCTA
*
17357660 AATCCTA
1 AACCCTA
* *
17357667 AATCTTA
1 AACCCTA
17357674 AACCCT-
1 AACCCTA
17357680 AACCCTA
1 AACCCTA
17357687 A
1 A
17357688 CCTAGATCCC
Statistics
Matches: 122, Mismatches: 26, Indels: 18
0.73 0.16 0.11
Matches are distributed among these distances:
5 3 0.02
6 51 0.42
7 68 0.56
ACGTcount: A:0.44, C:0.37, G:0.01, T:0.18
Consensus pattern (7 bp):
AACCCTA
Found at i:17357729 original size:18 final size:18
Alignment explanation
Indices: 17357695--17357729 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17357685 TAACCTAGAT
*
17357695 CCCAAACCAACCCTTAAA
1 CCCAAACCAACCATTAAA
*
17357713 CCCAAACCAATCATTAA
1 CCCAAACCAACCATTAA
17357730 TTTGCATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (18 bp):
CCCAAACCAACCATTAAA
Found at i:17359575 original size:93 final size:93
Alignment explanation
Indices: 17359465--17359650 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
17359455 AAACAACTAA
17359465 AATAGTACATGAAATTGAAACCATAACTCACTAAGTTAGCAACAGAAGAAAAATAAATCTAGAGC
1 AATAGTACATGAAATTGAAACCATAACTCACTAAGTTAGCAACAGAAGAAAAATAAATCTAGAGC
17359530 TCTATACTAAATAAGAACATAAATTGAG
66 TCTATACTAAATAAGAACATAAATTGAG
17359558 AATAGTACATGAAATTGAAACCATAACTCACTAAGTTAGCAACAGAAGAAAAATAAATCTAGAGC
1 AATAGTACATGAAATTGAAACCATAACTCACTAAGTTAGCAACAGAAGAAAAATAAATCTAGAGC
17359623 TCTATACTAAATAAGAACATAAATTGAG
66 TCTATACTAAATAAGAACATAAATTGAG
17359651 CTAACGAACG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.51, C:0.14, G:0.13, T:0.23
Consensus pattern (93 bp):
AATAGTACATGAAATTGAAACCATAACTCACTAAGTTAGCAACAGAAGAAAAATAAATCTAGAGC
TCTATACTAAATAAGAACATAAATTGAG
Found at i:17366287 original size:52 final size:52
Alignment explanation
Indices: 17366209--17366317 Score: 191
Period size: 52 Copynumber: 2.1 Consensus size: 52
17366199 TCAAAGGTAG
* *
17366209 TCTTCTTTGAATAAAAAATGTGCACTCACTAGTGAGTGCAATTTTCTCATAA
1 TCTTCTTTGAATAAAAAATGTGCACTCACTAATGAGTGCAATTGTCTCATAA
*
17366261 TCTTTTTTGAATAAAAAATGTGCACTCACTAATGAGTGCAATTGTCTCATAA
1 TCTTCTTTGAATAAAAAATGTGCACTCACTAATGAGTGCAATTGTCTCATAA
17366313 TCTTC
1 TCTTC
17366318 ATGCTTCTTC
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (52 bp):
TCTTCTTTGAATAAAAAATGTGCACTCACTAATGAGTGCAATTGTCTCATAA
Found at i:17381736 original size:26 final size:26
Alignment explanation
Indices: 17381700--17381752 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
17381690 GAAGGACTAC
*
17381700 GTTTTTTCTTTTGGCATT-AGAGAGGT
1 GTTTTCTCTTTTGGCATTGA-AGAGGT
17381726 GTTTTCTCTTTTGGCATTGAAGAGGT
1 GTTTTCTCTTTTGGCATTGAAGAGGT
17381752 G
1 G
17381753 CACAAGGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.15, C:0.09, G:0.28, T:0.47
Consensus pattern (26 bp):
GTTTTCTCTTTTGGCATTGAAGAGGT
Found at i:17385142 original size:16 final size:16
Alignment explanation
Indices: 17385121--17385155 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
17385111 TTTTTATCTC
17385121 AAGCCTTAGAGAGAAA
1 AAGCCTTAGAGAGAAA
17385137 AAGCCTTAGAGAGAAA
1 AAGCCTTAGAGAGAAA
17385153 AAG
1 AAG
17385156 GCAAGATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.26, T:0.11
Consensus pattern (16 bp):
AAGCCTTAGAGAGAAA
Found at i:17403984 original size:31 final size:31
Alignment explanation
Indices: 17403949--17404010 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
17403939 ATACGTAAAT
17403949 AGTAACTTTTCATACATATCATCTGTGTAAC
1 AGTAACTTTTCATACATATCATCTGTGTAAC
17403980 AGTAACTTTTCATACATATCATCTGTGTAAC
1 AGTAACTTTTCATACATATCATCTGTGTAAC
17404011 TAAGTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (31 bp):
AGTAACTTTTCATACATATCATCTGTGTAAC
Found at i:17411555 original size:59 final size:57
Alignment explanation
Indices: 17411508--17411971 Score: 537
Period size: 59 Copynumber: 7.9 Consensus size: 57
17411498 TTTTGTAGGA
*
17411508 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAA-TTT-ATTTTTAAGG
* *
17411567 AAAATTGATACTTTCAACTTTT-CCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAA---TATTTTTTGGAAATTTATTTTTAAGG
* * * *
17411626 AAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAATTTTGATTTTGAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTGGAAA-TTT-ATTTTTAAGG
* *
17411686 AAAATTGATACTTTCAACTTTT-CCTCAAAAACCCT-TTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAACTTTTCCCT-AAAAA---TATTTTTTGGAAATTTATTTTTAAGG
*
17411745 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTATTTTTAAGG
* *
17411804 AAAATTGATACTTTCAACTTTTTCCC-AAAAATATTTTTTTGAAAATTTATTTCTAAGG
1 AAAATTGATACTTTCAAC-TTTTCCCTAAAAATA-TTTTTTGGAAATTTATTTTTAAGG
* * * *
17411862 AAAATTGATACTTTCAACTTTTCCTCAAAAAACCTTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCC-CTAAAAA--TATTTTTTGGAAATTTATTTTTAAGG
* *
17411922 AAAATTAATACTTTCAACTTTTCCC-AAAAATATTTTTTTG-AATTTATTTT
1 AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTT
17411972 AAGAAGAAAA
Statistics
Matches: 356, Mismatches: 27, Indels: 48
0.83 0.06 0.11
Matches are distributed among these distances:
55 10 0.03
