Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 278 of 344
Found at i:93308216 original size:37 final size:37
Alignment explanation
Indices: 93308164--93308237 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
93308154 AAAAATCAAG
*
93308164 TAAAAAATTGTGTCCATCTTCCTCCTAGTGTACCGAA
1 TAAAAAATTGAGTCCATCTTCCTCCTAGTGTACCGAA
*
93308201 TAAAAAATTGAGTCCATCTTCCTCCTAGTGTGCCGAA
1 TAAAAAATTGAGTCCATCTTCCTCCTAGTGTACCGAA
93308238 ATTTGCAAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (37 bp):
TAAAAAATTGAGTCCATCTTCCTCCTAGTGTACCGAA
Found at i:93310671 original size:31 final size:31
Alignment explanation
Indices: 93310630--93310695 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
93310620 CACTCAGGCG
*
93310630 TGTGTGACCACACGGCCTACCCACACGGGCA
1 TGTGTAACCACACGGCCTACCCACACGGGCA
*
93310661 TGTGTAACCACACGGCGTACCCACACGGGCA
1 TGTGTAACCACACGGCCTACCCACACGGGCA
93310692 TGTG
1 TGTG
93310696 ACTCTCGAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.23, C:0.35, G:0.27, T:0.15
Consensus pattern (31 bp):
TGTGTAACCACACGGCCTACCCACACGGGCA
Found at i:93315708 original size:12 final size:14
Alignment explanation
Indices: 93315693--93315724 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
93315683 GTGAGAACAC
93315693 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
93315705 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
93315719 ATGTGT
1 ATGTGT
93315725 TTAAAATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:93315886 original size:51 final size:51
Alignment explanation
Indices: 93315690--93315927 Score: 199
Period size: 51 Copynumber: 4.7 Consensus size: 51
93315680 ATTGTGAGAA
* * * *** * **
93315690 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAAATGATTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGAT-AGCTTAGGT
* * * * *
93315742 CACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAGATTG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATAGCTTAGGT
* * ** * * *
93315792 CGCATGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATAGCTTAGGT
* ** *
93315843 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATAGCTTAGGT
* * * *
93315894 CACAAGTGTAGTACTATGTGAAGGCCACTTTGTG
1 CACATGTGTAGTACTAAGTGCAGGCCACTATGTG
93315928 AAGAAGGTAG
Statistics
Matches: 149, Mismatches: 36, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
50 42 0.28
51 74 0.50
52 33 0.22
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCCACTATGTGTACCAGATAGCTTAGGT
Found at i:93317870 original size:21 final size:21
Alignment explanation
Indices: 93317846--93317895 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
93317836 ACATGGGGTT
93317846 GAAGAGGCTACGTGGGAGCCC
1 GAAGAGGCTACGTGGGAGCCC
93317867 GAAGAGGCTACGTGGGAGCCC
1 GAAGAGGCTACGTGGGAGCCC
*
93317888 GAGGAGGC
1 GAAGAGGC
93317896 CACGAGAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.46, T:0.08
Consensus pattern (21 bp):
GAAGAGGCTACGTGGGAGCCC
Found at i:93322127 original size:55 final size:55
Alignment explanation
Indices: 93321930--93322128 Score: 204
Period size: 55 Copynumber: 3.6 Consensus size: 55
93321920 GTTCTGGAAA
* * * *
93321930 ACTTTCCTTATATTACATAGTCGTCATGAACTTTCACAAAAGATAGTCTTGGTGG
1 ACTTTCCATATATTAGATAGTCCTCATGAACTTCCACAAAAGATAGTCTTGGTGG
* * * * * *
93321985 ACTTTCCACATATTAGATAGTCCTTAAGAACTTCCACAAAAGATACTCCTGGTAG
1 ACTTTCCATATATTAGATAGTCCTCATGAACTTCCACAAAAGATAGTCTTGGTGG
* * * * * * * *
93322040 ATTTTTCATATTTTCA-ACAGTCCTTACGGACTTCCAGAAAAGATAGTCTTGGTGG
1 ACTTTCCATATATT-AGATAGTCCTCATGAACTTCCACAAAAGATAGTCTTGGTGG
93322095 ACTTTCCATATATTAGATAGTCCTCACTG-ACTTC
1 ACTTTCCATATATTAGATAGTCCTCA-TGAACTTC
93322129 TATATATACA
Statistics
Matches: 114, Mismatches: 27, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
54 1 0.01
55 111 0.97
56 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.35
Consensus pattern (55 bp):
ACTTTCCATATATTAGATAGTCCTCATGAACTTCCACAAAAGATAGTCTTGGTGG
Found at i:93335839 original size:55 final size:55
Alignment explanation
Indices: 93335721--93335843 Score: 129
Period size: 55 Copynumber: 2.2 Consensus size: 55
93335711 GGATGTCTAA
* * * * *
93335721 TTTATAAGTTAGTATAGGACACGGGTAGGCCACATGGGCGTCTACCATAGCCATG
1 TTTAAAAGTCAGTATAGAACACGGGTACGCCACAAGGGCGTCTACCATAGCCATG
*** * * * * *
93335776 TCCCAAAGTCAGTATTGAACACGGGTACTCCACAAGGGCGTGTGCCATGGCCATG
1 TTTAAAAGTCAGTATAGAACACGGGTACGCCACAAGGGCGTCTACCATAGCCATG
93335831 TTTAAAAGTCAGT
1 TTTAAAAGTCAGT
93335844 GTTGCCTACG
Statistics
Matches: 52, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (55 bp):
TTTAAAAGTCAGTATAGAACACGGGTACGCCACAAGGGCGTCTACCATAGCCATG
Found at i:93340056 original size:50 final size:49
Alignment explanation
Indices: 93339938--93340113 Score: 203
Period size: 50 Copynumber: 3.5 Consensus size: 49
93339928 CTGGTACGCA
* **
93339938 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
93339987 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
* *** * *
93340037 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCTAATACACG
93340088 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
93340114 TGCGACCTCA
Statistics
Matches: 110, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
49 30 0.27
50 41 0.37
51 36 0.33
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:93340111 original size:101 final size:99
Alignment explanation
Indices: 93339938--93340124 Score: 277
Period size: 101 Copynumber: 1.9 Consensus size: 99
93339928 CTGGTACGCA
* * *
93339938 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACAGTCTGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
*
93340003 GTACTACACACGTGACCTCACCATCTAATACACG
66 GTACTACACACGCGACCTCACCATCTAATACACG
* *
93340037 TAGTAGCCTGCACTTAGTACTACACACGTGATC-ACAGTTTTCGGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAG---TCGGGTACACATAGTAGCCTGCAC
*
93340101 TTAGTACTACACATGCGACCTCAC
63 TTAGTACTACACACGCGACCTCAC
93340125 AATAGATCAT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 4 0.05
99 31 0.40
101 43 0.55
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCGGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTCACCATCTAATACACG
Found at i:93344325 original size:27 final size:27
Alignment explanation
Indices: 93344287--93344342 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
93344277 CTCATGCATT
93344287 AGATATTCCCGTAGCATTATTTTCATA
1 AGATATTCCCGTAGCATTATTTTCATA
93344314 AGATATTCCCGTAGCATTATTTTCATA
1 AGATATTCCCGTAGCATTATTTTCATA
93344341 AG
1 AG
93344343 TCTTATTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.39
Consensus pattern (27 bp):
AGATATTCCCGTAGCATTATTTTCATA
Found at i:93349769 original size:43 final size:42
Alignment explanation
Indices: 93349676--93349826 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 42
93349666 GATTATCGAG
* * *
93349676 ATGTGATTACATGTAAGACCATGTGTGGGATATTGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
**
93349718 ATTGTGATTACGGGTAAGACCATGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * * * * *
93349762 ATATGATTTCGTATAAGATCC-TGTTTGGGACAATGGCATCGAT
1 ATGTGATTACATGTAAGA-CCATGTCTGGGACATTGGCATCG-T
*
93349805 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
93349827 ATCTAGGATA
Statistics
Matches: 88, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 3 0.03
43 81 0.92
44 4 0.05
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:93351602 original size:31 final size:31
Alignment explanation
Indices: 93351559--93351622 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
93351549 CCTTTTCATA
*
93351559 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCAAAGCCT
* **
93351590 TTTCATATTTCATATTACTGGGCCAAAGCCT
1 TTTCATAATTCATAACACTGGGCCAAAGCCT
93351621 TT
1 TT
93351623 ACGGTAAGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCAAAGCCT
Found at i:93351919 original size:24 final size:24
Alignment explanation
Indices: 93351834--93351958 Score: 191
Period size: 24 Copynumber: 5.2 Consensus size: 24
93351824 GGCCTAGTCT
93351834 CTTTTAATAACTGGGGCA-AAGCC
1 CTTTTAATAACTGGGGCATAAGCC
93351857 CTTTTTTAATAACTGGGGCATAAGCC
1 C--TTTTAATAACTGGGGCATAAGCC
*
93351883 C-TTTAATAGCTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
93351906 CTTTTAATAACTGGGGAATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
93351930 CTTTTAATAACTAGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
93351954 CTTTT
1 CTTTT
93351959 GCACTTCCTC
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
23 23 0.25
24 47 0.51
25 17 0.18
26 6 0.06
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:93352035 original size:20 final size:20
Alignment explanation
Indices: 93352012--93352054 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
93352002 GAACATCTCG
93352012 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
93352032 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
93352052 TGT
1 TGT
93352055 TTATCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:93352119 original size:25 final size:25
Alignment explanation
Indices: 93352091--93352138 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
93352081 ATATATAAAC
* *
93352091 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
93352116 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
93352139 CATATTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:93355075 original size:108 final size:108
Alignment explanation
Indices: 93354922--93355158 Score: 420
Period size: 108 Copynumber: 2.2 Consensus size: 108
93354912 TAGTCAGACA
** * * *
93354922 GGCGTGTGGTTGGCCGTGTGACCTAAGTTAGGGAGTTAAATGGGTAGGACTCGGGCTGGGACATG
1 GGCGTGTCTTTGGCAGTGTGACCTAAGTTAGGGAGTTAAACGGGTAGGACTCGAGCTGGGACATG
93354987 GCCATGTGATCGCATTTCGAATGTCCACACGGCCTGTGACACG
66 GCCATGTGATCGCATTTCGAATGTCCACACGGCCTGTGACACG
93355030 GGCGTGTCTTTGGCAGTGTGACCTAAGTTAGGGAGTTAAACGGGTAGGACTCGAGCTGGGACATG
