Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 46 of 373
Found at i:13401855 original size:14 final size:14
Alignment explanation
Indices: 13401836--13401865 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13401826 TAAACCTTTT
13401836 TACTGCCAGGTTGG
1 TACTGCCAGGTTGG
13401850 TACTGCCAGGTTGG
1 TACTGCCAGGTTGG
13401864 TA
1 TA
13401866 AAGGAACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.17, C:0.20, G:0.33, T:0.30
Consensus pattern (14 bp):
TACTGCCAGGTTGG
Found at i:13405051 original size:92 final size:92
Alignment explanation
Indices: 13404924--13405109 Score: 354
Period size: 92 Copynumber: 2.0 Consensus size: 92
13404914 AAACTAGACC
* *
13404924 CAGGGGGAGGGGGTTCATTCCAGTAGTAAATTCCATTCACATCACAAAGTTTGTTTAAATTAAAA
1 CAGGGGGAGGGGATTCATTCCAGCAGTAAATTCCATTCACATCACAAAGTTTGTTTAAATTAAAA
13404989 ACATGATTGGATATCACTGAATCATCT
66 ACATGATTGGATATCACTGAATCATCT
13405016 CAGGGGGAGGGGATTCATTCCAGCAGTAAATTCCATTCACATCACAAAGTTTGTTTAAATTAAAA
1 CAGGGGGAGGGGATTCATTCCAGCAGTAAATTCCATTCACATCACAAAGTTTGTTTAAATTAAAA
13405081 ACATGATTGGATATCACTGAATCATCT
66 ACATGATTGGATATCACTGAATCATCT
13405108 CA
1 CA
13405110 TATATGCAAA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
92 92 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (92 bp):
CAGGGGGAGGGGATTCATTCCAGCAGTAAATTCCATTCACATCACAAAGTTTGTTTAAATTAAAA
ACATGATTGGATATCACTGAATCATCT
Found at i:13407566 original size:13 final size:13
Alignment explanation
Indices: 13407537--13407613 Score: 84
Period size: 13 Copynumber: 5.9 Consensus size: 13
13407527 ACACTTAAAT
13407537 TTTTCTAAAA-CAC
1 TTTTC-AAAAGCAC
* *
13407550 TTCTCAAAAGTAC
1 TTTTCAAAAGCAC
*
13407563 TTCTCAAAAGCAC
1 TTTTCAAAAGCAC
* *
13407576 TTTTCCACAGCAC
1 TTTTCAAAAGCAC
*
13407589 TTTTCAAAAGTAC
1 TTTTCAAAAGCAC
13407602 TTTTCAAAAGCA
1 TTTTCAAAAGCA
13407614 ATGAAGAACT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
12 4 0.08
13 49 0.92
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (13 bp):
TTTTCAAAAGCAC
Found at i:13410273 original size:99 final size:96
Alignment explanation
Indices: 13410102--13410277 Score: 253
Period size: 99 Copynumber: 1.8 Consensus size: 96
13410092 TAATGCCGAT
* * *
13410102 GCCATGTCCCAGACATGGTCTTACACTGACTCATGTCTCAAGTCGATGCCATGTCCTAGATATGG
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATATCTCAAGTCGATGCCATGTCCCAGACATGG
13410167 TCTTACACTGACTATCGTCATTGAGGCTGAC
66 TCTTACACTGACTATCGTCATTGAGGCTGAC
* * * **
13410198 GCCATGTCCCAGACATGGTCTTACACTAGTTCTCGTATAGTCGTGTCGATGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACACT-G-ACTCATAT-CTCAAGTCGATGCCATGTCCCAGACA
13410263 TGGTCTTACACTGAC
63 TGGTCTTACACTGAC
13410278 ACATCTCATA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
96 27 0.39
97 1 0.01
98 5 0.07
99 36 0.52
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (96 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATATCTCAAGTCGATGCCATGTCCCAGACATGG
TCTTACACTGACTATCGTCATTGAGGCTGAC
Found at i:13410349 original size:46 final size:44
Alignment explanation
Indices: 13410096--13410458 Score: 176
Period size: 46 Copynumber: 7.7 Consensus size: 44
13410086 AGGGTATAAT
* * *
13410096 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC-TCATGTCTCAA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCAT-T-ACGA
* * * * * * *
13410143 GTCGATGCCATGTCCTAGATATGGTCTTACACTGACTATCGTCATTGA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATTA-CGA
* * * * * *
13410191 GGCTGACGCCATGTCCCAGACATGGTCTTACACTAGTTCTCGTATAGTCGT
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-TA--CGA
* * * *
13410242 GTCGATGCCATGTCCCAGACATGGTCTTACACTGAC-ACATCT-CATA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTCAT-TAC-GA
* *
13410288 GCCGATGCATGTCCCAGACATGCCTTACACTGGCTTACCTTACGA
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATTACGA
* * *
13410333 GACCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCT-CAA
1 G-CCGATGCATGTCCCAGACATGTCTTACACTGGCT-TCAT-TACGA
* * * *
13410379 TGCCGATGTCATGTCTCAGACATGGTCTTACACTGGCTTTCATAATGTG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TTCATTACG-A
*
13410428 GCCGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
13410459 AGCTCGCGAT
Statistics
Matches: 247, Mismatches: 50, Indels: 39
0.74 0.15 0.12
Matches are distributed among these distances:
44 11 0.04
45 18 0.07
46 61 0.25
47 61 0.25
48 26 0.11
49 37 0.15
50 31 0.13
51 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCATTACGA
Found at i:13410433 original size:94 final size:92
Alignment explanation