56 9 0.03
57 6 0.02
58 59 0.17
59 154 0.43
60 96 0.27
61 20 0.06
62 1 0.00
63 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTTTTAAGG
Found at i:17411833 original size:118 final size:119
Alignment explanation
Indices: 17411508--17411974 Score: 690
Period size: 119 Copynumber: 4.0 Consensus size: 119
17411498 TTTTGTAGGA
* *
17411508 AAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTTGATTTTCAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTTGATTTTTAAGGAAAA
*
17411571 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGG
66 TTGATACTTTCAACTTTTCCTCAAAAA-CATTTTTTTGAAAATTTATTTCTAAGG
* *
17411626 AAAATTAATACTTTCAACTTTTCCCCAAAAATATTTTTTTT-GAAATTTTGATTTTGAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTTGATTTTTAAGGAAAA
*
17411690 TTGATACTTTCAACTTTTCCTCAAAAACCCTTTTTTTGAAAATTTATTTCTAAGG
66 TTGATACTTTCAACTTTTCCTCAAAAA-CATTTTTTTGAAAATTTATTTCTAAGG
17411745 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAA-TTT-ATTTTTAAGGAAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTTGATTTTTAAGGAAAA
*
17411808 TTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTGAAAATTTATTTCTAAGG
66 TTGATACTTTCAAC-TTTTCCTCAAAAACATTTTTTTGAAAATTTATTTCTAAGG
* * *
17411862 AAAATTGATACTTTCAACTTTTCCTCAAAAA-ACCTTTTTTTT-GAAAATTT-ATTTTTAAGAAA
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTTTGGAAATTTTGATTTTTAAGGAA
* *
17411924 AATTAATACTTTCAACTTTTCC-CAAAAATATTTTTTTG--AATTTATTT-TAAG
64 AATTGATACTTTCAACTTTTCCTCAAAAACATTTTTTTGAAAATTTATTTCTAAG
17411975 AAGAAAAAAA
Statistics
Matches: 332, Mismatches: 10, Indels: 18
0.92 0.03 0.05
Matches are distributed among these distances:
114 4 0.01
115 9 0.03
116 1 0.00
117 81 0.24
118 101 0.30
119 126 0.38
120 10 0.03
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTTGATTTTTAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAACATTTTTTTGAAAATTTATTTCTAAGG
Found at i:17411993 original size:8 final size:8
Alignment explanation
Indices: 17411980--17412009 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
17411970 TTAAGAAGAA
17411980 AAAAAAAT
1 AAAAAAAT
17411988 AAAAAAAAT
1 -AAAAAAAT
17411997 AAAAAAAT
1 AAAAAAAT
17412005 AAAAA
1 AAAAA
17412010 TAAAGATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:17411993 original size:9 final size:9
Alignment explanation
Indices: 17411979--17412009 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
17411969 TTTAAGAAGA
17411979 AAAAAAAAT
1 AAAAAAAAT
17411988 AAAAAAAAT
1 AAAAAAAAT
17411997 -AAAAAAAT
1 AAAAAAAAT
17412005 AAAAA
1 AAAAA
17412010 TAAAGATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:17412043 original size:6 final size:6
Alignment explanation
Indices: 17411978--17412028 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
17411968 TTTTAAGAAG
* *
17411978 AAAA-A AAAATA AAAA-A AATAA-A AAAATA AAAATA AAGATA AAGATA
1 AAAATA AAAATA AAAATA AA-AATA AAAATA AAAATA AAAATA AAAATA
17412024 AAAAT
1 AAAAT
17412029 GGAATAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
5 9 0.22
6 32 0.78
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:17412084 original size:3 final size:3
Alignment explanation
Indices: 17412071--17412103 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
17412061 AGATATAGTC
17412071 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA
17412104 ATAAATAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:17417569 original size:27 final size:26
Alignment explanation
Indices: 17417507--17417569 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 26
17417497 TGTTTGGTGT
*
17417507 ATAAGATTATGATAGGATAAGATAAA
1 ATAATATTATGATAGGATAAGATAAA
* * * *
17417533 ATGATATTATGAATATGATTAGATTAA
1 ATAATATTATG-ATAGGATAAGATAAA
*
17417560 ATAATGTTAT
1 ATAATATTAT
17417570 CATATCTTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 9 0.31
27 20 0.69
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.37
Consensus pattern (26 bp):
ATAATATTATGATAGGATAAGATAAA
Found at i:17418037 original size:250 final size:250
Alignment explanation
Indices: 17417556--17418054 Score: 705
Period size: 250 Copynumber: 2.0 Consensus size: 250
17417546 TATGATTAGA
* * * * *
17417556 TTAAATAATGTTATCATATCTTATGTTTGATGTGTGCAAATATTATGATAGCATAATTTATTTAT
1 TTAAATAATGTTATCATATCTTATGTTCGATATGTACAAAGATTATGATAGAATAATTTATTTAT
* * *
17417621 TGATCAATATTATCCTTACTCAAAGTTTACACAATTTATATTATTAATGTAATTTTTAAGGATAT
66 TGATCAATATTATCCTTACTCAAAGTTTACACAATTTAAATTATTAATGTAATTATCAAGGATAT
* ** * * *
17417686 AATATGACATATAAGTTCAATCCCATTGATTAAAAATAATCTTTTCCATCTCGAGAGAATTGAAT
131 AATAGGACATATAAGTTCAATCCCATAAATTAAAAATAATCTTCTCCATCTCGAAAGAATTAAAT
* * *
17417751 CATCCTAAATAAAAAAGACGACTAATCTTTCTTATAATCTCATCTTTTTCTTTAAT
196 CATCCTAAACAAAAAAGACGACTAATCGTACTTATAATCTCATC-TTTTCTTTAAT
*
17417807 TTAAATAATGTTATCTTATCTTATGTTCGATATGTACAAAGATTATGATAGAATAATTTATTTAT
1 TTAAATAATGTTATCATATCTTATGTTCGATATGTACAAAGATTATGATAGAATAATTTATTTAT
* * * * *
17417872 TTATCAATATTATCCTTATTCAAAGTTTATA-AATTTAAATTATTGATGTAATTATCAAGGGTAT