1 GGCGTGTCTTTGGCAGTGTGACCTAAGTTAGGGAGTTAAACGGGTAGGACTCGAGCTGGGACATG
*
93355095 GCCATGTGATCGCATTTCGAATGTCTACACGGCCTGTGACACG
66 GCCATGTGATCGCATTTCGAATGTCCACACGGCCTGTGACACG
93355138 GGCGTGTCTTTGGCAGTGTGA
1 GGCGTGTCTTTGGCAGTGTGA
93355159 GACACACGGC
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 123 1.00
ACGTcount: A:0.19, C:0.20, G:0.35, T:0.25
Consensus pattern (108 bp):
GGCGTGTCTTTGGCAGTGTGACCTAAGTTAGGGAGTTAAACGGGTAGGACTCGAGCTGGGACATG
GCCATGTGATCGCATTTCGAATGTCCACACGGCCTGTGACACG
Found at i:93361480 original size:27 final size:26
Alignment explanation
Indices: 93361398--93361486 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 26
93361388 TGCAAATCGC
*
93361398 ATTTACCAGTGGCTATGTGCCTATCAT
1 ATTTACCA-TGGCTATGTGCCGATCAT
* * * *
93361425 ATTTATCGATGACTCTGTAG-TGATCAT
1 ATTTA-CCATGGCTATGT-GCCGATCAT
*
93361452 ATTTACCCATGGCTATGTGCCGATTAT
1 ATTTA-CCATGGCTATGTGCCGATCAT
93361479 A-TTACCAT
1 ATTTACCAT
93361487 CGCTGATGGC
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
25 4 0.08
26 4 0.08
27 37 0.77
28 3 0.06
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (26 bp):
ATTTACCATGGCTATGTGCCGATCAT
Found at i:93375335 original size:57 final size:58
Alignment explanation
Indices: 93375200--93375338 Score: 146
Period size: 57 Copynumber: 2.4 Consensus size: 58
93375190 TTATAGAAAG
* * *
93375200 GATTTATCTTAGACTAGTAATCCTGATATAAGTCCTCTTGAGCATATGTTATGGATAA
1 GATTTATCTTGGACAAGTAATCCTGATATAAGTCCTCTTGAGCATATGTTATGGACAA
**
93375258 GATTTAT-TTGGGACGGGTAATCCTGAT-TAAG--CTCTTGTGAGCATATG-T-TGGAAACAA
1 GATTTATCTT-GGACAAGTAATCCTGATATAAGTCCTC-T-TGAGCATATGTTATGG--ACAA
93375315 GATTTATCTTGGACAAGTAATCCT
1 GATTTATCTTGGACAAGTAATCCT
93375339 TTTATGTGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
55 6 0.09
56 2 0.03
57 38 0.55
58 23 0.33
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (58 bp):
GATTTATCTTGGACAAGTAATCCTGATATAAGTCCTCTTGAGCATATGTTATGGACAA
Found at i:93380201 original size:21 final size:20
Alignment explanation
Indices: 93380177--93380215 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
93380167 TAGAATATGT
93380177 GTACAAAAGAATTCTGAATTA
1 GTACAAAAG-ATTCTGAATTA
* *
93380198 GTACAGAAGATTTTGAAT
1 GTACAAAAGATTCTGAAT
93380216 GAAGCTCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.31
Consensus pattern (20 bp):
GTACAAAAGATTCTGAATTA
Found at i:93392545 original size:13 final size:13
Alignment explanation
Indices: 93392527--93392552 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
93392517 ATATTATAAT
93392527 TATTTTATGTTAA
1 TATTTTATGTTAA
93392540 TATTTTATGTTAA
1 TATTTTATGTTAA
93392553 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:93394926 original size:25 final size:25
Alignment explanation
Indices: 93394898--93394975 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 25
93394888 GAATGGCAAA
93394898 TGTGATGAATGTGAACATGCATTTG
1 TGTGATGAATGTGAACATGCATTTG
* * * **
93394923 TGTGCT-AAGGCCG-A-ATGGCAAATG
1 TGTGATGAATG-TGAACAT-GCATTTG
93394947 T--GATGAATGTGAACATGCATTTG
1 TGTGATGAATGTGAACATGCATTTG
93394970 TGTGAT
1 TGTGAT
93394976 AAGGCTGAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 14
0.60 0.17 0.23
Matches are distributed among these distances:
22 3 0.08
23 12 0.33
24 12 0.33
25 9 0.25
ACGTcount: A:0.28, C:0.10, G:0.29, T:0.32
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATTTG
Found at i:93395232 original size:22 final size:22
Alignment explanation
Indices: 93395111--93395232 Score: 67
Period size: 22 Copynumber: 5.3 Consensus size: 22
93395101 CATGCATATG
*
93395111 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
93395133 TGTGATGAATGTG-A-ACAT-GCACATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
*
93395158 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
93395180 TGTGATAAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
93395205 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
93395227 TGTGAT
1 TGTGAT
93395233 GAACGTGGAA
Statistics
Matches: 77, Mismatches: 5, Indels: 36
0.65 0.04 0.31
Matches are distributed among these distances:
22 22 0.29
23 20 0.26
24 19 0.25
25 16 0.21
ACGTcount: A:0.34, C:0.13, G:0.28, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:93395269 original size:47 final size:47
Alignment explanation
Indices: 93394850--93395235 Score: 592
Period size: 47 Copynumber: 8.2 Consensus size: 47
93394840 TTAGGATTTT
** * * * *
93394850 ATGTGATGAATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
93394897 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
93394944 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
93394991 ATGTGATGAATGTGAACATGTACATATGTGATAAGGCCGAATGACCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
93395038 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
93395085 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
93395132 ATGTGATGAATGTGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
93395179 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
93395226 ATGTGATGAA
1 ATGTGATGAA
93395236 CGTGGAAGTG
Statistics
Matches: 314, Mismatches: 25, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 314 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:93395302 original size:46 final size:46
Alignment explanation
Indices: 93395249--93395339 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
93395239 GGAAGTGTAT
* * *
93395249 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
93395295 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
93395340 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:93397632 original size:23 final size:24
Alignment explanation
Indices: 93397606--93397650 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
93397596 TCATCCCTAC
*
93397606 ATGGAGTGTAG-GGTTGGATGGAG
1 ATGGAGTGTAGAGGCTGGATGGAG
*
93397629 ATGGTGTGTAGAGGCTGGATGG
1 ATGGAGTGTAGAGGCTGGATGG
93397651 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.20, C:0.02, G:0.51, T:0.27
Consensus pattern (24 bp):
ATGGAGTGTAGAGGCTGGATGGAG
Found at i:93402209 original size:40 final size:40
Alignment explanation
Indices: 93402165--93402388 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
93402155 GCTCCTCGTT
* *
93402165 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
93402205 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
93402245 CAAATGCCTTC-GGCCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
93402284 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * *
93402323 CAAATGCCTTC-GGATCTTGGTCC-GAATATTGTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAAT-TAGT-ATC-TCGCA
93402364 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
93402389 CATCATTCAA
Statistics
Matches: 161, Mismatches: 13, Indels: 19
0.83 0.07 0.10
Matches are distributed among these distances:
38 2 0.01
39 76 0.47
40 67 0.42
41 16 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:93402266 original size:79 final size:78
Alignment explanation
Indices: 93402165--93402388 Score: 256
Period size: 79 Copynumber: 2.8 Consensus size: 78
93402155 GCTCCTCGTT
* *
93402165 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
93402230 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
93402245 CAAATGCCTTCGGCCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGACTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
93402308 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * * *
93402323 CAAATGCCTTCGGATCTTGGTCCGAATATTGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAGCCCG-GTATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
93402387 GA
63 GA
93402389 CATCATTCAA
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
78 38 0.31
79 53 0.43
80 31 0.25
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGACTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:93418419 original size:24 final size:25
Alignment explanation
Indices: 93418385--93418435 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
93418375 CTCCAAAACA
93418385 CACCAAATGCTCACAAAAGCTAGTC
1 CACCAAATGCTCACAAAAGCTAGTC
* *
93418410 CACC-AATGCTCATAAGAGCTAGTC
1 CACCAAATGCTCACAAAAGCTAGTC
93418434 CA
1 CA
93418436 ACTGAAACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.37, C:0.31, G:0.14, T:0.18
Consensus pattern (25 bp):
CACCAAATGCTCACAAAAGCTAGTC
Found at i:93418851 original size:33 final size:33
Alignment explanation
Indices: 93418809--93418875 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
93418799 CGGGATCTTG
93418809 ATCTAAAATGTAAAAGTTCTCAATTATCAGCTT
1 ATCTAAAATGTAAAAGTTCTCAATTATCAGCTT
* *
93418842 ATCTAAAATGTAACATTTCTCAATTATCAGCTT
1 ATCTAAAATGTAAAAGTTCTCAATTATCAGCTT
93418875 A
1 A
93418876 CATTTCACAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.37
Consensus pattern (33 bp):
ATCTAAAATGTAAAAGTTCTCAATTATCAGCTT
Found at i:93419721 original size:18 final size:18
Alignment explanation
Indices: 93419695--93419729 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93419685 TCAACCCAAA
*
93419695 AAATATTTTTTATTTTTT
1 AAATATTTTATATTTTTT
*
93419713 AAATTTTTTATATTTTT
1 AAATATTTTATATTTTT
93419730 CTATTTTTCC
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
AAATATTTTATATTTTTT
Found at i:93420968 original size:27 final size:26
Alignment explanation
Indices: 93420899--93420984 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
93420889 AGTGTGGCAG
*
93420899 CCAGAATAGATATTGT-GACAGAGTCA
1 CCAGAATAGATATTGTGGA-AGAGCCA
* *
93420925 CCAGATTCAGATATTGTGGTAGAGCCA
1 CCAGAAT-AGATATTGTGGAAGAGCCA
* *
93420952 CCAGAATAGATACTTGTAGAATAGCCA
1 CCAGAATAGATA-TTGTGGAAGAGCCA
93420979 CCAGAA
1 CCAGAA
93420985 CTCTTCCTCC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 11 0.22
27 38 0.76
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (26 bp):
CCAGAATAGATATTGTGGAAGAGCCA
Found at i:93434234 original size:27 final size:27