Indices: 13410200--13410463 Score: 277
Period size: 94 Copynumber: 2.8 Consensus size: 92
13410190 AGGCTGACGC
* * *
13410200 CATGTCCCAGACATGGTCTTACACTAG-TTCTCGTATAGTCGTGTCGATGCCATGTCCCAGACAT
1 CATGTCCCAGACATGGTCTTACACTGGCTT-TCATAT-GT-G-GCCGATG-CATGTCCCAGACAT
*
13410264 GGTCTTACACT-G-ACACATCTCATAGCCGATG
61 -GTCTTACACTAGCTCACATCTCATAGCCGATG
* * * * * *
13410295 CATGTCCCAGACAT-GCCTTACACTGGCTTACCTTACGAGACCGATGCATGTCCCAGACATGTCT
1 CATGTCCCAGACATGGTCTTACACTGGCTT-TCATATGTGGCCGATGCATGTCCCAGACATGTCT
* *
13410359 TACACTAGCTCTCGTCTCA-ATGCCGATG
65 TACACTAGCTCACATCTCATA-GCCGATG
* *
13410387 TCATGTCTCAGACATGGTCTTACACTGGCTTTCATAATGTGGCCGATGCATGTCCTAGACATGTC
1 -CATGTCCCAGACATGGTCTTACACTGGCTTTCAT-ATGTGGCCGATGCATGTCCCAGACATGTC
13410452 TTACACTAGCTC
64 TTACACTAGCTC
13410464 GCGATAACCC
Statistics
Matches: 142, Mismatches: 20, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
90 10 0.07
91 16 0.11
92 19 0.13
93 16 0.11
94 62 0.44
95 19 0.13
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (92 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTTCATATGTGGCCGATGCATGTCCCAGACATGTCTT
ACACTAGCTCACATCTCATAGCCGATG
Found at i:13410455 original size:140 final size:139
Alignment explanation
Indices: 13410089--13410458 Score: 347
Period size: 140 Copynumber: 2.6 Consensus size: 139
13410079 CAAACATAGG
* * *
13410089 GTATA-ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATGTC-TCAAGTCGATGCC
1 GTATACATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCAT--AGCCGATG-C
* * * * * * * * * *
13410152 ATGTCCTAGATATGGTCTTACACTGAC-TATCGTCATTGAGGCTGACGCCATGTCCCAGACATGG
63 ATGTCCCAGACAT-GCCTTACACTGGCTTA-CCTTA-CGAGACCGATG-CATGTCCCAGACATGG
*
13410216 TCTTACACTAGTTCTC
124 TCTTACACTAGCTCTC
* * *
13410232 GTATAGTCGTGTCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTCATAGCCGATGCA
1 GTATA--CATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCATAGCCGATGCA
13410297 TGTCCCAGACATGCCTTACACTGGCTTACCTTACGAGACCGATGCATGTCCCAGACAT-GTCTTA
64 TGTCCCAGACATGCCTTACACTGGCTTACCTTACGAGACCGATGCATGTCCCAGACATGGTCTTA
13410361 CACTAGCTCTC
129 CACTAGCTCTC
* * * * * * *
13410372 GTCT-CAATGCCGATGTCATGTCTCAGACATGGTCTTACACTGGCTTTCATAAT-GTGGCCGATG
1 GTATAC-ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACAT-ATCATAGCCGATG
* *
13410435 CATGTCCTAGACATGTCTTACACT
62 CATGTCCCAGACATGCCTTACACT
13410459 AGCTCGCGAT
Statistics
Matches: 190, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
137 1 0.01
138 33 0.17
140 52 0.27
141 15 0.08
142 7 0.04
143 19 0.10
144 14 0.07
145 7 0.04
146 41 0.22
147 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (139 bp):
GTATACATGCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATCATAGCCGATGCATG
TCCCAGACATGCCTTACACTGGCTTACCTTACGAGACCGATGCATGTCCCAGACATGGTCTTACA
CTAGCTCTC
Found at i:13418697 original size:20 final size:21
Alignment explanation
Indices: 13418671--13418717 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
13418661 ATTTTGATAT
13418671 ACATGATTA-ATATGATATGC
1 ACATGATTATATATGATATGC
* *
13418691 TCATGA-TATGTATGATATGC
1 ACATGATTATATATGATATGC
13418711 ACATGAT
1 ACATGAT
13418718 GTATTCATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (21 bp):
ACATGATTATATATGATATGC
Found at i:13418845 original size:53 final size:51
Alignment explanation
Indices: 13418767--13418880 Score: 192
Period size: 53 Copynumber: 2.2 Consensus size: 51
13418757 GAGGAAGTGA
*
13418767 AAAAGGGCTTATGCCCCAGTTTATTGTAAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG-AAAAGGGCTT-TGCCCCAGTTTATCG
*
13418820 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGGCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTATCG
13418871 AAAAGGGCTT
1 AAAAGGGCTT
13418881 TCCCCTAGTT
Statistics
Matches: 59, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
51 23 0.39
52 10 0.17
53 26 0.44
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTATCG
Found at i:13418890 original size:25 final size:26
Alignment explanation
Indices: 13418767--13418880 Score: 194
Period size: 26 Copynumber: 4.4 Consensus size: 26
13418757 GAGGAAGTGA
13418767 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
13418793 TAAAAGGGCTTATGCCCCAGTTTATTG
1 -AAAAGGGCTTATGCCCCAGTTTATTG
13418820 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
13418846 AAAAGGGCTT-TGGCCCAGTTTATCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
13418871 AAAAGGGCTT
1 AAAAGGGCTT
13418881 TCCCCTAGTT
Statistics
Matches: 85, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
25 23 0.27
26 36 0.42
27 26 0.31