66 TGATCAATATTATCCTTACTCAAAGTTTACACAATTTAAATTATTAATGTAATTATCAAGGATAT
*
17417936 AATAGGACATATAAGTTCAATCCCATAAATTAAAAATAATCTTCTCTATCTTC-AAAGAATTAAA
131 AATAGGACATATAAGTTCAATCCCATAAATTAAAAATAATCTTCTCCATC-TCGAAAGAATTAAA
* * * * *
17418000 TCATCTTATACCAAAAAGATGACTAATCGTACTTATAATCTTATCTTTTCTTTAA
195 TCATCCTAAACAAAAAAGACGACTAATCGTACTTATAATCTCATCTTTTCTTTAA
17418055 ATACAAAACA
Statistics
Matches: 218, Mismatches: 29, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
249 10 0.05
250 119 0.55
251 89 0.41
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.41
Consensus pattern (250 bp):
TTAAATAATGTTATCATATCTTATGTTCGATATGTACAAAGATTATGATAGAATAATTTATTTAT
TGATCAATATTATCCTTACTCAAAGTTTACACAATTTAAATTATTAATGTAATTATCAAGGATAT
AATAGGACATATAAGTTCAATCCCATAAATTAAAAATAATCTTCTCCATCTCGAAAGAATTAAAT
CATCCTAAACAAAAAAGACGACTAATCGTACTTATAATCTCATCTTTTCTTTAAT
Found at i:17421998 original size:41 final size:41
Alignment explanation
Indices: 17421939--17422022 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
17421929 AAATCAAAAT
* *
17421939 TTTAAATGTCTCATCCATCTGGTCTTTAGAAGCATTTCCCC
1 TTTAAATGTCTCAACCATCTGGTCTTCAGAAGCATTTCCCC
*
17421980 TTTAAATGTCTCAACCATCTGGTCTTCAGAAGCATTTTCCC
1 TTTAAATGTCTCAACCATCTGGTCTTCAGAAGCATTTCCCC
17422021 TT
1 TT
17422023 ACATCTAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (41 bp):
TTTAAATGTCTCAACCATCTGGTCTTCAGAAGCATTTCCCC
Found at i:17424067 original size:18 final size:20
Alignment explanation
Indices: 17424036--17424073 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
17424026 ATTCATTAGT
*
17424036 TTTTTAAATTTATT-TTTTA
1 TTTTTAAATATATTATTTTA
17424055 TTTTT-AATATATTATTTTA
1 TTTTTAAATATATTATTTTA
17424074 ATATGACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTAAATATATTATTTTA
Found at i:17424072 original size:13 final size:13
Alignment explanation
Indices: 17424056--17424115 Score: 72
Period size: 12 Copynumber: 4.8 Consensus size: 13
17424046 TATTTTTTAT
17424056 TTTTAATAT-ATTA
1 TTTTAATATGA-TA
*
17424069 TTTTAATATGA-C
1 TTTTAATATGATA
*
17424081 TTTTAATATAATA
1 TTTTAATATGATA
17424094 TTTTAATATGAT-
1 TTTTAATATGATA
17424106 TTTTAATATG
1 TTTTAATATG
17424116 TTTAAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 20 0.49
13 20 0.49
14 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (13 bp):
TTTTAATATGATA
Found at i:17424084 original size:25 final size:25
Alignment explanation
Indices: 17424056--17424114 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
17424046 TATTTTTTAT
*
17424056 TTTTAATATATTATTTTAATATGAC
1 TTTTAATATAATATTTTAATATGAC
*
17424081 TTTTAATATAATATTTTAATATGAT
1 TTTTAATATAATATTTTAATATGAC
17424106 TTTTAATAT
1 TTTTAATAT
17424115 GTTTAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (25 bp):
TTTTAATATAATATTTTAATATGAC
Found at i:17427074 original size:20 final size:20
Alignment explanation
Indices: 17427051--17427088 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17427041 AATCTTGGTA
* *
17427051 AATCTTAATGAATCTTGAAG
1 AATCTCAATCAATCTTGAAG
17427071 AATCTCAATCAATCTTGA
1 AATCTCAATCAATCTTGA
17427089 TAAGTTCTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.34
Consensus pattern (20 bp):
AATCTCAATCAATCTTGAAG
Found at i:17434679 original size:63 final size:62
Alignment explanation
Indices: 17434477--17434666 Score: 200
Period size: 65 Copynumber: 3.0 Consensus size: 62
17434467 AAAAAAAATG
* * * *
17434477 TCATCCTTGTTAAATAAATTTTTTTTACGATTTATCAAACACTACGTTTATAATAGCCAAAACA
1 TCATACTTGTTAAATAAA-ATTTTTTATGATTTATCAAACACTATGTTTATAAT-GCCAAAACA
* * *
17434541 TCATGCTTGTTAAATAAAAATATTTTTATGGTTTGTCAAACACTATGTTTATAATGTCCAAAACA
1 TCATACTTGTTAAAT-AAAAT-TTTTTATGATTTATCAAACACTATGTTTATAATG-CCAAAACA
* * * * * * *
17434606 CCGTATTTGTTATATAAAATTTTTTATGATTTATCAAATATTGTGTTTATAATGCCTAAAA
1 TCATACTTGTTAAATAAAATTTTTTATGATTTATCAAACACTATGTTTATAATGCC-AAAA
17434667 TGTCGTACTT
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
62 2 0.02
63 33 0.31
64 21 0.20
65 50 0.47
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (62 bp):
TCATACTTGTTAAATAAAATTTTTTATGATTTATCAAACACTATGTTTATAATGCCAAAACA
Found at i:17438196 original size:19 final size:17
Alignment explanation
Indices: 17438166--17438218 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
17438156 ATATGTAATA
17438166 AAAAATTAAAATTATTT
1 AAAAATTAAAATTATTT
*
17438183 AAAAATTATTAAATTAATT
1 AAAAATTA--AAATTATTT
*
17438202 AATAATTAAAAATTATT
1 AAAAATT-AAAATTATT
17438219 AAATTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
17 8 0.27
18 7 0.23
19 14 0.47
20 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATTAAAATTATTT
Found at i:17446730 original size:102 final size:102
Alignment explanation
Indices: 17446554--17446759 Score: 358
Period size: 102 Copynumber: 2.0 Consensus size: 102
17446544 CTTAGAGTTT
* *
17446554 TAGGTAGAAGTTATCAAGGAATAGGCAAGAGAGAGTTTGGAAAAGAAAACTTTTTATTAGAGTAA