Alignment explanation
Indices: 93434204--93434257 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
93434194 ATATTTAATT
93434204 ATTA-TAAAATAATTAAATTTTACTTAA
1 ATTATTAAAAT-ATTAAATTTTACTTAA
* * *
93434231 ATTATTAACATGTTTAATTTTACTTAA
1 ATTATTAAAATATTAAATTTTACTTAA
93434258 TTTTATAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (27 bp):
ATTATTAAAATATTAAATTTTACTTAA
Found at i:93444522 original size:27 final size:27
Alignment explanation
Indices: 93444492--93444670 Score: 268
Period size: 27 Copynumber: 6.6 Consensus size: 27
93444482 ATATTAAGTC
* *
93444492 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
93444519 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
93444547 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
93444574 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
93444601 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
93444628 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
93444656 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
93444671 GTACAATTTA
Statistics
Matches: 142, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
27 97 0.68
28 45 0.32
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:93444659 original size:82 final size:82
Alignment explanation
Indices: 93444492--93444669 Score: 268
Period size: 82 Copynumber: 2.2 Consensus size: 82
93444482 ATATTAAGTC
* * * *
93444492 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCAACATAGTCAACTCGCACACTTAGTGCAACATAATCAAACTCGCACACTTA
*
93444557 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAACT
* * *
93444574 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCAACATAGTC-AATTCGCACACTTA
1 CGCACACTTAGTGCAACATAGTCAACTCGCACACTTAGTGCAACATAATCAAACTCGCACACTTA
93444638 GTGCTACATAGTCCAACT
66 GTGCTACATAGT-CAACT
93444656 CGCACACTTAGTGC
1 CGCACACTTAGTGC
93444670 TGTACAATTT
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 25 0.29
82 62 0.71
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.26
Consensus pattern (82 bp):
CGCACACTTAGTGCAACATAGTCAACTCGCACACTTAGTGCAACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:93445201 original size:21 final size:21
Alignment explanation
Indices: 93445169--93445211 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
93445159 TTGGTCATCA
*
93445169 TTTTGTCATTCA-ACACATTT
1 TTTTGTCATTCATAAACATTT
*
93445189 TTTTTTCACTTCATAAACATTT
1 TTTTGTCA-TTCATAAACATTT
93445211 T
1 T
93445212 GACCGTATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 4 0.21
22 8 0.42
ACGTcount: A:0.26, C:0.19, G:0.02, T:0.53
Consensus pattern (21 bp):
TTTTGTCATTCATAAACATTT
Found at i:93452670 original size:27 final size:27
Alignment explanation
Indices: 93452640--93452791 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
93452630 ATATTAAGTC
* *
93452640 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
93452667 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
93452695 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
93452722 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
93452749 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
93452777 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
93452792 GTACAATTTA
Statistics
Matches: 115, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
27 70 0.61
28 45 0.39
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:93452708 original size:55 final size:54
Alignment explanation
Indices: 93452640--93452791 Score: 232
Period size: 55 Copynumber: 2.8 Consensus size: 54
93452630 ATATTAAGTC
* *
93452640 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATC-AACT
* * * *
93452695 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
93452749 CGCACACTTAGTGCTACATAGTCCAACTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGT-CAACTCGCACACTTAGTGCT
93452792 GTACAATTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 25 0.28
55 63 0.72
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAACT
Found at i:93452777 original size:82 final size:82
Alignment explanation
Indices: 93452640--93452791 Score: 250
Period size: 82 Copynumber: 1.9 Consensus size: 82
93452630 ATATTAAGTC
* *
93452640 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
93452705 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAATT
* * * *
93452722 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCTACATAGTCCAACTCGCACACTTA
1 CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
93452787 GTGCT
66 GTGCT
93452792 GTACAATTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.26
Consensus pattern (82 bp):
CGCACACTCAGTGCAACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAATT
Found at i:93454952 original size:28 final size:27
Alignment explanation
Indices: 93454907--93454959 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
93454897 CTCATTTGAG
*
93454907 TTTATAAATTCTCTTTGAGTTTTCTTTT
1 TTTAAAAATTCTCTTTGA-TTTTCTTTT
93454935 TTTAAAAATT-TCTCTTGATTTTCTT
1 TTTAAAAATTCTCT-TTGATTTTCTT
93454960 GTAGAAGAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.21, C:0.11, G:0.06, T:0.62
Consensus pattern (27 bp):
TTTAAAAATTCTCTTTGATTTTCTTTT
Found at i:93459480 original size:30 final size:30
Alignment explanation
Indices: 93459444--93459501 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
93459434 TAGCCGAAGA
93459444 TAATTTAAATAGCACACTTAGTGCCAAAGC
1 TAATTTAAATAGCACACTTAGTGCCAAAGC
*
93459474 TAATTTAAATCGCACACTTAGTGCCAAA
1 TAATTTAAATAGCACACTTAGTGCCAAA
93459502 ACTTCCGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.28
Consensus pattern (30 bp):
TAATTTAAATAGCACACTTAGTGCCAAAGC
Found at i:93462000 original size:46 final size:47
Alignment explanation
Indices: 93461942--93462117 Score: 182
Period size: 47 Copynumber: 3.7 Consensus size: 47
93461932 ATGGATGTGT
* *
93461942 GCTAATGTAAGACATGTCTGGGACAT-GCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACAATATGAGA
* * *
93461988 GCTAGTGTAAGACCATGT-TGGGACATGGCATCGG-CATTAAGACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCA-CAATATGAGA
* * *
93462035 GCTAGTATAAGACATGTTTGGGACAT-GCATCGGCCTCGAGATATGCA-A
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-A-ATATG-AGA
* *
93462083 GCTAGTGTAAGACTTGTCTGAGACATGGCATCGGC
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGC
93462118 TTGACATGTG
Statistics
Matches: 107, Mismatches: 14, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
46 33 0.31
47 39 0.36
48 26 0.24
49 9 0.08
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACAATATGAGA
Found at i:93465976 original size:61 final size:63
Alignment explanation
Indices: 93465834--93465976 Score: 138
Period size: 60 Copynumber: 2.3 Consensus size: 63
93465824 TCAAGCTTTA
*
93465834 CTGGGCC-TAAGCCCTATT-CAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAAT
1 CTGGGCCAT-AGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
* * * * *
93465896 TTGGGCCATAGTCCC--TTACAG-TATCAGAG-TACACTGGGCC-TAGCCCATGTTAGTATCAAT
1 CTGGGCCATAG-CCCTATTACAGAAATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAAT
* *
93465956 CTGGGTCGTAGCCCTATTACA
1 CTGGGCCATAGCCCTATTACA
93465977 AGTCGAGATA
Statistics
Matches: 66, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
59 3 0.05
60 26 0.39
61 22 0.33
62 11 0.17
63 4 0.06
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (63 bp):
CTGGGCCATAGCCCTATTACAGAAATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAAT
Found at i:93485206 original size:27 final size:27
Alignment explanation
Indices: 93485173--93485260 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
93485163 CAAAACAGTC
93485173 ATTTTACCCTACAGGGGTATTTCGATA
1 ATTTTACCCTACAGGGGTATTTCGATA
* * *
93485200 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACCCTACAGGGGTATTTCGATA
** *
93485227 ATTTTA-CAAATTAGGGGTATTTCGATA
1 ATTTTACCCTA-CAGGGGTATTTCGATA
93485254 ATTTTAC
1 ATTTTAC
93485261 AAACCGAGGT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
26 1 0.02
27 49 0.98
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTACAGGGGTATTTCGATA
Found at i:93485243 original size:54 final size:53
Alignment explanation
Indices: 93485185--93485589 Score: 345
Period size: 54 Copynumber: 7.5 Consensus size: 53
93485175 TTTACCCTAC
* *
93485185 AGGGGTATTTCGATAATTTTACACTACAAGGGTATTTCGGTAATTTTACAAATT
1 AGGGGTATTTCGATAATTTTACA-AACAAGGGTATTTCAGTAATTTTACAAATT
* * * *
93485239 AGGGGTATTTCGATAATTTTACAAAC-CGAGGTATTTTAGTAAATTTATAAATT
1 AGGGGTATTTCGATAATTTTACAAACAAG-GGTATTTCAGTAATTTTACAAATT
* * * *
93485292 GGGGGTATTTCGGTAATTTTACACTACAAGGGTATTTCAGTAATTTTACAAACT
1 AGGGGTATTTCGATAATTTTACA-AACAAGGGTATTTCAGTAATTTTACAAATT
* * * ** * *
93485346 -GAGTGTATTTTGGTAATTTTACAAATCGGGGGTATTTTAGTAATTTTACAAATC
1 AG-GGGTATTTCGATAATTTTACAAA-CAAGGGTATTTCAGTAATTTTACAAATT
* * * ** **
93485400 GGGGGTATTTCAATAATTTTAAAAATTGAGGGTATTTTGGTAATTTTACAAATT
1 AGGGGTATTTCGATAATTTTACAAA-CAAGGGTATTTCAGTAATTTTACAAATT
* * * *
93485454 -GGGGTATTTCGGTAATTTTACAAAC-TGGAGTATTTCAGTAATTTTACACTATA
1 AGGGGTATTTCGATAATTTTACAAACAAGG-GTATTTCAGTAATTTTACA-AATT
* * *
93485507 AGGGTAAGGTATTTCGATACTTTTACAAATCAGGGGTATTTC-GATAATTTTACAAACT
1 A-GG---GGTATTTCGATAATTTTACAAA-CAAGGGTATTTCAG-TAATTTTACAAATT
*
93485565 GGGGGTATTTCTG-TAATTTTACAAA
1 AGGGGTATTTC-GATAATTTTACAAA
93485590 TGAAGGTCTT
Statistics
Matches: 286, Mismatches: 48, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
51 2 0.01
52 18 0.06
53 68 0.24
54 149 0.52
55 5 0.02
57 2 0.01
58 22 0.08
59 18 0.06
60 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (53 bp):
AGGGGTATTTCGATAATTTTACAAACAAGGGTATTTCAGTAATTTTACAAATT
Found at i:93485261 original size:27 final size:27
Alignment explanation
Indices: 93485185--93485590 Score: 269
Period size: 27 Copynumber: 15.0 Consensus size: 27
93485175 TTTACCCTAC
* *
93485185 AGGGGTATTTCGATAATTTTAC-ACTAC