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:13424032 original size:39 final size:39
Alignment explanation
Indices: 13423970--13424131 Score: 195
Period size: 39 Copynumber: 4.2 Consensus size: 39
13423960 CAGTGATGTT
*
13423970 TATCCGGACTT-AGAGTCCACAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAG-GTCCGCAGGCTATGTGCTGGAATTA
13424009 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * *
13424048 TAACCGGACTTAAGGTCCGCAGGCTCTGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
* * * * * *
13424087 TGTCCGGGC-TAAAGTCCCGCAGGCTTTGAGCTGGTATTA
1 TATCCGGACTTAAGGT-CCGCAGGCTATGTGCTGGAATTA
13424126 TA-CCGG
1 TATCCGG
13424132 GTTTAAATTC
Statistics
Matches: 108, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
38 9 0.08
39 97 0.90
40 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
Found at i:13424149 original size:78 final size:77
Alignment explanation
Indices: 13423973--13424154 Score: 188
Period size: 78 Copynumber: 2.3 Consensus size: 77
13423963 TGATGTTTAT
* * * * *
13423973 CCGGACTTAGAGTCCACAGGCTATGTGCTGGAATTATATCCGGACTTAAGGTCCGCAGGCTATGT
1 CCGGACTTAAAGTCCCCAGGCT-TGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGA
13424038 GCTGGAATTATAA
65 GCTGGAATTATAA
* * * * *
13424051 CCGGACTTAAGGTCCGCAGGCTCTGTGCTGGAAATATGTCCGGGC-TAAAGTCCCGCAGGCTTTG
1 CCGGACTTAAAGTCCCCAGGCT-TGTGCTGGAAATATATCCGGACTTAAAGT-CCGCAGGCTATG
*
13424115 AGCTGGTATTAT-A
64 AGCTGGAATTATAA
** *
13424128 CCGGGTTTAAATTCCCCCAGGCTTGTG
1 CCGGACTTAAAGT-CCCCAGGCTTGTG
13424155 TTGGTAATTG
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
77 19 0.22
78 67 0.78
ACGTcount: A:0.22, C:0.23, G:0.28, T:0.27
Consensus pattern (77 bp):
CCGGACTTAAAGTCCCCAGGCTTGTGCTGGAAATATATCCGGACTTAAAGTCCGCAGGCTATGAG
CTGGAATTATAA
Found at i:13430541 original size:19 final size:19
Alignment explanation
Indices: 13430517--13430614 Score: 164
Period size: 19 Copynumber: 5.2 Consensus size: 19
13430507 AATCTTTAAG
13430517 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13430536 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13430555 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13430572 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13430591 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
13430612 GAT
1 GAT
13430615 CTTGTAATCT
Statistics
Matches: 75, Mismatches: 0, Indels: 6
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.23
19 49 0.65
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13430547 original size:36 final size:35
Alignment explanation
Indices: 13430507--13430614 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 35
13430497 ATGGAAATAT
13430507 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
13430543 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
13430579 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
13430615 CTTGTAATCT
Statistics
Matches: 61, Mismatches: 1, Indels: 16
0.78 0.01 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 28 0.46
37 1 0.02
38 7 0.11
40 10 0.16
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:13430723 original size:13 final size:13
Alignment explanation
Indices: 13430705--13430730 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13430695 GGAGGCTCAA
13430705 CTATAAATAGAGG
1 CTATAAATAGAGG
13430718 CTATAAATAGAGG
1 CTATAAATAGAGG
13430731 ACTCCCCCTT
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:0.46, C:0.08, G:0.23, T:0.23
Consensus pattern (13 bp):
CTATAAATAGAGG
Found at i:13437358 original size:1 final size:1
Alignment explanation
Indices: 13437352--13437436 Score: 62
Period size: 1 Copynumber: 85.0 Consensus size: 1
13437342 CTTCTATTTC
** * * * * * * * *
13437352 AAAAAAAAAAGGAAAAAAAGAAAAGAAAAAGATAAAAAAATAAAAAGAAAAAAAAAGAAAAAAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
13437417 AAAAAAAGAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAA
13437437 TGGAGAGGCC
Statistics
Matches: 62, Mismatches: 22, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.04
Consensus pattern (1 bp):
A
Found at i:13437369 original size:8 final size:8
Alignment explanation
Indices: 13437355--13437436 Score: 75
Period size: 8 Copynumber: 10.6 Consensus size: 8
13437345 CTATTTCAAA
13437355 AAAAAAAGG
1 AAAAAAA-G
13437364 AAAAAAAG
1 AAAAAAAG
13437372 ---AAAAG
1 AAAAAAAG
* *
13437377 AAAAAGAT
1 AAAAAAAG
*
13437385 AAAAAAAT
1 AAAAAAAG
13437393 AAAAAGAA-
1 AAAAA-AAG
13437401 AAAAAAAG
1 AAAAAAAG
*
13437409 AAAAAAAT
1 AAAAAAAG
13437417 AAAAAAAG
1 AAAAAAAG
13437425 -AAAAAAG
1 AAAAAAAG