1 TAGGTAGAAGTTATCAAGGAATAGGCAAAAGAGAGTTTAGAAAAGAAAACTTTTTATTAGAGTAA
* *
17446619 TTAGGATTAATCCTTGTTATTAAATTTGACAAGTATA
66 TTAAGATTAATCCTTGCTATTAAATTTGACAAGTATA
* *
17446656 TAGGTAGAAGTTATCAAGGAATAGGCAAAAGAGGGTTTAGAAAAGAAAATTTTTTATTAGAGTAA
1 TAGGTAGAAGTTATCAAGGAATAGGCAAAAGAGAGTTTAGAAAAGAAAACTTTTTATTAGAGTAA
17446721 TTAAGATTAATCCTTGCTATTAAATTTGACAAGTATA
66 TTAAGATTAATCCTTGCTATTAAATTTGACAAGTATA
17446758 TA
1 TA
17446760 TGTGCCAATT
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 98 1.00
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (102 bp):
TAGGTAGAAGTTATCAAGGAATAGGCAAAAGAGAGTTTAGAAAAGAAAACTTTTTATTAGAGTAA
TTAAGATTAATCCTTGCTATTAAATTTGACAAGTATA
Found at i:17449051 original size:34 final size:34
Alignment explanation
Indices: 17449006--17449085 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 34
17448996 GGATATTCAT
*
17449006 CATTTTCGAAAAGTCATAATACTTGTAAAAAATG
1 CATTTTCGAAAAGTCATAACACTTGTAAAAAATG
* * * *
17449040 CATTTTTGAAAAGTTATAACACTTTTTAAAAATG
1 CATTTTCGAAAAGTCATAACACTTGTAAAAAATG
17449074 CATTTTCGAAAA
1 CATTTTCGAAAA
17449086 TGGAAAAGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.36
Consensus pattern (34 bp):
CATTTTCGAAAAGTCATAACACTTGTAAAAAATG
Found at i:17449814 original size:24 final size:24
Alignment explanation
Indices: 17449787--17449837 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
17449777 ATAGTAACTC
*
17449787 TTTTAATTTTAAAATTTATGATTT
1 TTTTAATTTTAAAATTTATAATTT
17449811 TTTTAATTTTAAAATTTATAATTT
1 TTTTAATTTTAAAATTTATAATTT
17449835 TTT
1 TTT
17449838 AATAATAACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTTAATTTTAAAATTTATAATTT
Found at i:17450726 original size:69 final size:69
Alignment explanation
Indices: 17450628--17450801 Score: 201
Period size: 69 Copynumber: 2.5 Consensus size: 69
17450618 CAATTTGAAG
* * * * * * **
17450628 TTGTAATTTAGGGGTTTTGAATTTT-TTATAATATTTTAAATTAGGTTGTTTGATTTTGTGATTT
1 TTGTATTTTAAGGG-TTTCAATTTTCTTATAACATTTTAAATTAGGTTATTTGATGTTGCAATTT
17450692 AGGGT
65 AGGGT
** * *
17450697 TTGTATTTTAAGGGTTTCAATTTTCTTATAGGATTTTGAATTGGGTTATTTGATGTTGCAATTTA
1 TTGTATTTTAAGGGTTTCAATTTTCTTATAACATTTTAAATTAGGTTATTTGATGTTGCAATTTA
17450762 GGGT
66 GGGT
17450766 TTGTATTTT-A-GGTTTCAAGTTTTCTTATAACATTTT
1 TTGTATTTTAAGGGTTTCAA-TTTTCTTATAACATTTT
17450802 GAGTAGGGTT
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
67 8 0.09
68 25 0.28
69 57 0.63
ACGTcount: A:0.22, C:0.03, G:0.20, T:0.54
Consensus pattern (69 bp):
TTGTATTTTAAGGGTTTCAATTTTCTTATAACATTTTAAATTAGGTTATTTGATGTTGCAATTTA
GGGT
Found at i:17450828 original size:68 final size:69
Alignment explanation
Indices: 17450688--17450848 Score: 173
Period size: 68 Copynumber: 2.3 Consensus size: 69
17450678 TGATTTTGTG
** * * ***
17450688 ATTTAGGGTTTGTATTTTAAGGGTTTCAATTTTCTTATAGGATTTTGAATTGGGTTATTTGATGT
1 ATTTAGGGTTTGTATTTTAAGGGTTTCAATTTTCTTATAACATTTTGAATAGGGTTATTTAACAC
17450753 TGCA
66 TGCA
* *
17450757 ATTTAGGGTTTGTATTTT-A-GGTTTCAAGTTTTCTTATAACATTTTGAGTAGGGTTGTTTAACA
1 ATTTAGGGTTTGTATTTTAAGGGTTTCAA-TTTTCTTATAACATTTTGAATAGGGTTATTTAACA
*
17450820 CTGTA
65 CTGCA
* * *
17450825 ATTTATTGTTTTTTATTTTAAGGG
1 ATTTA-GGGTTTGTATTTTAAGGG
17450849 GGATTTGGTT
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
67 8 0.11
68 36 0.48
69 28 0.37
70 1 0.01
71 2 0.03
ACGTcount: A:0.22, C:0.05, G:0.21, T:0.52
Consensus pattern (69 bp):
ATTTAGGGTTTGTATTTTAAGGGTTTCAATTTTCTTATAACATTTTGAATAGGGTTATTTAACAC
TGCA
Found at i:17452210 original size:16 final size:17
Alignment explanation
Indices: 17452175--17452210 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
17452165 ATAAATTATG
17452175 AACTATAAGCAAATATA
1 AACTATAAGCAAATATA
*
17452192 AACTATAATCAAA-ATA
1 AACTATAAGCAAATATA
17452208 AAC
1 AAC
17452211 AAATAGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.61, C:0.14, G:0.03, T:0.22
Consensus pattern (17 bp):
AACTATAAGCAAATATA
Found at i:17454785 original size:48 final size:48
Alignment explanation
Indices: 17454695--17454786 Score: 112
Period size: 48 Copynumber: 1.9 Consensus size: 48
17454685 GTGAATGACG
* * * * * *
17454695 CCTTTCAAGTTAAGCATTTTTTATATTTTGTATTCTTATGAATTTACA
1 CCTTTCAAGTTAAGCATTCTTGACATTTGGCATTATTATGAATTTACA
* *
17454743 CCTTTCAAGTTAAGCATTCTTGGCATTTGGCATTATTGTGAATT
1 CCTTTCAAGTTAAGCATTCTTGACATTTGGCATTATTATGAATT
17454787 GTGCTATTGG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 36 1.00
ACGTcount: A:0.25, C:0.14, G:0.13, T:0.48
Consensus pattern (48 bp):
CCTTTCAAGTTAAGCATTCTTGACATTTGGCATTATTATGAATTTACA
Found at i:17458365 original size:62 final size:62
Alignment explanation
Indices: 17458181--17458400 Score: 191
Period size: 62 Copynumber: 3.5 Consensus size: 62
17458171 GATAAAAATG
* * * * *
17458181 GAGGAGATTATTGAAGGCATTTTCTGTAAAAAAAGTACCTTCAATAATTTTCTTTAAAAAATTA
1 GAGG-GATTATTGAAAGCATTTTCTGCAAAAAAA-CACCTTCAATAATTTCCTTTAAAAATTTA
* * * * * *
17458245 GAGGGATTATTGAAAGCATTTTTTGTC--AAAAACACCTTTAATGATCTCCTCATCAAAATTTA
1 GAGGGATTATTGAAAGCATTTTCTG-CAAAAAAACACCTTCAATAATTTCCT-TTAAAAATTTA