1 AGGGGTATTTCGATAATTTTACAAAT-T
* *
93485212 AAGGGTATTTCGGTAATTTTACAAATT
1 AGGGGTATTTCGATAATTTTACAAATT
*
93485239 AGGGGTATTTCGATAATTTTACAAA-C
1 AGGGGTATTTCGATAATTTTACAAATT
* * * * *
93485265 CGAGGTATTT-TAGTAAATTTATAAATT
1 AGGGGTATTTCGA-TAATTTTACAAATT
* * * *
93485292 GGGGGTATTTCGGTAATTTTAC-ACTAC
1 AGGGGTATTTCGATAATTTTACAAAT-T
* *
93485319 AAGGGTATTTC-AGTAATTTTACAAACT
1 AGGGGTATTTCGA-TAATTTTACAAATT
* * * *
93485346 -GAGTGTATTTTGGTAATTTTACAAATC
1 AG-GGGTATTTCGATAATTTTACAAATT
* * *
93485373 GGGGGTATTT-TAGTAATTTTACAAATC
1 AGGGGTATTTCGA-TAATTTTACAAATT
* * *
93485400 GGGGGTATTTCAATAATTTTAAAAATT
1 AGGGGTATTTCGATAATTTTACAAATT
* *
93485427 -GAGGGTATTTTGGTAATTTTACAAATT
1 AG-GGGTATTTCGATAATTTTACAAATT
* *
93485454 -GGGGTATTTCGGTAATTTTACAAACT
1 AGGGGTATTTCGATAATTTTACAAATT
* * *
93485480 -GGAGTATTTC-AGTAATTTTACACTATA
1 AGGGGTATTTCGA-TAATTTTACA-AATT
* *
93485507 AGGGTAAGGTATTTCGATACTTTTACAAATC
1 A-GG---GGTATTTCGATAATTTTACAAATT
*
93485538 AGGGGTATTTCGATAATTTTACAAACT
1 AGGGGTATTTCGATAATTTTACAAATT
*
93485565 GGGGGTATTTCTG-TAATTTTACAAAT
1 AGGGGTATTTC-GATAATTTTACAAAT
93485591 GAAGGTCTTA
Statistics
Matches: 298, Mismatches: 59, Indels: 44
0.74 0.15 0.11
Matches are distributed among these distances:
25 1 0.00
26 63 0.21
27 204 0.68
28 6 0.02
29 2 0.01
30 2 0.01
31 3 0.01
32 16 0.05
33 1 0.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTCGATAATTTTACAAATT
Found at i:93485284 original size:81 final size:79
Alignment explanation
Indices: 93485214--93485589 Score: 355
Period size: 81 Copynumber: 4.6 Consensus size: 79
93485204 TACACTACAA
* * *
93485214 GGGTATTTCGGTAATTTTACAAATTAGGGGTATTTC-GATAATTTTACAAACCGAGGTATTTTAG
1 GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCAG-TAATTTTACAAACTGAGGTATTTTGG
* * *
93485278 TAAATTTATAAATTGG
65 TAATTTTACAAA-CGG
* *
93485294 GGGTATTTCGGTAATTTTAC-ACTACAAGGGTATTTCAGTAATTTTACAAACTGAGTGTATTTTG
1 GGGTATTTCGGTAATTTTACAAAT-CAGGGGTATTTCAGTAATTTTACAAACTGAG-GTATTTTG
93485358 GTAATTTTACAAATCGG
64 GTAATTTTACAAA-CGG
** * * * *
93485375 GGGTATTTTAGTAATTTTACAAATCGGGGGTATTTCAATAATTTTAAAAATTGAGGGTATTTTGG
1 GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAACTGA-GGTATTTTGG
**
93485440 TAATTTTACAAATTG
65 TAATTTTACAAACGG
* * * *
93485455 GGGTATTTCGGTAATTTTACAAA-CTGGAGTATTTCAGTAATTTTACACTATAAGGGTAAGGTAT
1 GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCAGTAATTTT--AC-A-AA--CTGAGGTAT
* * * *
93485519 TTCGATACTTTTACAAATCAG
60 TTTGGTAATTTTACAAA-CGG
* * *
93485540 GGGTATTTCGATAATTTTACAAA-CTGGGGGTATTTCTGTAATTTTACAAA
1 GGGTATTTCGGTAATTTTACAAATC-AGGGGTATTTCAGTAATTTTACAAA
93485590 TGAAGGTCTT
Statistics
Matches: 248, Mismatches: 35, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
79 20 0.08
80 68 0.27
81 87 0.35
82 6 0.02
83 3 0.01
84 21 0.08
85 26 0.10
86 17 0.07
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (79 bp):
GGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCAGTAATTTTACAAACTGAGGTATTTTGGT
AATTTTACAAACGG
Found at i:93485335 original size:107 final size:106
Alignment explanation
Indices: 93485186--93485589 Score: 438
Period size: 107 Copynumber: 3.7 Consensus size: 106
93485176 TTACCCTACA
* *
93485186 GGGGTATTTCGATAATTTTACACTA-CAAGGGTATTTCGGTAATTTTACAAATTAGGGGTATTTC
1 GGGGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACT-GGGGTATTTC
* * * *
93485250 GATAATTTTACAAACCGAGGTATTTTAGTAAATTTATAAATTG
65 GGTAATTTTACAAACCG-GGTATTTTAGTAATTTTACAAATAG
* * * * *
93485293 GGGGTATTTCGGTAATTTTACACTA-CAAGGGTATTTCAGTAATTTTACAAACTGAGTGTATTTT
1 GGGGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACTG-GGGTATTTC
* *
93485357 GGTAATTTTACAAATCGGGGGTATTTTAGTAATTTTACAAATCG
65 GGTAATTTTACAAA-C-CGGGTATTTTAGTAATTTTACAAATAG
* * ** * *
93485401 GGGGTATTTCAATAATTTTA-AAAATTGAGGGTATTTTGGTAATTTTACAAATTGGGGTATTTCG
1 GGGGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACTGGGGTATTTCG
* * *
93485465 GTAATTTTACAAACTGGAGTATTTCAGTAATTTTACACTATAAG
66 GTAATTTTACAAACCGG-GTATTTTAGTAATTTTACA-AAT-AG
* * *
93485509 GGTAAGGTATTTCGATACTTTTACA-AATCAGGGGTATTTCGATAATTTTACAAACTGGGGGTAT
1 GG---GGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACT-GGGGTAT
*
93485573 TTCTGTAATTTTACAAA
62 TTCGGTAATTTTACAAA
93485590 TGAAGGTCTT
Statistics
Matches: 251, Mismatches: 34, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
105 2 0.01
106 20 0.08
107 95 0.38
108 68 0.27
109 1 0.00
111 41 0.16
112 24 0.10
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (106 bp):
GGGGTATTTCGATAATTTTACACAATCAAGGGTATTTCGGTAATTTTACAAACTGGGGTATTTCG
GTAATTTTACAAACCGGGTATTTTAGTAATTTTACAAATAG
Found at i:93485418 original size:134 final size:134
Alignment explanation
Indices: 93485173--93485587 Score: 437
Period size: 134 Copynumber: 3.1 Consensus size: 134
93485163 CAAAACAGTC
* * * *
93485173 ATTTTACCCTACAGGGGTATTTCGATAATTTTACACTAC-AAGGGTATTTCGGTAATTTTACAAA
1 ATTTTACACTACAGGGGTATTTCG-TAATTTTACA-AACTGAGAGTATTTCGGTAATTTTACAAA
* * * * * *
93485237 TTA-GGGGTATTTCGATAATTTTACAAA-CCGAGGTATTTTAGTAAATTTATAAATTGGGGGTAT
64 -TAGGGGGTATTTCGATAATTTTACAAATCAGGGGTATTTCAATAATTTTAAAAATTGGGGGTAT
93485300 TTCGGTA
128 TTCGGTA
* * *
93485307 ATTTTACACTACAAGGGTATTTCAGTAATTTTACAAACTGAGTGTATTTTGGTAATTTTACAAAT
1 ATTTTACACTACAGGGGTATTTC-GTAATTTTACAAACTGAGAGTATTTCGGTAATTTTACAAAT
* * * *
93485372 CGGGGGTATTT-TAGTAATTTTACAAATCGGGGGTATTTCAATAATTTTAAAAATTGAGGGTATT
65 AGGGGGTATTTCGA-TAATTTTACAAATCAGGGGTATTTCAATAATTTTAAAAATTGGGGGTATT
*
93485436 TTGGTA
129 TCGGTA
* ** * *
93485442 ATTTTACA-AATTGGGGTATTTCGGTAATTTTACAAACTG-GAGTATTTCAGTAATTTTACACTA
1 ATTTTACACTACAGGGGTATTTC-GTAATTTTACAAACTGAGAGTATTTCGGTAATTTTACA-AA
* * * *
93485505 TAAGGGTAAGGTATTTCGATACTTTTACAAATCAGGGGTATTTCGATAATTTTACAAACTGGGGG
64 T-AGGG---GGTATTTCGATAATTTTACAAATCAGGGGTATTTCAATAATTTTAAAAATTGGGGG
*
93485570 TATTTCTGTA
125 TATTTCGGTA
93485580 ATTTTACA
1 ATTTTACA
93485588 AATGAAGGTC
Statistics
Matches: 235, Mismatches: 35, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
133 22 0.09
134 102 0.43
135 47 0.20
138 63 0.27
139 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (134 bp):
ATTTTACACTACAGGGGTATTTCGTAATTTTACAAACTGAGAGTATTTCGGTAATTTTACAAATA
GGGGGTATTTCGATAATTTTACAAATCAGGGGTATTTCAATAATTTTAAAAATTGGGGGTATTTC
GGTA
Found at i:93493215 original size:26 final size:26
Alignment explanation
Indices: 93493177--93493257 Score: 91
Period size: 24 Copynumber: 3.3 Consensus size: 26
93493167 CACTCTTTCA
* *
93493177 AGCT-ATGATCAGTAAGCTCCT-CCTG
1 AGCTGATGAACAGTAAGCTCCTGAC-G
93493202 AGCTGATGAACAGTAAGCT-CTGACG
1 AGCTGATGAACAGTAAGCTCCTGACG
*
93493227 AGCTGA-GAACAGTAAGCT-CTTACG
1 AGCTGATGAACAGTAAGCTCCTGACG
93493251 AGCTGAT
1 AGCTGAT
93493258 ATATTCGTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
24 23 0.46
25 13 0.26
26 14 0.28
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (26 bp):
AGCTGATGAACAGTAAGCTCCTGACG
Found at i:93493241 original size:24 final size:25
Alignment explanation
Indices: 93493201--93493257 Score: 98
Period size: 24 Copynumber: 2.3 Consensus size: 25
93493191 AGCTCCTCCT
93493201 GAGCTGATGAACAGTAAGCTCTGAC
1 GAGCTGATGAACAGTAAGCTCTGAC
*
93493226 GAGCTGA-GAACAGTAAGCTCTTAC
1 GAGCTGATGAACAGTAAGCTCTGAC
93493250 GAGCTGAT
1 GAGCTGAT
93493258 ATATTCGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 23 0.77
25 7 0.23
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (25 bp):
GAGCTGATGAACAGTAAGCTCTGAC
Found at i:93498524 original size:15 final size:15
Alignment explanation
Indices: 93498504--93498533 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
93498494 ACACTAAAAT
93498504 TTCGATAAATGAATA
1 TTCGATAAATGAATA
*
93498519 TTCGATAAATTAATA
1 TTCGATAAATGAATA
93498534 ATCTTAGTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.37
Consensus pattern (15 bp):
TTCGATAAATGAATA
Found at i:93500538 original size:26 final size:27
Alignment explanation
Indices: 93500504--93500560 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
93500494 AAATATTCTC
*
93500504 TAAAATAAT-AAATGTTAATTTATCGA
1 TAAAATAATAAAATATTAATTTATCGA
* *
93500530 TAAATTAATAAAATATTCATTTATCGA
1 TAAAATAATAAAATATTAATTTATCGA
93500557 TAAA
1 TAAA
93500561 CAAATAACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 8 0.30
27 19 0.70
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (27 bp):
TAAAATAATAAAATATTAATTTATCGA
Found at i:93502011 original size:24 final size:24
Alignment explanation
Indices: 93501984--93502030 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
93501974 TTGATAAATT
93501984 TTAAATTAAAAAAAT-ATTTATTTG
1 TTAAA-TAAAAAAATCATTTATTTG
93502008 TTAAATAAAAAAATCATTTATTT
1 TTAAATAAAAAAATCATTTATTT
93502031 TTGGTCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (24 bp):
TTAAATAAAAAAATCATTTATTTG
Found at i:93505026 original size:16 final size:16
Alignment explanation
Indices: 93505001--93505038 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
93504991 ATCCTTTCAA
*
93505001 AATAGATATTTACACC
1 AATAGTTATTTACACC
93505017 AATAGTTATTTACACC
1 AATAGTTATTTACACC
93505033 AATAGT
1 AATAGT
93505039 GATTCATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.16, G:0.08, T:0.34
Consensus pattern (16 bp):
AATAGTTATTTACACC
Found at i:93519045 original size:40 final size:40
Alignment explanation
Indices: 93518924--93519108 Score: 196
Period size: 40 Copynumber: 4.7 Consensus size: 40
93518914 TTCTAGCACC
** * * * *
93518924 AGCCTGCGGGAATTTAAACCCGG-TATA-ATACCAGCTCGT
1 AGCCTGCGGGTCTTTAAGCCCGGATA-ACATTCCAGCACGA
* ** * *
93518963 AGCCTGCGGGTCTCT-AGCCCAAATAATATTCCAGCACAA
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
*
93519002 AGCCTGCGGGTCTTTAAGCCTGGATAACATTCCAGCACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
* *
93519042 AGCCTGCGGGTTTTTAAGCCCGGATAACATTCCAGTACGA
1 AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
* *
93519082 AGCCTGCGGGTTTTTAAGCCCAGATAA