13437432 AAAAA
1 AAAAA
13437437 TGGAGAGGCC
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
5 5 0.08
7 9 0.15
8 39 0.63
9 9 0.15
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (8 bp):
AAAAAAAG
Found at i:13437389 original size:32 final size:32
Alignment explanation
Indices: 13437366--13437436 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
13437356 AAAAAAGGAA
*
13437366 AAAAAGAAAAGAAAAAGATAAAAAAATAAAAAG
1 AAAAA-AAAAGAAAAAAATAAAAAAATAAAAAG
*
13437399 AAAAAAAAAGAAAAAAATAAAAAAAGAAAAAAG
1 AAAAAAAAAGAAAAAAATAAAAAAA-TAAAAAG
13437432 AAAAA
1 AAAAA
13437437 TGGAGAGGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
32 19 0.54
33 16 0.46
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.04
Consensus pattern (32 bp):
AAAAAAAAAGAAAAAAATAAAAAAATAAAAAG
Found at i:13437396 original size:26 final size:25
Alignment explanation
Indices: 13437366--13437436 Score: 94
Period size: 23 Copynumber: 2.9 Consensus size: 25
13437356 AAAAAAGGAA
13437366 AAAAAGAAAAGAAAAAGATAAAAAAAT
1 AAAAAGAAAAGAAAAAG--AAAAAAAT
13437393 AAAAAGAAAA-AAAAAGAAAAAAAT
1 AAAAAGAAAAGAAAAAGAAAAAAAT
*
13437417 AAAAA-AAGA-AAAAAGAAAAA
1 AAAAAGAAAAGAAAAAGAAAAA
13437437 TGGAGAGGCC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
23 14 0.33
24 13 0.30
26 6 0.14
27 10 0.23
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.04
Consensus pattern (25 bp):
AAAAAGAAAAGAAAAAGAAAAAAAT
Found at i:13437430 original size:16 final size:15
Alignment explanation
Indices: 13437352--13437436 Score: 91
Period size: 16 Copynumber: 5.5 Consensus size: 15
13437342 CTTCTATTTC
*
13437352 AAAAAAAAAAG-GAA
1 AAAAAAAAAAGAAAA
*
13437366 AAAAAGAAAAGAAAA
1 AAAAAAAAAAGAAAA
* *
13437381 AGATAAAAAAATAAAA
1 A-AAAAAAAAAGAAAA
13437397 AGAAAAAAAAAGAAAA
1 A-AAAAAAAAAGAAAA
13437413 AAATAAAAAAAGAAAA
1 AAA-AAAAAAAGAAAA
13437429 AAGAAAAA
1 AA-AAAAA
13437437 TGGAGAGGCC
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
14 10 0.17
15 5 0.08
16 44 0.73
17 1 0.02
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.04
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:13437430 original size:33 final size:33
Alignment explanation
Indices: 13437352--13437436 Score: 111
Period size: 33 Copynumber: 2.6 Consensus size: 33
13437342 CTTCTATTTC
* *
13437352 AAAAAAAAAAGGAA-AAAAAGAAAAGAAAAAGAT
1 AAAAAAAAAA-AAAGAAAAAGAAAAGAAAAAAAT
*
13437385 AAAAAAATAAAAAGAAAAA-AAAAGAAAAAAAT
1 AAAAAAAAAAAAAGAAAAAGAAAAGAAAAAAAT
13437417 AAAAAAAGAAAAAAGAAAAA
1 AAAAAAA-AAAAAAGAAAAA
13437437 TGGAGAGGCC
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
32 21 0.46
33 25 0.54
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.04
Consensus pattern (33 bp):
AAAAAAAAAAAAAGAAAAAGAAAAGAAAAAAAT
Found at i:13438387 original size:44 final size:43
Alignment explanation
Indices: 13438334--13438493 Score: 146
Period size: 44 Copynumber: 3.6 Consensus size: 43
13438324 ACAAGATTTT
13438334 GCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTG
1 GCAT-CCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTG
* * * * **
13438378 ACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG--CATG
1 GCA-TCCTGTGTTTATAGGGAA-CAGATCGAAGATAGCAGATC-TG
* * *
13438422 GCATCCTTGTGTTTATAGGGAGCA-AGTTGAAGATAGCAGATTTG
1 GCATCC-TGTGTTTATAGGGAACAGA-TCGAAGATAGCAGATCTG
*
13438466 GCACCCCTGTGTTTATAGGGAACAGATC
1 GCA-TCCTGTGTTTATAGGGAACAGATC
13438494 TGACACTCCT
Statistics
Matches: 89, Mismatches: 18, Indels: 18
0.71 0.14 0.14
Matches are distributed among these distances:
42 1 0.01
43 16 0.18
44 53 0.60
45 19 0.21
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (43 bp):
GCATCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTG
Found at i:13438578 original size:118 final size:118
Alignment explanation
Indices: 13438370--13438586 Score: 380
Period size: 118 Copynumber: 1.8 Consensus size: 118
13438360 TCGAAGATAG
* *
13438370 CAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGTT
1 CAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGTT
* *
13438435 TATAGGGAGCAAGTTGAAGATAGCAGATTTGGCACCCCTGTGTTTATAGGGAA
66 TATAGGGAACAAATTGAAGATAGCAGATTTGGCACCCCTGTGTTTATAGGGAA
* *
13438488 CAGATCTGACACTCCTGTGCTTATAGCGAAGCAGATCGAGGATTTCAGCATGGCATCCTTGTGTT
1 CAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGTT
13438553 TATAGGGAACAAATTGAAGATAGCAGATTTGGCA
66 TATAGGGAACAAATTGAAGATAGCAGATTTGGCA
13438587 TCTTTGTATT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
118 93 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (118 bp):
CAGATCTGACACTCCTGTGCTTACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCTTGTGTT
TATAGGGAACAAATTGAAGATAGCAGATTTGGCACCCCTGTGTTTATAGGGAA
Found at i:13438587 original size:44 final size:45
Alignment explanation
Indices: 13438538--13438640 Score: 106
Period size: 44 Copynumber: 2.4 Consensus size: 45
13438528 GATTTCAGCA
* * *
13438538 TGGCATCCTTGTGT-TTAT-AGGGAACAAATTGAAGATAGCAGATT
1 TGGCATCCTT-TGTATTATCAGAGAACAAATCGAAGATACCAGATT
* * *
13438582 TGGCAT-CTTTGTATTGTCAGAGAGCAGATCGAAGATACCAGATT
1 TGGCATCCTTTGTATTATCAGAGAACAAATCGAAGATACCAGATT
*
13438626 TGGCAT-CTCTGTATT
1 TGGCATCCTTTGTATT
13438641 GGCGGAGAGT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 3 0.06
43 6 0.12
44 41 0.82
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (45 bp):
TGGCATCCTTTGTATTATCAGAGAACAAATCGAAGATACCAGATT
Found at i:13438641 original size:44 final size:44
Alignment explanation
Indices: 13438568--13438660 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
13438558 GGAACAAATT
* * *
13438568 GAAGATAGCAGATTTGGCATCTTTGTATTGTCAGAGAGCAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
* *
13438612 GAAGATACCAGATTTGGCATCTCTGTATTGGCGGAGAGTAGATC
1 GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
13438656 GAAGA
1 GAAGA
13438661 CATAGCTGAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (44 bp):
GAAGATACCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATC
Found at i:13439037 original size:205 final size:205
Alignment explanation
Indices: 13438685--13439349 Score: 1197
Period size: 205 Copynumber: 3.2 Consensus size: 205
13438675 CTTTCACGTG
13438685 CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
1 CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
*
13438750 TCGATGGAGGGCAGGCACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
66 TCGATGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
*
13438815 GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAATACATAGCTGATTTGGCTTTCACGTGCT
131 GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
13438880 TACGTTGAAA
196 TACGTTGAAA
13438890 CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
1 CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
* *
13438955 TCGACGGAGGGCAGACACATAGCAGATCCAAACTTCAGATGTTTATACTGAAGTAGATCCAAGAT
66 TCGATGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
* *
13439020 GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTAATTTGGCTTTCACGTGCT
131 GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
*
13439085 TACGTTGAAG
196 TACGTTGAAA
*
13439095 CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACT
1 CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
**
13439160 TCGATGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAACAGATCCAAGAT
66 TCGATGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
*
13439225 GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTAGCTTTCACGTGCT
131 GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
13439290 TACGTT-AAA
196 TACGTTGAAA
* *
13439299 GCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGGGAACAAATTGAAG
1 -CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
13439350 AAGCAGATTT
Statistics
Matches: 440, Mismatches: 19, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
204 2 0.00
205 438 1.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (205 bp):
CAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACT
TCGATGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGAT
GGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGTTGAAA
Found at i:13439486 original size:45 final size:45
Alignment explanation
Indices: 13439406--13439515 Score: 159
Period size: 45 Copynumber: 2.5 Consensus size: 45
13439396 GTTTGCAAAA
* * *
13439406 AGCAGATTGAAGA-AGCAAATTTGGCGTCTTTGTATTAGACGGGG
1 AGCAGATTGAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGG
*
13439450 AGCAGATTGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATTGAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGG
**
13439495 AGCAGATCAAAGATAGCAGAT
1 AGCAGATTGAAGATAGCAGAT
13439516 ATCGCCTTCT
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
44 13 0.22
45 45 0.78
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.25
Consensus pattern (45 bp):
AGCAGATTGAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGG
Found at i:13439895 original size:19 final size:19
Alignment explanation
Indices: 13439871--13439968 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
13439861 AATCTTTAAG