* * *
17458307 TG-GGGATTATTGAAAACGTTTTCTGCAAAAAAACACCTCCAATAATTTCCTTTAAAAATTT-
1 -GAGGGATTATTGAAAGCATTTTCTGCAAAAAAACACCTTCAATAATTTCCTTTAAAAATTTA
*
17458368 GAAGGAGATTATT-AAAGGCATTTT-TGCCAAAAA
1 G-AGG-GATTATTGAAA-GCATTTTCTGCAAAAAA
17458401 TGTCTTGAAT
Statistics
Matches: 124, Mismatches: 23, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
60 1 0.01
61 14 0.11
62 54 0.44
63 51 0.41
64 4 0.03
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (62 bp):
GAGGGATTATTGAAAGCATTTTCTGCAAAAAAACACCTTCAATAATTTCCTTTAAAAATTTA
Found at i:17458399 original size:63 final size:62
Alignment explanation
Indices: 17458182--17458400 Score: 196
Period size: 63 Copynumber: 3.5 Consensus size: 62
17458172 ATAAAAATGG
* * * * *
17458182 AGGAGATTATTGAAGGCATTTTCTGTAAAAAAAGTACCTTCAATAATTTTCTTTAAAAAATTA
1 AGGAGATTATTGAAAGCATTTTCTGCAAAAAAA-CACCTTCAATAATTTCCTTTAAAAATTTA
* * * * * *
17458245 GAGG-GATTATTGAAAGCATTTTTTGTC--AAAAACACCTTTAATGATCTCCTCATCAAAATTTA
1 -AGGAGATTATTGAAAGCATTTTCTG-CAAAAAAACACCTTCAATAATTTCCT-TTAAAAATTTA
* * * * *
17458307 TGGGGATTATTGAAAACGTTTTCTGCAAAAAAACACCTCCAATAATTTCCTTTAAAAATTTGA
1 AGGAGATTATTGAAAGCATTTTCTGCAAAAAAACACCTTCAATAATTTCCTTTAAAAATTT-A
*
17458370 AGGAGATTATT-AAAGGCATTTT-TGCCAAAAA
1 AGGAGATTATTGAAA-GCATTTTCTGCAAAAAA
17458401 TGTCTTGAAT
Statistics
Matches: 122, Mismatches: 26, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
61 16 0.13
62 50 0.41
63 53 0.43
64 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (62 bp):
AGGAGATTATTGAAAGCATTTTCTGCAAAAAAACACCTTCAATAATTTCCTTTAAAAATTTA
Found at i:17460008 original size:4 final size:4
Alignment explanation
Indices: 17459999--17460070 Score: 53
Period size: 4 Copynumber: 18.0 Consensus size: 4
17459989 TCTATTTACC
17459999 TATT TATT TA-T TATT TATT TATT TATT TACTAT TA-T TA-T TA-T TACTAT
1 TATT TATT TATT TATT TATT TATT TATT TA-T-T TATT TATT TATT TA-T-T
* **
17460047 TATT TTTT TGCT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT
17460071 GATGCAATTG
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
3 12 0.21
4 37 0.65
5 2 0.04
6 6 0.11
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.69
Consensus pattern (4 bp):
TATT
Found at i:17460013 original size:19 final size:19
Alignment explanation
Indices: 17459990--17460032 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
17459980 TTTTTAAATT
17459990 CTATTTACCTATTTATTTA
1 CTATTTACCTATTTATTTA
* **
17460009 TTATTTATTTATTTATTTA
1 CTATTTACCTATTTATTTA
17460028 CTATT
1 CTATT
17460033 ATTATTATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (19 bp):
CTATTTACCTATTTATTTA
Found at i:17460019 original size:15 final size:17
Alignment explanation
Indices: 17459999--17460051 Score: 69
Period size: 15 Copynumber: 3.3 Consensus size: 17
17459989 TCTATTTACC
17459999 TATTTATTTATTA-T-T
1 TATTTATTTATTACTAT
17460014 TATTTATTTATTTACTAT
1 TATTTATTTA-TTACTAT
17460032 TA-TTA-TTATTACTAT
1 TATTTATTTATTACTAT
17460047 TATTT
1 TATTT
17460052 TTTTGCTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
15 19 0.56
16 8 0.24
17 4 0.12
18 3 0.09
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTTATTTATTACTAT
Found at i:17460273 original size:59 final size:59
Alignment explanation
Indices: 17460156--17460669 Score: 597
Period size: 59 Copynumber: 8.6 Consensus size: 59
17460146 AAATATATAT
* * *
17460156 ATTTTTTAGG-AAAGTTGAAAGTATCAATTATCCTTGAAAATAAAATTGTCAAAAAAAAC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTC-AAAAAAAC
* **
17460215 ATTTTTAAGGAATAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATCGTCAAAAAAAC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAC
* * *
17460274 ATTTTTAAAGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATAAAATTTTCAAAAAAAAA
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTC-AAAAAAAC
* * *
17460334 ATTTTTTTAAGGAAAAGTTGAAAGTACCAATCTTCCTTGAAAATAAAATTTTCAGAAAAAGC
1 A--TTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCA-AAAAAAC
* * * ** *
17460396 TTTTTTGAGGAAAAGTTGAAAGTATCAACTTTCCTT-AAAATAAAAACTTC-AAAAACC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAC
**** * ***
17460453 ATTTTTTTTAAAAAGTTGAAAGTATCAATTTTCCTTGAAGAA-AAGGA-TTTCAAAAAGTG
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAA-AATAA-AATTTTCAAAAAAAC
* * *
17460512 ATTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAGAGG
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAA-A-C
* * * *
17460573 ATTTTTAAGGAAATGTTGAAAGTATCAATTTTCTTTGAAAGTAAAATTCTCAAGAAAAAC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAA-AAAAAC
*
17460633 ATTTTTAAAGAAAAGTTGAAAGTATCAATTTTCCTTG
1 ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
17460670 TATAAAGGCA
Statistics
Matches: 390, Mismatches: 51, Indels: 27
0.83 0.11 0.06
Matches are distributed among these distances:
57 36 0.09
58 10 0.03
59 129 0.33
60 110 0.28
61 50 0.13
62 55 0.14
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (59 bp):
ATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAC
Found at i:17460373 original size:121 final size:119
Alignment explanation
Indices: 17460166--17460669 Score: 599
Period size: 121 Copynumber: 4.2 Consensus size: 119
17460156 ATTTTTTAGG
* * *
17460166 AAAGTTGAAAGTATCAATTATCCTTGAAAATAAAATTGTCAAAAAAAACATTTTTAAGGAATAGT
1 AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAACATTTTTAAGGAAAAGT
*
17460231 TGAAAGTATCAATTTTCCTTGAAAATAAAATCGTCAAAAAAACATTTTTAAAGA
66 TGAAAGTATCAATTTTCCTTGAAAATAAAATCTTCAAAAAAACATTTTTAAAGA
* *
17460285 AAAGTTGAAAGTATTAATTTTCCTTGAAAATAAAATTTTCAAAAAAAAAATTTTTTTAAGGAAAA
1 AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAACA--TTTTTAAGGAAAA
* * * * * * *
17460350 GTTGAAAGTACCAATCTTCCTTGAAAATAAAATTTTCAGAAAAAGCTTTTTTGAGGA
64 GTTGAAAGTATCAATTTTCCTTGAAAATAAAATCTTCA-AAAAAACATTTTTAAAGA
* ** * ****
17460407 AAAGTTGAAAGTATCAACTTTCCTT-AAAATAAAAACTTC--AAAAACCATTTTTTTTAAAAAGT
1 AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAACATTTTTAAGGAAAAGT
* *** *
17460469 TGAAAGTATCAATTTTCCTTGAAGAA-AAGGAT-TTCAAAAAGTGATTTTT-GAGAA
66 TGAAAGTATCAATTTTCCTTGAA-AATAA-AATCTTCAAAAAAACATTTTTAAAG-A
** *
17460523 AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAGAGGATTTTTAAGGAAATG
1 AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAA-AACATTTTTAAGGAAAAG
* *
17460588 TTGAAAGTATCAATTTTCTTTGAAAGTAAAAT-TCTCAAGAAAAACATTTTTAAAGA
65 TTGAAAGTATCAATTTTCCTTGAAAATAAAATCT-TCAA-AAAAACATTTTTAAAGA
17460644 AAAGTTGAAAGTATCAATTTTCCTTG
1 AAAGTTGAAAGTATCAATTTTCCTTG
17460670 TATAAAGGCA
Statistics
Matches: 322, Mismatches: 49, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
115 1 0.00
116 34 0.11
117 50 0.16
118 4 0.01
119 60 0.19
120 40 0.12
121 94 0.29
122 39 0.12
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (119 bp):
AAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAACATTTTTAAGGAAAAGT
TGAAAGTATCAATTTTCCTTGAAAATAAAATCTTCAAAAAAACATTTTTAAAGA
Found at i:17460698 original size:238 final size:237
Alignment explanation
Indices: 17460166--17460668 Score: 615
Period size: 238 Copynumber: 2.1 Consensus size: 237
17460156 ATTTTTTAGG
*** * ***
17460166 AAAGTTGAAAGTATCAA-TTATCCTTGAAAATAAAATTGTCAAAAA-AAACATTTTTAAGGAATA
1 AAAGTTGAAAGTATCAACTT-TCCTT-AAAATAAAAACATCAAAAACCATTTTTTTTAA--AA-A
17460229 GTTGAAAGTATCAATTTTCCTTGAAAATAAAATCGTCAAAAAAACATTTTTAAAGAAAAGTTGAA
61 GTTGAAAGTATCAATTTTCCTTGAAAATAAAATCGTCAAAAAAACATTTTTAAAGAAAAGTTGAA
*
17460294 AGTATTAATTTTCCTTGAAAATAAAATTTTCAAAAAAAAAATTTTTTTAAGGAAAAGTTGAAAGT
126 AGTATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAAAAA-TTTTTTAAGGAAAAGTTGAAAGT
* * * *
17460359 ACCAATCTTCCTTGAAAATAAAATTTTCAGAAAAAGCTTTTTTGAGGA
190 ACCAATCTTCCTTGAAAATAAAATTCTCAGAAAAAGCATTTTTAAAGA
*
17460407 AAAGTTGAAAGTATCAACTTTCCTTAAAATAAAAACTTCAAAAACCATTTTTTTTAAAAAGTTGA
1 AAAGTTGAAAGTATCAACTTTCCTTAAAATAAAAACATCAAAAACCATTTTTTTTAAAAAGTTGA
* * *** *
17460472 AAGTATCAATTTTCCTTGAAGAA-AAGGAT-TTCAAAAAGTGATTTTT-GAGAAAAAGTTGAAAG
66 AAGTATCAATTTTCCTTGAA-AATAA-AATCGTCAAAAAAACATTTTTAAAG-AAAAGTTGAAAG
** * *
17460534 TATCAATTTTCCTTGAAAATAAAATTTTCAAAAAAGAGGA-TTTTTAAGGAAATGTTGAAAGTAT
128 TATCAATTTTCCTTGAAAATAAAATTTTCAAAAAA-AAAATTTTTTAAGGAAAAGTTGAAAGTAC
* * *
17460598 CAATTTTCTTTGAAAGTAAAATTCTCAAGAAAAA-CATTTTTAAAGA
192 CAATCTTCCTTGAAAATAAAATTCTC-AGAAAAAGCATTTTTAAAGA
*
17460644 AAAGTTGAAAGTATCAATTTTCCTT
1 AAAGTTGAAAGTATCAACTTTCCTT
17460669 GTATAAAGGC
Statistics
Matches: 229, Mismatches: 26, Indels: 18
0.84 0.10 0.07
Matches are distributed among these distances:
237 79 0.34
238 94 0.41
239 8 0.03
240 16 0.07
241 30 0.13
242 2 0.01
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (237 bp):
AAAGTTGAAAGTATCAACTTTCCTTAAAATAAAAACATCAAAAACCATTTTTTTTAAAAAGTTGA
AAGTATCAATTTTCCTTGAAAATAAAATCGTCAAAAAAACATTTTTAAAGAAAAGTTGAAAGTAT
CAATTTTCCTTGAAAATAAAATTTTCAAAAAAAAAATTTTTTAAGGAAAAGTTGAAAGTACCAAT
CTTCCTTGAAAATAAAATTCTCAGAAAAAGCATTTTTAAAGA
Found at i:17473728 original size:21 final size:21
Alignment explanation
Indices: 17473702--17473778 Score: 70
Period size: 21 Copynumber: 3.7 Consensus size: 21
17473692 AAGAAAACAT
17473702 GATCGATCCCTTCTACTAGGG
1 GATCGATCCCTTCTACTAGGG
** **
17473723 GATCGAT--CTGGTAAGAAGGG
1 GATCGATCCCTTCT-ACTAGGG
*
17473743 GATCGATCCCTTC-CCTTAGGG
1 GATCGATCCCTTCTAC-TAGGG
17473764 GATCGATCCCTTCTA
1 GATCGATCCCTTCTA
17473779 TCAAAACTTG
Statistics
Matches: 41, Mismatches: 10, Indels: 9
0.68 0.17 0.15
Matches are distributed among these distances:
19 3 0.07
20 12 0.29
21 24 0.59
22 2 0.05
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.27
Consensus pattern (21 bp):
GATCGATCCCTTCTACTAGGG
Found at i:17485739 original size:49 final size:48
Alignment explanation
Indices: 17485670--17485798 Score: 170
Period size: 49 Copynumber: 2.7 Consensus size: 48
17485660 CAAAAACAAG
* *
17485670 AAAAAAAA-AGCTTAAATTGAAAACCCATAAAGGGCAATTTGAGTTCAA
1 AAAAAAAAGAGCTCAAATTGAAAACCCATAAAGGGCAATTTAAGTTC-A
*