1 AGCCTGCGGGTCTTTAAGCCCGGATAA
93519109 TACCTCAAGT
Statistics
Matches: 123, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
38 5 0.04
39 36 0.29
40 82 0.67
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
AGCCTGCGGGTCTTTAAGCCCGGATAACATTCCAGCACGA
Found at i:93521948 original size:40 final size:40
Alignment explanation
Indices: 93521884--93522120 Score: 332
Period size: 40 Copynumber: 5.9 Consensus size: 40
93521874 GCATGAGCAT
* * *
93521884 TTGATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
*
93521924 -TGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 TTGA-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
*
93521964 TTGATATATTCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
*
93522004 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
* * * *
93522044 ATGATATATCCAGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
* * * *
93522084 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
93522121 TTGTGGTTAT
Statistics
Matches: 177, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.02
40 171 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
Found at i:93538929 original size:40 final size:40
Alignment explanation
Indices: 93538872--93539101 Score: 286
Period size: 40 Copynumber: 5.8 Consensus size: 40
93538862 ATTTGAATAC
* * * *
93538872 ATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTTT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGA-TAT
*
93538912 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
*
93538952 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGGTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
*
93538992 ATCTGGGCTAAGACCCGAAGGCATTTGTG-AGAGATGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCA-AGATGATAT
* * * *
93539032 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
* * *
93539072 A-CCTGAGTTAAGACCCGAAGGCAATTGTGC
1 ATCC-GGGCTAAGACCCGAAGGCATTTGTGC
93539102 TTGTGGTTAT
Statistics
Matches: 170, Mismatches: 16, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 164 0.96
41 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGATGATAT
Found at i:93539114 original size:120 final size:120
Alignment explanation
Indices: 93538876--93539101 Score: 321
Period size: 120 Copynumber: 1.9 Consensus size: 120
93538866 GAATACATCC
* ** * *
93538876 GGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTG
1 GGGCTAAGACCCGAAGGCATTTATGAGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGTG
* *
93538941 CAAGTTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGGTGATATATCT
66 CAAGTTGATATATCCGAGCTAAGACCCGAAGGCAATTGTGCAAGGTGATATATCT
*
93538996 GGGCTAAGACCCGAAGGCATTTGTGAGAGATGA-TATATCCGGGCTAAGACCCGAAGGCATTCGT
1 GGGCTAAGACCCGAAGGCATTTATGAGAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTCGT
* * *
93539060 GCGAGTTGCTATA-CCTGAGTTAAGACCCGAAGGCAATTGTGC
65 GCAAGTTGATATATCC-GAGCTAAGACCCGAAGGCAATTGTGC
93539102 TTGTGGTTAT
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
119 2 0.02
120 88 0.95
121 3 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (120 bp):
GGGCTAAGACCCGAAGGCATTTATGAGAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCGTG
CAAGTTGATATATCCGAGCTAAGACCCGAAGGCAATTGTGCAAGGTGATATATCT
Found at i:93547464 original size:40 final size:40
Alignment explanation
Indices: 93547400--93547636 Score: 332
Period size: 40 Copynumber: 5.9 Consensus size: 40
93547390 GCATGAGCAT
* * *
93547400 TTGATATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
*
93547440 -TGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 TTGA-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
93547480 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
*
93547520 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
* * * *
93547560 ATGATATATCCGGGCTAAGATCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
* * * * *
93547600 TTGCTATACCCGGGTTAAGACTCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
93547637 TTGTGGTTAT
Statistics
Matches: 178, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.02
40 172 0.97
41 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAG
Found at i:93555809 original size:8 final size:9
Alignment explanation
Indices: 93555783--93555887 Score: 51
Period size: 8 Copynumber: 11.7 Consensus size: 9
93555773 AAAATAATGT
93555783 ATAATATAA
1 ATAATATAA
93555792 ATAA-ATAA
1 ATAATATAA
93555800 ATAATA-AA
1 ATAATATAA
93555808 ATATATATAA
1 ATA-ATATAA
* *
93555818 GTTAAAATATA
1 -ATAATATA-A
93555829 AT-ATATAATA
1 ATAATAT-A-A
*
93555839 ATAATTTACA
1 ATAATATA-A
* * *
93555849 A-ATTTTGA
1 ATAATATAA
93555857 A-AATATAA
1 ATAATATAA
93555865 ATAATAT-A
1 ATAATATAA
*
93555873 ATAATATAT
1 ATAATATAA
93555882 ATAATA
1 ATAATA
93555888 AATTAAAAAT
Statistics
Matches: 75, Mismatches: 12, Indels: 18
0.71 0.11 0.17
Matches are distributed among these distances:
8 28 0.37
9 26 0.35
10 15 0.20
11 6 0.08
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (9 bp):
ATAATATAA
Found at i:93555899 original size:26 final size:26
Alignment explanation
Indices: 93555775--93555899 Score: 63
Period size: 26 Copynumber: 5.1 Consensus size: 26
93555765 AAGTTTTTAA
* *
93555775 AATAATGTATA-ATATAAATAAATAAAT
1 AATAATATATATA-ATAAATTAA-AAAT
* *
93555802 AATAAAATATAT-ATAAGTT-AAAAT
1 AATAATATATATAATAAATTAAAAAT
* *
93555826 -ATAATATATAATAATAATTTACAAAT
1 AATAATATAT-ATAATAAATTAAAAAT
** * *
93555852 TTTGA-A-A-AT-ATAAA-T-AATAT
1 AATAATATATATAATAAATTAAAAAT
93555872 AATAATATATATAATAAATTAAAAAT
1 AATAATATATATAATAAATTAAAAAT
93555898 AA
1 AA
93555900 GTTTAAAAGT
Statistics
Matches: 71, Mismatches: 16, Indels: 23
0.65 0.15 0.21
Matches are distributed among these distances:
20 5 0.07
21 2 0.03
22 5 0.07
23 12 0.17
24 11 0.15
25 9 0.13
26 16 0.23
27 11 0.15
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.35
Consensus pattern (26 bp):
AATAATATATATAATAAATTAAAAAT
Found at i:93556893 original size:26 final size:26
Alignment explanation
Indices: 93556864--93556971 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
93556854 TGGTACAAAT
*
93556864 TGATAATGGGTTAGGCAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
93556890 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93556916 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93556942 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93556968 TGAT
1 TGAT
93556972 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93558976 original size:137 final size:137
Alignment explanation
Indices: 93558730--93559015 Score: 509
Period size: 137 Copynumber: 2.1 Consensus size: 137
93558720 GAGTAGTCTC
* *
93558730 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATTGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
93558795 TGTTATCTGAATAATGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
93558860 ACTGTTA
131 ACTGTTA
93558867 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
93558932 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
93558997 ACTGTTA
131 ACTGTTA
**
93559004 CCTGAATGGGCT
1 CCCAAATGGGCT
93559016 GAGGCCCAAT
Statistics
Matches: 142, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 142 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTAATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGAGCTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:93560252 original size:12 final size:12
Alignment explanation
Indices: 93560235--93560262 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
93560225 ACTCGAGGAA
93560235 GAGGCCGTGGTC
1 GAGGCCGTGGTC
93560247 GAGGCCGTGGTC
1 GAGGCCGTGGTC
93560259 GAGG
1 GAGG
93560263 ACAAGGTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.11, C:0.21, G:0.54, T:0.14
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:93565075 original size:26 final size:26
Alignment explanation
Indices: 93565046--93565153 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
93565036 TGGTACAAAT
93565046 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
93565072 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93565098 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
93565124 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93565150 TGAT
1 TGAT
93565154 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93566650 original size:26 final size:26
Alignment explanation
Indices: 93566621--93566673 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
93566611 TTTACAGTTT
93566621 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
93566647 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
93566673 T
1 T
93566674 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:93567170 original size:137 final size:137
Alignment explanation
Indices: 93566924--93567207 Score: 462
Period size: 137 Copynumber: 2.1 Consensus size: 137
93566914 TAGTCTCCCT
* * * *
93566924 AAATGTGCTTGCATATGTTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGTCCATGCTGT
1 AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
93566989 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
66 TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
93567054 GTTACCC
131 GTTACCC
93567061 AAATGGGCTTGCATATGTCTT-CTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 AAATGGGCTTGCATATGT-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
* * **
93567125 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
65 TTATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCAC
*
93567190 TGTTACCT
130 TGTTACCC
*
93567198 GAATGGGCTT
1 AAATGGGCTT
93567208 AGGCCCAATG
Statistics
Matches: 136, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
137 134 0.99
138 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (137 bp):
AAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTGT
TATCTGAATAAGGGGCTAAGACCCAATTTATTGTAATCCAAAAAGGGCTCTGGCCCAGTACCACT