13439871 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13439890 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
13439909 GATA--CAATCTTATATAT
1 GATATGCAATCTTAGATAT
13439926 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
13439945 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
13439966 GAT
1 GAT
13439969 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
21 9 0.12
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:13439901 original size:36 final size:35
Alignment explanation
Indices: 13439861--13439968 Score: 103
Period size: 36 Copynumber: 2.9 Consensus size: 35
13439851 ATGGAAATAT
13439861 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATGC
*
13439897 AATC-TT-AGATATGATACAATCTTATATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATGC
*
13439933 AATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 AATCTT---TAAGATATGCAATCTT--AGATATGAT
13439969 CTTGTAATCT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
33 6 0.10
34 1 0.02
35 2 0.03
36 27 0.46
37 1 0.02
38 7 0.12
40 9 0.15
41 6 0.10
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATGC
Found at i:13447591 original size:19 final size:20
Alignment explanation
Indices: 13447567--13447605 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
13447557 TGTGCTAGTG
13447567 TAAGA-CATGTCTGGGACAT
1 TAAGACCATGTCTGGGACAT
13447586 TAAGACCATGTCTGGGACAT
1 TAAGACCATGTCTGGGACAT
13447606 GCATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (20 bp):
TAAGACCATGTCTGGGACAT
Found at i:13447650 original size:45 final size:47
Alignment explanation
Indices: 13447586--13447705 Score: 156
Period size: 48 Copynumber: 2.6 Consensus size: 47
13447576 TCTGGGACAT
*
13447586 TAAGACCATGTCTGGGACAT-GCATCGAC-TACAAAATGT-GTCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATA-AAAATGTCGCCAGTG
* * *
13447631 TAAGACCATGTCTGGGACATGGCATCGGCATAGATATGTGCGCCAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATAAAAATGT-CGCCAGTG
*
13447679 TAAGACCATGTTTGGGACATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
13447706 GCATTATGTC
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
45 20 0.30
46 12 0.18
47 2 0.03
48 32 0.48
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGACATAAAAATGTCGCCAGTG
Found at i:13454410 original size:13 final size:13
Alignment explanation
Indices: 13454392--13454437 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
13454382 TAACTCATCC
13454392 TATTTTTTATTAT
1 TATTTTTTATTAT
13454405 TATTTTTTATTAT
1 TATTTTTTATTAT
*
13454418 TTTTATTTTATT-T
1 TATT-TTTTATTAT
13454431 TATTTTT
1 TATTTTT
13454438 CTTTTGATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 3 0.10
13 20 0.67
14 7 0.23
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TATTTTTTATTAT
Found at i:13454414 original size:10 final size:9
Alignment explanation
Indices: 13454392--13454437 Score: 56
Period size: 10 Copynumber: 4.8 Consensus size: 9
13454382 TAACTCATCC
13454392 TATTTTTTAT
1 TATTTTTT-T
13454402 TATTATTTTT
1 TATT-TTTTT
*
13454412 TATTATTTT
1 TATTTTTTT
13454421 TATTTTATTT
1 TATTTT-TTT
13454431 TATTTTT
1 TATTTTT
13454438 CTTTTGATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 10 0.31
10 18 0.56
11 4 0.12
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TATTTTTTT
Found at i:13454423 original size:6 final size:6
Alignment explanation
Indices: 13454395--13454454 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
13454385 CTCATCCTAT
* * *
13454395 TTTTTA TTATTA -TTTT- TTATTA TTTTTA -TTTTA -TTTTA TTTTTC
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
13454439 TTTTGA TTTTTA TTTT
1 TTTTTA TTTTTA TTTT
13454455 CAGTTCAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
5 16 0.37
6 27 0.63
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:13454423 original size:16 final size:15
Alignment explanation
Indices: 13454394--13454442 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
13454384 ACTCATCCTA
*
13454394 TTTTTTATTATTATT
1 TTTTTTATTTTTATT
13454409 TTTTATTATTTTTATT
1 TTTT-TTATTTTTATT
*
13454425 TTATTTTATTTTTCTT
1 TT-TTTTATTTTTATT
13454441 TT
1 TT
13454443 GATTTTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 4 0.13
16 24 0.80
17 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTATTTTTATT
Found at i:13454449 original size:12 final size:11
Alignment explanation
Indices: 13454396--13454454 Score: 59
Period size: 11 Copynumber: 5.4 Consensus size: 11
13454386 TCATCCTATT
*
13454396 TTTTATTATTA
1 TTTTATTTTTA
*
13454407 TTTT-TTATTA
1 TTTTATTTTTA
13454417 TTTT-TATTTTA
1 TTTTAT-TTTTA
*