17485718 AAAAAAAAGAGCTCAAATTGAAAACCCATAAAGGGCGATTTAAGTTCA
1 AAAAAAAAGAGCTCAAATTGAAAACCCATAAAGGGCAATTTAAGTTCA
** * *
17485766 AAAAAAGGGGGCCTCAAATTGGAAACCCATAAA
1 AAAAAAAAGAG-CTCAAATTGAAAACCCATAAA
17485799 AAGTAGCTTA
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
48 17 0.24
49 55 0.76
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (48 bp):
AAAAAAAAGAGCTCAAATTGAAAACCCATAAAGGGCAATTTAAGTTCA
Found at i:17486903 original size:171 final size:172
Alignment explanation
Indices: 17486726--17487041 Score: 395
Period size: 171 Copynumber: 1.8 Consensus size: 172
17486716 TGGATTTTAA
* * * * * *
17486726 CCTATGCCAGATATCTTTTCGGCTTAGTCTAAGTTATTCATTTAATACTTCAGTTTGGT-TCAGG
1 CCTATGCCAAATATCTTTTCAGCTTAATCCAAGTTATTCATTTAAGACTTCAGTTTAGTCT-AGG
* * * * *
17486790 TCCTTTTATTTTTAG-GTTTCGACTTATGTCAATTCTTTTTTTGGCTTAGTCAAAGTTATTCATT
65 TCATTTT-GTTTTAGAATTTCGACTTATGTCAAGTCTTTTTTTGGCTCAGTCAAAGTTATTCATT
17486854 CCAGAC-TTGATTCAATACAAATCGTTTTGTTTTAAAATGTTGG
129 CCAGACTTTGATTCAATACAAATCGTTTTGTTTTAAAATGTTGG
* * * * * *
17486897 CCTATGCCAAATCTTTTTTTAGCTTAATCCAAGTTATTCATTTCAGGCTTCGGTTTAGTCTAGGT
1 CCTATGCCAAATATCTTTTCAGCTTAATCCAAGTTATTCATTTAAGACTTCAGTTTAGTCTAGGT
* ** *
17486962 CATTTTGTTTTCGAATTTCGACTTATGTCAAGTCTTTTTTTGGCTCAGTTGAAGTTATTCATTTC
66 CATTTTGTTTTAGAATTTCGACTTATGTCAAGTCTTTTTTTGGCTCAGTCAAAGTTATTCATTCC
*
17487027 AGACTTTGTTTCAAT
131 AGACTTTGATTCAAT
17487042 TCATGTCATT
Statistics
Matches: 120, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
170 5 0.04
171 105 0.88
172 10 0.08
ACGTcount: A:0.22, C:0.16, G:0.15, T:0.47
Consensus pattern (172 bp):
CCTATGCCAAATATCTTTTCAGCTTAATCCAAGTTATTCATTTAAGACTTCAGTTTAGTCTAGGT
CATTTTGTTTTAGAATTTCGACTTATGTCAAGTCTTTTTTTGGCTCAGTCAAAGTTATTCATTCC
AGACTTTGATTCAATACAAATCGTTTTGTTTTAAAATGTTGG
Found at i:17487001 original size:86 final size:85
Alignment explanation
Indices: 17486806--17487066 Score: 229
Period size: 86 Copynumber: 3.0 Consensus size: 85
17486796 TATTTTTAGG
* *
17486806 TTTCGACTTATGTCAATTCTTTTTTTGGCTTAGTCAAAGTTATTCATTCCAGACTTGATTCAATA
1 TTTCGACTTATGTCAAATCTTTTTTTGGCTTAGTCAAAGTTATTCATTTCAGACTTGATTCAATA
*
17486871 CAAATCGTTTTGTTTTAAAA
66 CAAATCATTTTGTTTTAAAA
* * * * * * * * * *
17486891 TGTT-GGCCTATGCCAAATCTTTTTTTAGCTTAATCCAAGTTATTCATTTCAGGCTTCGGTTTAG
1 T-TTCGACTTATGTCAAATCTTTTTTTGGCTTAGTCAAAGTTATTCATTTCAGACTT-GATTCAA
** **
17486955 T-CTAGGTCATTTTGTTTTCGAA
64 TAC-AAATCATTTTGTTTTAAAA
* * ** *
17486977 TTTCGACTTATGTCAAGTCTTTTTTTGGCTCAGTTGAAGTTATTCATTTCAGACTTTGTTTCAAT
1 TTTCGACTTATGTCAAATCTTTTTTTGGCTTAGTCAAAGTTATTCATTTCAGAC-TTGATTCAAT
* ** * *
17487042 TCATGTCATTTTTTTTTCAAA
65 ACAAATCATTTTGTTTTAAAA
17487063 TTTC
1 TTTC
17487067 AACCTATACT
Statistics
Matches: 137, Mismatches: 33, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
85 47 0.34
86 87 0.64
87 3 0.02
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (85 bp):
TTTCGACTTATGTCAAATCTTTTTTTGGCTTAGTCAAAGTTATTCATTTCAGACTTGATTCAATA
CAAATCATTTTGTTTTAAAA
Found at i:17487091 original size:141 final size:142
Alignment explanation
Indices: 17486945--17487200 Score: 331
Period size: 141 Copynumber: 1.8 Consensus size: 142
17486935 CATTTCAGGC
* * * *
17486945 TTCGGTTTAGTCTAGGTCATTTTGTTTTCGAATTTCGA-CTTATGTCAAG-TCTTTTTTTGGCTC
1 TTCGGTTTAGTCCAGGTCATTTTGTTTTCGAATTT-GAGCCTATG-CAAGATCCTTTTTTAGCTC
* * *
17487008 AGT-TGAAGTTATTCATTTCAGACTTTGTTTCAATTCATGTCATTTT-TTTTTCAAATTTCAACC
64 AGTCT-AAGTTATTCATTTCAGACTTTGATTCAATCCAGGTCATTTTGTTTTTCAAATTTCAACC
17487071 TATACTAGATCCTTT
128 TATACTAGATCCTTT
* * * * *
17487086 TTCGGTTTAGTCCATGTCATTTTGTTTTTGCATTTTAGCCTATGCCAGATCCTTTTTTAGCTCAG
1 TTCGGTTTAGTCCAGGTCATTTTGTTTTCGAATTTGAGCCTATGCAAGATCCTTTTTTAGCTCAG
* *
17487151 TCTAGGTTATTCATTTTAGACTTTGATTCAATCCAGGTCATTTTGTTTTT
66 TCTAAGTTATTCATTTCAGACTTTGATTCAATCCAGGTCATTTTGTTTTT
17487201 GAATTTTAGC
Statistics
Matches: 97, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
140 4 0.04
141 87 0.90
142 6 0.06
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.50
Consensus pattern (142 bp):
TTCGGTTTAGTCCAGGTCATTTTGTTTTCGAATTTGAGCCTATGCAAGATCCTTTTTTAGCTCAG
TCTAAGTTATTCATTTCAGACTTTGATTCAATCCAGGTCATTTTGTTTTTCAAATTTCAACCTAT
ACTAGATCCTTT
Found at i:17487197 original size:86 final size:86
Alignment explanation
Indices: 17487096--17487352 Score: 320
Period size: 86 Copynumber: 3.0 Consensus size: 86
17487086 TTCGGTTTAG
* * * *
17487096 TCCATGTCATTTTGTTTTTGCATTTTAGCCTATGCCAGATCCTTTTTTAGCTCAGTCTAGGTTAT
1 TCCAAGTCATTTTGTTTTTGAATTTTAGCCTATGCCAGATCCTTCTTTAGCTCAGTCTAAGTTAT
*
17487161 TCATTTTAGACTTT-GATTCAA
66 TCATTTCAGACTTTAG-TTCAA
* *
17487182 TCCAGGTCATTTTGTTTTTGAATTTTAGCCTATGTCAGATCCTTCTTTAGCTCAGTCTAAGTTAT
1 TCCAAGTCATTTTGTTTTTGAATTTTAGCCTATGCCAGATCCTTCTTTAGCTCAGTCTAAGTTAT
17487247 TCATTTCAGACTTTAGTTCAA
66 TCATTTCAGACTTTAGTTCAA
* * * * * * * * *
17487268 TCCAAGTCATTTTATCTTTAAATTTT-GACTTATGTCAAATCTTTCTTCAGCTCAGTCCAAGTTA
1 TCCAAGTCATTTTGTTTTTGAATTTTAG-CCTATGCCAGATCCTTCTTTAGCTCAGTCTAAGTTA