GTTACCC
Found at i:93570721 original size:18 final size:18
Alignment explanation
Indices: 93570698--93570732 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93570688 AAAAGATTTT
93570698 TATATAATATTCTTAAAA
1 TATATAATATTCTTAAAA
* *
93570716 TATATAGTATTTTTAAA
1 TATATAATATTCTTAAA
93570733 TTATTCTGTT
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:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
TATATAATATTCTTAAAA
Found at i:93571975 original size:17 final size:16
Alignment explanation
Indices: 93571955--93571993 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
93571945 TCCAGAAAAG
*
93571955 TTTTTAATTTTTCTTTA
1 TTTTTAAATTTT-TTTA
93571972 TTTTTAAATTTTTTTA
1 TTTTTAAATTTTTTTA
93571988 TATTTT
1 T-TTTT
93571994 CCTTTTTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTAAATTTTTTTA
Found at i:93571976 original size:18 final size:18
Alignment explanation
Indices: 93571955--93571993 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
93571945 TCCAGAAAAG
93571955 TTTTT-AATTTTTCTT-TA
1 TTTTTAAATTTTT-TTATA
93571972 TTTTTAAATTTTTTTATA
1 TTTTTAAATTTTTTTATA
93571990 TTTT
1 TTTT
93571994 CCTTTTTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTAAATTTTTTTATA
Found at i:93573877 original size:7 final size:7
Alignment explanation
Indices: 93573860--93574086 Score: 346
Period size: 7 Copynumber: 31.4 Consensus size: 7
93573850 CATTTCTCTT
93573860 CCCTAAAA
1 CCCT-AAA
93573868 CCCTAAA
1 CCCTAAA
93573875 CCCTAAAA
1 CCCT-AAA
93573883 CCCTAAAA
1 CCCT-AAA
*
93573891 CCATAAA
1 CCCTAAA
93573898 CCCTAAA
1 CCCTAAA
*
93573905 CACTAAA
1 CCCTAAA
93573912 CCCTAAA
1 CCCTAAA
93573919 CCCTAAA
1 CCCTAAA
93573926 CCCTAAA
1 CCCTAAA
93573933 CCCTAAAA
1 CCCT-AAA
93573941 CCCTAAA
1 CCCTAAA
93573948 CCCTAAA
1 CCCTAAA
93573955 CCCTAAAA
1 CCCT-AAA
*
93573963 CCATAAA
1 CCCTAAA
93573970 CCCTAAA
1 CCCTAAA
93573977 CCCTAAA
1 CCCTAAA
93573984 CCCTAAA
1 CCCTAAA
*
93573991 CTCTAAA
1 CCCTAAA
93573998 CCCTAAA
1 CCCTAAA
93574005 CCCTAAAA
1 CCCT-AAA
93574013 CCCTAAAA
1 CCCT-AAA
93574021 CCCTAAA
1 CCCTAAA
93574028 CCCTAAA
1 CCCTAAA
93574035 CCCTAAA
1 CCCTAAA
93574042 CCCTAAA
1 CCCTAAA
93574049 CCCTAAA
1 CCCTAAA
93574056 CCCTAAA
1 CCCTAAA
93574063 CCCTAAA
1 CCCTAAA
*
93574070 CCATAAA
1 CCCTAAA
93574077 CCCTAAA
1 CCCTAAA
93574084 CCC
1 CCC
93574087 ACTTGACACG
Statistics
Matches: 205, Mismatches: 10, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
7 159 0.78
8 46 0.22
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (7 bp):
CCCTAAA
Found at i:93573973 original size:72 final size:72
Alignment explanation
Indices: 93573860--93574083 Score: 387
Period size: 72 Copynumber: 3.1 Consensus size: 72
93573850 CATTTCTCTT
*
93573860 CCCTAAAACCCTAAACCCTAAAACCCTAAAACCATAAACCCTAAACACTAAACCCTAAACCCTAA
1 CCCTAAAACCCTAAACCCT-AAACCCTAAAACCATAAACCCTAAACCCTAAACCCTAAACCCTAA
93573925 ACCCTAAA
65 ACCCTAAA
*
93573933 CCCTAAAACCCTAAACCCTAAACCCTAAAACCATAAACCCTAAACCCTAAACCCTAAACTCTAAA
1 CCCTAAAACCCTAAACCCTAAACCCTAAAACCATAAACCCTAAACCCTAAACCCTAAACCCTAAA
93573998 CCCTAAA
66 CCCTAAA
*
93574005 CCCTAAAACCCTAAAACCCTAAACCCT-AAACCCTAAACCCTAAACCCTAAACCCTAAACCCTAA
1 CCCTAAAACCCT-AAACCCTAAACCCTAAAACCATAAACCCTAAACCCTAAACCCTAAACCCTAA
*
93574069 ACCATAAA
65 ACCCTAAA
93574077 CCCTAAA
1 CCCTAAA
93574084 CCCACTTGAC
Statistics
Matches: 145, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
72 112 0.77
73 33 0.23
ACGTcount: A:0.46, C:0.39, G:0.00, T:0.14
Consensus pattern (72 bp):
CCCTAAAACCCTAAACCCTAAACCCTAAAACCATAAACCCTAAACCCTAAACCCTAAACCCTAAA
CCCTAAA
Found at i:93574598 original size:51 final size:51
Alignment explanation
Indices: 93574451--93574587 Score: 175
Period size: 51 Copynumber: 2.7 Consensus size: 51
93574441 CTACCATCAA
* * *
93574451 ATCTCTAAGAATATAATATCATATCTTCTAAGATTCCATATCTTAGATAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
* * ** * * * *
93574502 ATATGTAATCTTATAAAATAATATCTTATAAGATTCCATATCATATCTAAG
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
93574553 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
1 ATCTCTAAGATTATAATATCATATCTTCTAAGATT
93574588 AGTTACCATA
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
51 68 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.39
Consensus pattern (51 bp):
ATCTCTAAGATTATAATATCATATCTTCTAAGATTCCATATCATATATAAG
Found at i:93584539 original size:18 final size:18
Alignment explanation
Indices: 93584508--93584544 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
93584498 CATTCAAATG
*
93584508 GCAAATAATATCAACATT
1 GCAAACAATATCAACATT
*
93584526 GCAAACAATCTCAACATT
1 GCAAACAATATCAACATT
93584544 G
1 G
93584545 TATTTTAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (18 bp):
GCAAACAATATCAACATT
Found at i:93585913 original size:39 final size:38
Alignment explanation
Indices: 93585817--93585913 Score: 97
Period size: 39 Copynumber: 2.5 Consensus size: 38
93585807 ACCATCTCCG
* * * *
93585817 TCCAACCCAACACACCATGTGGGGATAAAATCGACCCA
1 TCCAACCCTACACACCAAGTAGGGATAAAATCAACCCA
* * * *
93585855 CCCAGCCCTACATC-TCAAGTCAGGGATAAAATTAACCCA
1 TCCAACCCTACA-CACCAAGT-AGGGATAAAATCAACCCA
93585894 TCCAACCCTACACACCAAGT
1 TCCAACCCTACACACCAAGT
93585914 GGTACCATAT
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
38 14 0.31
39 31 0.69
ACGTcount: A:0.36, C:0.36, G:0.12, T:0.15
Consensus pattern (38 bp):
TCCAACCCTACACACCAAGTAGGGATAAAATCAACCCA
Found at i:93586274 original size:18 final size:18
Alignment explanation
Indices: 93586238--93586288 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
93586228 CAAACAAATC
* *
93586238 GGGCTCACACGCTCATGT
1 GGGCCCACACGCCCATGT
*
93586256 GGGCCCACACGCCCGTGT
1 GGGCCCACACGCCCATGT
*
93586274 -GGCTCACACAGCCCA
1 GGGCCCACAC-GCCCA
93586289 GATTGGCCTC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.18, C:0.41, G:0.27, T:0.14
Consensus pattern (18 bp):
GGGCCCACACGCCCATGT
Found at i:93588453 original size:20 final size:22
Alignment explanation
Indices: 93588428--93588475 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
93588418 ACCAGAACAT
93588428 CTTTTTCAAT-ATTTTTG-AAA
1 CTTTTTCAATAATTTTTGTAAA
*
93588448 CTTTTT-TATAATTTTTGTAAA
1 CTTTTTCAATAATTTTTGTAAA
*
93588469 TTTTTTC
1 CTTTTTC
93588476 TTTTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 13 0.57
21 8 0.35
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (22 bp):
CTTTTTCAATAATTTTTGTAAA
Found at i:93591945 original size:37 final size:37
Alignment explanation
Indices: 93591895--93591966 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
93591885 AAGGAGATTA
93591895 GATCATGCTACATTGAAGGGTAATCCTCATTTATTTG
1 GATCATGCTACATTGAAGGGTAATCCTCATTTATTTG
* *
93591932 GATCATGCTACATTGAAGGGTGATCTTCATTTATT
1 GATCATGCTACATTGAAGGGTAATCCTCATTTATT
93591967 CTCTAAGCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.39
Consensus pattern (37 bp):
GATCATGCTACATTGAAGGGTAATCCTCATTTATTTG
Found at i:93593621 original size:21 final size:21
Alignment explanation
Indices: 93593595--93593646 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
93593585 GAGTGCCTTT
93593595 CAGTCAAATAATACAATCAGA
1 CAGTCAAATAATACAATCAGA
* *
93593616 CAGTCAAATAATTCAGTCAGA
1 CAGTCAAATAATACAATCAGA
93593637 CAGTCAAATA
1 CAGTCAAATA
93593647 GATATTGCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.48, C:0.19, G:0.12, T:0.21
Consensus pattern (21 bp):
CAGTCAAATAATACAATCAGA
Found at i:93605862 original size:17 final size:17
Alignment explanation
Indices: 93605840--93605891 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
93605830 TTTTTATCAT
93605840 TTATCATTTATCGGGCA
1 TTATCATTTATCGGGCA
**
93605857 TTATCATTTATTTCAAGCA
1 TTATCATTTA--TCGGGCA
*
93605876 TTATCATTTATTGGGC
1 TTATCATTTATCGGGC
93605892 TTTGTCGGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
17 13 0.46
19 15 0.54
ACGTcount: A:0.25, C:0.15, G:0.13, T:0.46
Consensus pattern (17 bp):
TTATCATTTATCGGGCA
Found at i:93605971 original size:24 final size:24
Alignment explanation
Indices: 93605918--93605974 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
93605908 TCGATGTCAT
* *
93605918 ATATATATAATATTTATACAATTC
1 ATATAAATAATATTTATACAATGC
* *
93605942 ACATAAATAATATTTAATTCAA-GC
1 ATATAAATAATATTT-ATACAATGC
93605966 ATATAAATA
1 ATATAAATA
93605975 TACACAATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 22 0.81
25 5 0.19
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.39
Consensus pattern (24 bp):
ATATAAATAATATTTATACAATGC
Found at i:93606220 original size:16 final size:13
Alignment explanation
Indices: 93606186--93606213 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
93606176 GATCTTTTTA
93606186 TTATTTATCATCT
1 TTATTTATCATCT
93606199 TTATTTATCATCT
1 TTATTTATCATCT
93606212 TT
1 TT
93606214 CCAATTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:93606746 original size:19 final size:20
Alignment explanation
Indices: 93606717--93606754 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
93606707 ATCTAAAACC
93606717 AAAAAAGTTGTTGAAGAAGG
1 AAAAAAGTTGTTGAAGAAGG
93606737 AAAAAA-TTGTTGAAGAAG
1 AAAAAAGTTGTTGAAGAAG
93606755 ACTTTAGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (20 bp):
AAAAAAGTTGTTGAAGAAGG
Found at i:93611646 original size:21 final size:21
Alignment explanation
Indices: 93611616--93611673 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 21
93611606 CAACCCACAA
*
93611616 CTCGTATGAGCATATTTACAG
1 CTCGTGTGAGCATATTTACAG
93611637 CTCGTGTGAGCATTATATTTACAG
1 CTCGTGTGAGC---ATATTTACAG
*
93611661 CTCATGTGAGCAT
1 CTCGTGTGAGCAT
93611674 TTCTATTTCG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 12 0.38
24 20 0.62
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (21 bp):
CTCGTGTGAGCATATTTACAG
Found at i:93611659 original size:24 final size:24
Alignment explanation