13454428 TTTTATTTTTC
1 TTTTATTTTTA
13454439 TTTTGATTTTTA
1 TTTT-ATTTTTA
13454451 TTTT
1 TTTT
13454455 CAGTTCAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
10 11 0.26
11 20 0.48
12 11 0.26
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:13461661 original size:14 final size:15
Alignment explanation
Indices: 13461629--13461661 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
13461619 TACGTGATAT
13461629 CATGGTGATTGACAA
1 CATGGTGATTGACAA
13461644 CATGGTGATTGA-AA
1 CATGGTGATTGACAA
13461658 CATG
1 CATG
13461662 AATTTTGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.33, C:0.12, G:0.27, T:0.27
Consensus pattern (15 bp):
CATGGTGATTGACAA
Found at i:13462252 original size:30 final size:30
Alignment explanation
Indices: 13462207--13462268 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
13462197 TTTGGGGTAT
*
13462207 CACAATTTCGAAAATTTCAACATCCATGGC
1 CACAATTTCAAAAATTTCAACATCCATGGC
* *
13462237 CACAGTTTCAAAAATTTCGACATCCATGGC
1 CACAATTTCAAAAATTTCAACATCCATGGC
13462267 CA
1 CA
13462269 ATCTTAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.26
Consensus pattern (30 bp):
CACAATTTCAAAAATTTCAACATCCATGGC
Found at i:13462948 original size:12 final size:12
Alignment explanation
Indices: 13462931--13462956 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13462921 AAACCAAAGT
13462931 CATAAATAAAAC
1 CATAAATAAAAC
13462943 CATAAATAAAAC
1 CATAAATAAAAC
13462955 CA
1 CA
13462957 ACAGTTTACA
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:0.65, C:0.19, G:0.00, T:0.15
Consensus pattern (12 bp):
CATAAATAAAAC
Found at i:13463827 original size:12 final size:12
Alignment explanation
Indices: 13463810--13463839 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
13463800 TCGTGTCTCA
13463810 CACACGGCCAGC
1 CACACGGCCAGC
*
13463822 CACACGGCCAGG
1 CACACGGCCAGC
13463834 CACACG
1 CACACG
13463840 CCCGTGTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.27, C:0.47, G:0.27, T:0.00
Consensus pattern (12 bp):
CACACGGCCAGC
Found at i:13465974 original size:22 final size:22
Alignment explanation
Indices: 13465941--13465997 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
13465931 TGCAGGGGTC
*
13465941 ACACACCCGTGTGGT-CAAAGGG
1 ACACGCCCGTGTGGTCCAAA-GG
* *
13465963 ACATGCCTGTGTGGTCCAAAGG
1 ACACGCCCGTGTGGTCCAAAGG
13465985 ACACGCCCGTGTG
1 ACACGCCCGTGTG
13465998 ACCTTGGGAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 25 0.86
23 4 0.14
ACGTcount: A:0.23, C:0.28, G:0.32, T:0.18
Consensus pattern (22 bp):
ACACGCCCGTGTGGTCCAAAGG
Found at i:13467740 original size:20 final size:20
Alignment explanation
Indices: 13467715--13467760 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
13467705 CAGCACATGA
* *
13467715 TTTCATAAAATTTTAGAATT
1 TTTCATAAAATTTTACAACT
*
13467735 TTTCATCAAATTTTACAACT
1 TTTCATAAAATTTTACAACT
13467755 TTTCAT
1 TTTCAT
13467761 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.35, C:0.13, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTCATAAAATTTTACAACT
Found at i:13476640 original size:13 final size:13
Alignment explanation
Indices: 13476618--13476650 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13476608 AAGGGTTTAT
13476618 TTAT-TAAACTAA
1 TTATCTAAACTAA
13476630 TTATCTAAACTAA
1 TTATCTAAACTAA
*
13476643 TTAACTAA
1 TTATCTAA
13476651 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:13478753 original size:37 final size:37
Alignment explanation
Indices: 13478703--13478782 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
13478693 CTTATTACGA
* *
13478703 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
13478740 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
13478777 GGTCTT
1 AGTCTT
13478783 TAGAGTCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:13478972 original size:47 final size:47
Alignment explanation
Indices: 13478913--13479163 Score: 337
Period size: 47 Copynumber: 5.4 Consensus size: 47
13478903 TATCACATTT
* *
13478913 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
* * *
13478958 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
* * *
13479005 ATACACCTGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
*
13479052 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAT
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
** * *
13479099 ATATGCATGTTCACATTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCTCAC
*
13479147 ATATACACT-TTCACATT
1 ATACACA-TGTTCACATT
13479164 TATTCAATTA
Statistics
Matches: 183, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