* *
17487332 TTCATTTCAAACTATAGTTCA
65 TTCATTTCAGACTTTAGTTCA
17487353 GTCTAGGACA
Statistics
Matches: 152, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
85 1 0.01
86 150 0.99
87 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (86 bp):
TCCAAGTCATTTTGTTTTTGAATTTTAGCCTATGCCAGATCCTTCTTTAGCTCAGTCTAAGTTAT
TCATTTCAGACTTTAGTTCAA
Found at i:17488383 original size:12 final size:11
Alignment explanation
Indices: 17488366--17488441 Score: 52
Period size: 12 Copynumber: 6.7 Consensus size: 11
17488356 TTTTAAATCC
17488366 TATTTATCTATT
1 TATTTAT-TATT
17488378 TATTTATTA-T
1 TATTTATTATT
17488388 TA-TTATTATT
1 TATTTATTATT
17488398 T-TTACTATTA-T
1 TATT--TATTATT
17488409 TATTACTATTATT
1 TATT--TATTATT
* *
17488422 TTTTTGCTTATT
1 TATTT-ATTATT
17488434 TATTTATT
1 TATTTATT
17488442 GAAGCAATTG
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
9 6 0.11
10 6 0.11
11 7 0.13
12 30 0.57
13 4 0.08
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.68
Consensus pattern (11 bp):
TATTTATTATT
Found at i:17488389 original size:3 final size:3
Alignment explanation
Indices: 17488381--17488421 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
17488371 ATCTATTTAT
* * *
17488381 TTA TTA TTA TTA TTA TTT TTA CTA TTA TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
17488422 TTTTTGCTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:17488803 original size:120 final size:116
Alignment explanation
Indices: 17488525--17488867 Score: 385
Period size: 120 Copynumber: 2.9 Consensus size: 116
17488515 AAAAATATAT
* * * * *
17488525 ATTTTTGAG-AAAAGTTGAAAGTTTCAA-CTTTCCAT-AAAATAAAAGCTT-T--AAAAAACTTT
1 ATTTTTAAGAAAAAGTTGAAAGTATCAATC-TTCCTTGAAAATAAAA--TTGTAAAAAAAACATC
* *
17488584 TTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAAAGAAAC
63 TTTAAGGAAAAGTTGAAAGTATCAATTTTT-TTGAAAATAAAA-TTTAAAAGAAAC
17488640 ATTTTTAAGAAAAAGTTGAAAGTATCAATCTTCCTTGAAAATAAAATTGTCAAAAAAAA-ATCTT
1 ATTTTTAAGAAAAAGTTGAAAGTATCAATCTTCCTTGAAAATAAAATTGT-AAAAAAAACATCTT
17488704 TAAGGAAAAGTTGAAAGTATCAATTTGTTTTGAAAATAAAATTTAAAAGAAAAAAC
65 TAAGGAAAAGTTGAAAGTATCAATTT-TTTTGAAAATAAAATTTAAAAG---AAAC
* * * * * *
17488760 ATTTTTTAGGAAAAGTTGAAGGTATCAATTTTCCTTGAAAATAAAATTGTAAAAAAAACGTTTTT
1 ATTTTTAAGAAAAAGTTGAAAGTATCAATCTTCCTTGAAAATAAAATTGTAAAAAAAACATCTTT
* * **
17488825 AAGGAAGAGTTAAAAGTATCAAATTTCCTTGAAAATAAAATTT
66 AAGGAAAAGTTGAAAGTATC-AATTTTTTTGAAAATAAAATTT
17488868 TCAAAAAAGC
Statistics
Matches: 198, Mismatches: 17, Indels: 21
0.84 0.07 0.09
Matches are distributed among these distances:
115 10 0.05
116 23 0.12
117 17 0.09
118 40 0.20
119 16 0.08
120 87 0.44
121 5 0.03
ACGTcount: A:0.47, C:0.07, G:0.12, T:0.34
Consensus pattern (116 bp):
ATTTTTAAGAAAAAGTTGAAAGTATCAATCTTCCTTGAAAATAAAATTGTAAAAAAAACATCTTT
AAGGAAAAGTTGAAAGTATCAATTTTTTTGAAAATAAAATTTAAAAGAAAC
Found at i:17488883 original size:59 final size:59
Alignment explanation
Indices: 17488525--17488883 Score: 388
Period size: 59 Copynumber: 6.1 Consensus size: 59
17488515 AAAAATATAT
* * * * *
17488525 ATTTTTGA-GAAAAGTTGAAAGTTTCAACTTTCCAT-AAAATAAAAGCTTT--AAAAAAC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAAATTTCCTTGAAAATAAAA-TTTTCAAAAAAAC
* * * * *
17488581 TTTTTTAAAGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAATTTTCAAAGAAAC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAAATTTCCTTGAAAATAAAATTTTCAAAAAAAC
* * *
17488640 ATTTTTAAGAAAAAGTTGAAAGTATC-AATCTTCCTTGAAAATAAAATTGTCAAAAAAAA
1 ATTTTTAAGGAAAAGTTGAAAGTATCAAAT-TTCCTTGAAAATAAAATTTTCAAAAAAAC
* ** **
17488699 ATCTTTAAGGAAAAGTTGAAAGTATC-AATTTGTTTTGAAAATAAAATTTAAAAGAAAAAAC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAAATTT-CCTTGAAAATAAAATTT-TCA-AAAAAAC
* * * * *
17488760 ATTTTTTAGGAAAAGTTGAAGGTATCAATTTTCCTTGAAAATAAAATTGTAAAAAAAAC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAAATTTCCTTGAAAATAAAATTTTCAAAAAAAC
* * * *
17488819 GTTTTTAAGGAAGAGTTAAAAGTATCAAATTTCCTTGAAAATAAAATTTTCAAAAAAGC
1 ATTTTTAAGGAAAAGTTGAAAGTATCAAATTTCCTTGAAAATAAAATTTTCAAAAAAAC
17488878 ATTTTT
1 ATTTTT
17488884 GAGATAAAAT
Statistics
Matches: 252, Mismatches: 42, Indels: 15
0.82 0.14 0.05
Matches are distributed among these distances:
56 6 0.02
57 26 0.10
58 13 0.05
59 157 0.62
60 3 0.01
61 43 0.17
62 4 0.02
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.34
Consensus pattern (59 bp):
ATTTTTAAGGAAAAGTTGAAAGTATCAAATTTCCTTGAAAATAAAATTTTCAAAAAAAC
Found at i:17488908 original size:27 final size:28
Alignment explanation
Indices: 17488859--17488913 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
17488849 TTCCTTGAAA
17488859 ATAAAATTTTCAAAAAAGCATTTTTGAG
1 ATAAAATTTTCAAAAAAGCATTTTTGAG
17488887 ATAAAATTTT-AAAAAAGCATTTTTGAG
1 ATAAAATTTTCAAAAAAGCATTTTTGAG
17488914 GAAAAGTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 17 0.63
28 10 0.37
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.36
Consensus pattern (28 bp):
ATAAAATTTTCAAAAAAGCATTTTTGAG
Done.