Indices: 93611627--93611674 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
93611617 TCGTATGAGC
*
93611627 ATATTTACAGCTCGTGTGAGCATT
1 ATATTTACAGCTCATGTGAGCATT
93611651 ATATTTACAGCTCATGTGAGCATT
1 ATATTTACAGCTCATGTGAGCATT
93611675 TCTATTTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (24 bp):
ATATTTACAGCTCATGTGAGCATT
Found at i:93616349 original size:21 final size:20
Alignment explanation
Indices: 93616324--93616363 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
93616314 TGTAGGGCTC
*
93616324 ACACGCCTGTGTGGTCTAGGG
1 ACACGCCTATGTGGT-TAGGG
93616345 ACACGCCTATGTGGTTAGG
1 ACACGCCTATGTGGTTAGG
93616364 CCGTGTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.23, G:0.35, T:0.25
Consensus pattern (20 bp):
ACACGCCTATGTGGTTAGGG
Found at i:93623480 original size:21 final size:20
Alignment explanation
Indices: 93623455--93623494 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
93623445 TGTAGGGCTC
*
93623455 ACACGCCTGTGTGGTCTAGGG
1 ACACGCCTATGTGGT-TAGGG
93623476 ACACGCCTATGTGGTTAGG
1 ACACGCCTATGTGGTTAGG
93623495 CCGTGTACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.17, C:0.23, G:0.35, T:0.25
Consensus pattern (20 bp):
ACACGCCTATGTGGTTAGGG
Found at i:93628931 original size:43 final size:42
Alignment explanation
Indices: 93628872--93629039 Score: 153
Period size: 43 Copynumber: 4.0 Consensus size: 42
93628862 ATATCGTACA
* * * *
93628872 ATGCCAACGTCCCAGATGTGGTCTTACATGCCATCACATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* * *
93628915 ATG-CAATTGTCCCAGATAG-GGCCTTACACGAATCAAATA-CG
1 ATGCCAA-TGTCCCAGA-CGTGGTCTTACACGAATCACATATCG
* *
93628956 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AATCACATATCG
** * *
93628999 ATGCCAACATCCCAGACGTGGTCTTAAACGAGAACACATAT
1 ATGCCAATGTCCCAGACGTGGTCTTACACGA-ATCACATAT
93629040 TAGAAATCCT
Statistics
Matches: 101, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
41 24 0.24
42 21 0.21
43 55 0.54
44 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:93629860 original size:4 final size:4
Alignment explanation
Indices: 93629851--93629883 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
93629841 CAAGCTTTAT
93629851 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
93629884 CAAGTTTCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:93630654 original size:43 final size:43
Alignment explanation
Indices: 93630605--93630700 Score: 192
Period size: 43 Copynumber: 2.2 Consensus size: 43
93630595 ACCAGTGAAG
93630605 CAACAATTATTTGTAATAAAAACTATATATTGGTCCAAGTTCA
1 CAACAATTATTTGTAATAAAAACTATATATTGGTCCAAGTTCA
93630648 CAACAATTATTTGTAATAAAAACTATATATTGGTCCAAGTTCA
1 CAACAATTATTTGTAATAAAAACTATATATTGGTCCAAGTTCA
93630691 CAACAATTAT
1 CAACAATTAT
93630701 ATTATATTAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (43 bp):
CAACAATTATTTGTAATAAAAACTATATATTGGTCCAAGTTCA
Found at i:93630706 original size:5 final size:5
Alignment explanation
Indices: 93630696--93630748 Score: 52
Period size: 5 Copynumber: 10.6 Consensus size: 5
93630686 GTTCACAACA
* ** ** *
93630696 ATTAT ATTAT ATTAT GTTAT ATTGC ATTGC ATTAT ATTAT ATTAT ATCAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
93630746 ATT
1 ATT
93630749 GTTTTTTGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.55
Consensus pattern (5 bp):
ATTAT
Found at i:93630749 original size:25 final size:25
Alignment explanation
Indices: 93630701--93630749 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
93630691 CAACAATTAT
* **
93630701 ATTATATTATGTTATATTGCATTGC
1 ATTATATTATATTATATCACATTGC
*
93630726 ATTATATTATATTATATCATATTG
1 ATTATATTATATTATATCACATTG
93630750 TTTTTTGTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (25 bp):
ATTATATTATATTATATCACATTGC
Found at i:93635015 original size:43 final size:41
Alignment explanation
Indices: 93634941--93635052 Score: 109
Period size: 43 Copynumber: 2.7 Consensus size: 41
93634931 AGGATTTCCA
* ** *
93634941 ATATGTGTTCTCGTGTAAGACCA-CACTTGGGACGTTGGCATC
1 ATATGTGAT-TCGTGTAAGACCATGTC-TGGGACATTGGCATC
*
93634983 AATATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATC
1 -ATATGTGATT-CGTGTAAGACCATGTCTGGGACATTGGCATC
* * *
93635026 GTATTTGATTCGTGTAAGACCTTGTCT
1 ATATGTGATTCGTGTAAGACCATGTCT
93635053 AGAACAGTGG
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 15 0.26
42 9 0.16
43 33 0.57
44 1 0.02
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (41 bp):
ATATGTGATTCGTGTAAGACCATGTCTGGGACATTGGCATC
Found at i:93635052 original size:41 final size:43
Alignment explanation
Indices: 93634968--93635052 Score: 111
Period size: 41 Copynumber: 2.0 Consensus size: 43
93634958 AGACCACACT
* *
93634968 TGGGACGTTGGCATCAATATGTGATTATGTGTAAGACCATGTC
1 TGGGACATTGGCATCAATATGTGATTACGTGTAAGACCATGTC
* * *
93635011 TGGGACATTGGCATC-GTATTTGATT-CGTGTAAGACCTTGTC
1 TGGGACATTGGCATCAATATGTGATTACGTGTAAGACCATGTC
93635052 T
1 T
93635053 AGAACAGTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
41 15 0.41
42 8 0.22
43 14 0.38
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.35
Consensus pattern (43 bp):
TGGGACATTGGCATCAATATGTGATTACGTGTAAGACCATGTC
Found at i:93635195 original size:19 final size:19
Alignment explanation
Indices: 93635171--93635211 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
93635161 TGGGCAATGA
93635171 TAAGTTGTGATCGAATGTG
1 TAAGTTGTGATCGAATGTG
93635190 TAAGTTGTGATCGAATGTG
1 TAAGTTGTGATCGAATGTG
93635209 TAA
1 TAA
93635212 ATCGAGCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.37
Consensus pattern (19 bp):
TAAGTTGTGATCGAATGTG
Found at i:93637905 original size:22 final size:20
Alignment explanation
Indices: 93637868--93637907 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
93637858 AACTTGATCA
93637868 TTTTAATAAAATATTTTGAT
1 TTTTAATAAAATATTTTGAT
*
93637888 TTTTTATAACAATGATTTTG
1 TTTTAATAA-AAT-ATTTTG
93637908 GTCTACGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (20 bp):
TTTTAATAAAATATTTTGAT
Found at i:93638679 original size:9 final size:9
Alignment explanation
Indices: 93638665--93638735 Score: 70
Period size: 9 Copynumber: 7.9 Consensus size: 9
93638655 ACTAACATAG
*
93638665 AATAATAAC
1 AATAACAAC
*
93638674 AATAATAAC
1 AATAACAAC
93638683 AATAACAAC
1 AATAACAAC
*
93638692 AACAACAAC
1 AATAACAAC
* *
93638701 GACAACAAC
1 AATAACAAC
*
93638710 AACAACAAC
1 AATAACAAC
* *
93638719 AATAATAAT
1 AATAACAAC
93638728 AATAACAA
1 AATAACAA
93638736 AAAAATCTGA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.66, C:0.20, G:0.01, T:0.13
Consensus pattern (9 bp):
AATAACAAC
Found at i:93638692 original size:3 final size:3
Alignment explanation
Indices: 93638680--93638720 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
93638670 TAACAATAAT
* *
93638680 AAC AAT AAC AAC AAC AAC AAC GAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
93638721 TAATAATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.66, C:0.29, G:0.02, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:93639749 original size:6 final size:6
Alignment explanation
Indices: 93639738--93639778 Score: 57
Period size: 6 Copynumber: 7.0 Consensus size: 6
93639728 TCAAACAAGA
* *
93639738 AAAAAT AAAAAT AAAAAT GAAAAT AAAAAT -AGAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
93639779 GCAACCTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:93640477 original size:44 final size:44
Alignment explanation
Indices: 93640414--93640585 Score: 193
Period size: 44 Copynumber: 3.9 Consensus size: 44
93640404 AGGAATTGTT
* * * * * *
93640414 GCTTCAATCTACTCTACTGCAACTTTATGGAGATAAGA-TCTGTA
1 GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTC-GTG
*
93640458 GCTTTAATCCACTCCACTGCAACTTTAGGGAGATAAGATTCGTG
1 GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTCGTG
* ** * * *
93640502 GCTTTAATTCGTTCCACTGTAACTTCAAGGAGATAAGGTTCGTG
1 GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTCGTG
**
93640546 GCTTTAATATACTCCACTGCAACTTCAGGGAGATAAGATT
1 GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATT
93640586 TGCCATGATA
Statistics
Matches: 108, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
44 106 0.98
45 2 0.02
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
GCTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGATTCGTG
Found at i:93640844 original size:45 final size:45
Alignment explanation
Indices: 93640792--93640910 Score: 145
Period size: 44 Copynumber: 2.7 Consensus size: 45
93640782 ATCTGTTGTT
*
93640792 CTGCAACTTTAGAGAGATAAGATTTTCCATCTTCGATCTACTCCA
1 CTGCAACTTCAGAGAGATAAGATTTTCCATCTTCGATCTACTCCA
* * *
93640837 CTGCAACTTCA-AGGAGATAAGATCTAT--AACTTCTATCTACTCCA
1 CTGCAACTTCAGA-GAGATAAGAT-TTTCCATCTTCGATCTACTCCA
* *
93640881 CTGCAACTTCAGGGAGATAAGATTTGCCAT
1 CTGCAACTTCAGAGAGATAAGATTTTCCAT
93640911 GGTAGATTCA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.02
44 37 0.61
45 21 0.34
46 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (45 bp):
CTGCAACTTCAGAGAGATAAGATTTTCCATCTTCGATCTACTCCA
Found at i:93658860 original size:16 final size:17
Alignment explanation
Indices: 93658839--93658875 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
93658829 AATATATTGG
93658839 AAATTAAAAAAAAT-TA
1 AAATTAAAAAAAATATA
*
93658855 AAATTATAAAAAATATA
1 AAATTAAAAAAAATATA
93658872 AAAT
1 AAAT
93658876 ATTGACAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATTAAAAAAAATATA
Found at i:93659771 original size:19 final size:20
Alignment explanation
Indices: 93659747--93659784 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
93659737 TAATAATAAT
93659747 AATAGTTGA-ATATTTAAAA
1 AATAGTTGATATATTTAAAA
*
93659766 AATAGTTTATATATTTAAA
1 AATAGTTGATATATTTAAA
93659785 TTAAAGCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (20 bp):
AATAGTTGATATATTTAAAA
Found at i:93665658 original size:41 final size:41
Alignment explanation
Indices: 93665605--93665718 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
93665595 TTTCCAAATC
**
93665605 AATGAAGAGGTTGAAAAGGATGTTATCTGAAAAGGATATCA
1 AATGAAGAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
*
93665646 AATGAAGAGGTTGAAAAGGATGTTATCCAAAAAGGGTATCA
1 AATGAAGAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
* * **
93665687 AATGAAAAGGTTGAAAATGACATTATCCAAAA
1 AATGAAGAGGTTGAAAAGGATGTTATCCAAAA
93665719 GAGACAACAA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.23
Consensus pattern (41 bp):
AATGAAGAGGTTGAAAAGGATGTTATCCAAAAAGGATATCA
Found at i:93665730 original size:41 final size:41
Alignment explanation
Indices: 93665605--93665735 Score: 120
Period size: 41 Copynumber: 3.2 Consensus size: 41
93665595 TTTCCAAATC
* ** ** * *
93665605 AATGAAGAGGTTGAAAAGGATGTTATCTGAAAAGGATATCA
1 AATGAAAAGGTTGAAAAGGACATTATCCAAAAAGGACAACA
* ** ** *
93665646 AATGAAGAGGTTGAAAAGGATGTTATCCAAAAAGGGTATCA
1 AATGAAAAGGTTGAAAAGGACATTATCCAAAAAGGACAACA
*
93665687 AATGAAAAGGTTGAAAATGACATTATCC-AAAAGAGACAACA
1 AATGAAAAGGTTGAAAAGGACATTATCCAAAAAG-GACAACA
93665728 AATGAAAA
1 AATGAAAA
93665736 AGGTCAGTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 5 0.06
41 74 0.94
ACGTcount: A:0.49, C:0.08, G:0.23, T:0.21
Consensus pattern (41 bp):
AATGAAAAGGTTGAAAAGGACATTATCCAAAAAGGACAACA
Found at i:93667558 original size:18 final size:19
Alignment explanation
Indices: 93667523--93667561 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
93667513 GTGACCCTTG
* *
93667523 TTTCCCAAATTTTCATGTT
1 TTTCCAAAAATTTCATGTT
93667542 TTTCCAAAAATTT-ATGTT
1 TTTCCAAAAATTTCATGTT
93667560 TT
1 TT
93667562 GTTTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.26, C:0.15, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTCCAAAAATTTCATGTT
Found at i:93668870 original size:22 final size:22
Alignment explanation
Indices: 93668838--93668885 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
93668828 TGTCCAGTAC
93668838 AATTTAATATAAAATTAATCAA
1 AATTTAATATAAAATTAATCAA
* *
93668860 AATTTATTATAAAATTAATTAA
1 AATTTAATATAAAATTAATCAA
93668882 AATT
1 AATT
93668886 CAACAAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAATATAAAATTAATCAA
Found at i:93669350 original size:16 final size:16
Alignment explanation
Indices: 93669284--93669357 Score: 71
Period size: 16 Copynumber: 4.6 Consensus size: 16
93669274 GATTCACTTG
*
93669284 AATGGAATAG-GACTGT
1 AATGGAATAGAG-CTAT
*
93669300 AATGGAATAGGGCTAT
1 AATGGAATAGAGCTAT
* *
93669316 AATGGAAT-GAAGTTGT
1 AATGGAATAG-AGCTAT
93669332 AATGGAATAGAGCTAT
1 AATGGAATAGAGCTAT
*
93669348 AATAGAATAG
1 AATGGAATAG
93669358 GGTTGTAATC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
15 1 0.02
16 45 0.94
17 2 0.04
ACGTcount: A:0.42, C:0.04, G:0.28, T:0.26
Consensus pattern (16 bp):
AATGGAATAGAGCTAT
Found at i:93669363 original size:32 final size:32
Alignment explanation
Indices: 93669288--93669366 Score: 97
Period size: 32 Copynumber: 2.5 Consensus size: 32
93669278 CACTTGAATG
** * *
93669288 GAATAGGACTGTAATGGAATAGGGCTATAATG
1 GAATAGGGTTGTAATGGAATAGAGCTATAATA
*
93669320 GAAT-GAAGTTGTAATGGAATAGAGCTATAATA
1 GAATAG-GGTTGTAATGGAATAGAGCTATAATA
93669352 GAATAGGGTTGTAAT
1 GAATAGGGTTGTAAT
93669367 CAGTAATTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
31 1 0.03
32 37 0.95
33 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.29, T:0.28
Consensus pattern (32 bp):
GAATAGGGTTGTAATGGAATAGAGCTATAATA
Found at i:93672417 original size:15 final size:15
Alignment explanation
Indices: 93672397--93672429 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
93672387 GTCTTGCTCG
93672397 TTCTTTCTCCATTTT
1 TTCTTTCTCCATTTT
93672412 TTCTTTCTCCATTTT
1 TTCTTTCTCCATTTT
93672427 TTC
1 TTC
93672430 CTTGCTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
TTCTTTCTCCATTTT
Found at i:93683602 original size:12 final size:12
Alignment explanation
Indices: 93683585--93683610 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
93683575 GTAACAGGTG
93683585 CATTACACAAAC
1 CATTACACAAAC
93683597 CATTACACAAAC
1 CATTACACAAAC
93683609 CA
1 CA
93683611 AATGGTATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (12 bp):
CATTACACAAAC
Found at i:93692254 original size:25 final size:25
Alignment explanation
Indices: 93692225--93692272 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
93692215 TTATAGTATG
* * *
93692225 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACTATTATACCCCTAGGTA
93692250 AAAATGACTATTATACCCCTAGG
1 AAAATGACTATTATACCCCTAGG
93692273 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACTATTATACCCCTAGGTA
Found at i:93692439 original size:26 final size:26
Alignment explanation
Indices: 93692404--93692539 Score: 199
Period size: 26 Copynumber: 5.3 Consensus size: 26
93692394 GAGGAAGTGA
93692404 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
**
93692430 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
93692456 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
93692482 AAAAGGGCTTATGCCCCAGATTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
93692508 -AAAGGGCTT-TGCCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
93692530 AAAAGAGGCT
1 AAAAG-GGCT
93692540 AGGCCTCCAG
Statistics
Matches: 101, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
23 8 0.08
24 12 0.12
25 9 0.09
26 72 0.71
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:93699490 original size:43 final size:43
Alignment explanation
Indices: 93699442--93699523 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
93699432 ATTACCGAAA
* *
93699442 TGTGATTATATGTAAGACCGTGTATGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
*
93699485 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
1 TGTGATTACATGTAAGACCATGTATGGGACATTGGCATT
93699524 ATTATATGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.26, C:0.12, G:0.27, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTATGGGACATTGGCATTGTAT
Found at i:93699534 original size:43 final size:43
Alignment explanation
Indices: 93699444--93699610 Score: 126
Period size: 43 Copynumber: 3.9 Consensus size: 43
93699434 TACCGAAATG
* * * * *
93699444 TGATTATATGTAAGACCGTGTATGGGACATTGGCATT-GTATTG
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATTA-TA
93699487 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATTATA
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATTATA
* * * * * * *
93699530 TGATTTCGTGTAAGAATC-TGTCTGAGATAGTGGCATCGA-TATA
1 TGATTACATGTAAG-ACCATGTCTGGGACATTGGCAT-TATTATA
* * * * *
93699573 TGATAACATATAAGACCATATCTAGGATA-TGGCATTAT
1 TGATTACATGTAAGACCATGTCTGGGACATTGGCATTAT
93699611 ATAAGCTTTA
Statistics
Matches: 98, Mismatches: 21, Indels: 11
0.75 0.16 0.08
Matches are distributed among these distances:
41 1 0.01
42 8 0.08
43 84 0.86
44 5 0.05
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.35
Consensus pattern (43 bp):
TGATTACATGTAAGACCATGTCTGGGACATTGGCATTATTATA
Found at i:93703689 original size:17 final size:17
Alignment explanation
Indices: 93703667--93703699 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
93703657 CAGCCAAAGG
93703667 GGTATTCATAGGTTGAA
1 GGTATTCATAGGTTGAA
*
93703684 GGTATTTATAGGTTGA
1 GGTATTCATAGGTTGA
93703700 CAAGGCTGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.03, G:0.30, T:0.39
Consensus pattern (17 bp):
GGTATTCATAGGTTGAA
Found at i:93714593 original size:20 final size:21
Alignment explanation
Indices: 93714550--93714594 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
93714540 CAAAGGTATC
93714550 GATATTCAGGTTTTAAAAATT
1 GATATTCAGGTTTTAAAAATT
*
93714571 GATATTCGGGTTTTAAAAA-T
1 GATATTCAGGTTTTAAAAATT
93714591 GATA
1 GATA
93714595 CATTTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 5 0.22
21 18 0.78
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (21 bp):
GATATTCAGGTTTTAAAAATT
Found at i:93724603 original size:22 final size:22
Alignment explanation
Indices: 93724561--93724604 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
93724551 AATTATTTAC
* *
93724561 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
93724583 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
93724605 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:93724905 original size:40 final size:40
Alignment explanation
Indices: 93724831--93725052 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
93724821 AACCCAAGTA
* * *
93724831 CCTTCGAGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
93724870 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
93724910 CCTTCAGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
93724950 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
93724990 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
93725030 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
93725053 CATTCGAATA
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 11 0.07
40 154 0.92
41 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:93728441 original size:96 final size:96
Alignment explanation
Indices: 93728270--93728446 Score: 218
Period size: 96 Copynumber: 1.8 Consensus size: 96
93728260 TGATATGTGT
* * * * *
93728270 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTATGAGAGCCAGTTTAAGATCATG
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCACATCATGAGAGCCAGTGTAACACCATG
93728335 TATGAGACATGGCATCGGCGTTGAGACGAGA
66 TATGAGACATGGCATCGGCGTTGAGACGAGA
* *
93728366 GCTAGTGTAAGACCATG-CTTAGGACATGGCATCCG-CCTCGA-CATGTGAGCCAGTGTAACACC
1 GCTAGTGTAAGACCATGTC-TAGGACATGGCAT-CGACCAC-ATCATGAGAGCCAGTGTAACACC
*
93728428 ATGTTTCGA-ACATGGCATC
63 ATGTAT-GAGACATGGCATC
93728447 AGCAATTCAC
Statistics
Matches: 69, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
95 1 0.01
96 63 0.91
97 5 0.07
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCGACCACATCATGAGAGCCAGTGTAACACCATG
TATGAGACATGGCATCGGCGTTGAGACGAGA
Done.