45 6 0.03
46 1 0.01
47 157 0.86
48 18 0.10
49 1 0.01
ACGTcount: A:0.26, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCAC
Found at i:13479202 original size:94 final size:93
Alignment explanation
Indices: 13478920--13479193 Score: 250
Period size: 94 Copynumber: 2.9 Consensus size: 93
13478910 TTTATACACT
* * * * * *
13478920 TTCACATTCATCACATCGGCCATTAGGCCTTATCTCACATACACATGCTCACATTCATCACATTG
1 TTCACATTCATCACATTGGCCATTCGGCCCTATCACACATACACATGTTCACATTCATCACATTA
* * * * * * ** *
13478985 GCCACTCGGCCTTATCACACATACACCTG
66 GACATTC-GACATACCACATATATGCATG
* * *
13479014 TTCACTTTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACATTG
1 TTCACATTCATCACATTGGCCATTCGGCCCTATCACACATACACATGTTCACATTCATCACATTA
* * * * *
13479079 GCCATTCGGCCTTATCTCATATATGCATG
66 GACATTC-GACATACCACATATATGCATG
* *
13479108 TTCACATTCATCACATTGGCCATTCGGCCCTATTCACACATATACACT-TTCACATTTATTCA-A
1 TTCACATTCATCACATTGGCCATTCGGCCCTA-TCACACATACACA-TGTTCACATTCA-TCACA
13479171 TTAGAC-TTC-ACATACCACATATA
63 TTAGACATTCGACATACCACATATA
13479194 CTATCATGTA
Statistics
Matches: 156, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
92 10 0.06
94 116 0.74
95 26 0.17
96 4 0.03
ACGTcount: A:0.27, C:0.31, G:0.09, T:0.32
Consensus pattern (93 bp):
TTCACATTCATCACATTGGCCATTCGGCCCTATCACACATACACATGTTCACATTCATCACATTA
GACATTCGACATACCACATATATGCATG
Found at i:13479202 original size:141 final size:140
Alignment explanation
Indices: 13478913--13479194 Score: 335
Period size: 141 Copynumber: 2.0 Consensus size: 140
13478903 TATCACATTT
13478913 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCACATACACATGCTCACATTC
1 ATACACATGTTCACATTCATCACATCGGCCATTAGGCCTTATCTCACATACACATGCTCACATTC
* * *
13478976 ATCACATTGGCCACTCGGCCTTATCACACATACACCTGTTCACTTTCATCACATTGGCCATTCGG
66 ATCACATTGGCCACTCGGCCCTATCACACATACACCTGTTCACTTTCATCACATTAGACATTC-G
* * *
13479041 CCTTATCACAC
130 ACATACCACAC
* * * ** *
13479052 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTC
1 ATACACATGTTCACATTCATCACATCGGCCATTAGGCCTTATCTCACATACACATGCTCACATTC
* *
13479117 ATCACATTGGCCATTCGGCCCTATTCACACATATACACT-TTCACATTT-ATTCA-ATTAGAC-T
66 ATCACATTGGCCACTCGGCCCTA-TCACACATACAC-CTGTTCAC-TTTCA-TCACATTAGACAT
*
13479178 TC-ACATACCACAT
127 TCGACATACCACAC
13479191 ATAC
1 ATAC
13479195 TATCATGTAC
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
139 17 0.14
140 1 0.01
141 74 0.61
142 22 0.18
143 8 0.07
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (140 bp):
ATACACATGTTCACATTCATCACATCGGCCATTAGGCCTTATCTCACATACACATGCTCACATTC
ATCACATTGGCCACTCGGCCCTATCACACATACACCTGTTCACTTTCATCACATTAGACATTCGA
CATACCACAC
Found at i:13501027 original size:20 final size:20
Alignment explanation
Indices: 13500985--13501030 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
13500975 CAGCACATGA
*
13500985 TTTCATAAAATTTTAGAATT
1 TTTCATAAAATTTTAGAACT
*
13501005 TTTCATCAAATTTT-GAAACT
1 TTTCATAAAATTTTAG-AACT
13501025 TTTCAT
1 TTTCAT
13501031 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTCATAAAATTTTAGAACT
Found at i:13512870 original size:30 final size:30
Alignment explanation
Indices: 13512829--13512887 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
13512819 AAGAGAAAGA
*
13512829 AAAAGTAAATT-AATTAGTAATAAAAATAAT
1 AAAAGTAAATTAAATT-GCAATAAAAATAAT
*
13512859 AAAATTAAATTAAATTGCAATAAAAATAA
1 AAAAGTAAATTAAATTGCAATAAAAATAA
13512888 ATGACTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (30 bp):
AAAAGTAAATTAAATTGCAATAAAAATAAT
Found at i:13536267 original size:21 final size:22
Alignment explanation
Indices: 13536241--13536281 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
13536231 CTTCTTCTTC
13536241 TTTTCTTTC-TCTTCTTTTGAG
1 TTTTCTTTCTTCTTCTTTTGAG
*
13536262 TTTTCTTTCTTTTTCTTTTG
1 TTTTCTTTCTTCTTCTTTTG
13536282 TGGTTGATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.02, C:0.17, G:0.07, T:0.73
Consensus pattern (22 bp):
TTTTCTTTCTTCTTCTTTTGAG
Found at i:13540485 original size:128 final size:128
Alignment explanation
Indices: 13540252--13540640 Score: 584
Period size: 128 Copynumber: 3.0 Consensus size: 128
13540242 ATAGCAAAAT
* * *
13540252 CAAGGGGCTCCTTACTATTAGAAATAGAGAGGCATTTAATCTCCATTTCATTCATCCCTCACTCA
1 CAAGAGGCTCCTCACTATTAGAAATAGAGAGGCATTTGATCTCCATTTCATTCATCCCTCACTCA
* *
13540317 CCATCTCTTCTCCATTTTCTCTCTTATTTCACTTCCCTTTTTCCATTCTTCAATA-AGTGTTTG
66 CCATCTTTTCTCCATTTTCTCTCTTCTTTCACTTCCCTTTTTCCATTCTTCAA-AGAGTGTTTG
* * * *
13540380 CAAGAGGCTCCTCACTATTACAAATAAAGAGACATTTGATCTCTATTTCATTCATCCCTCACTCA
1 CAAGAGGCTCCTCACTATTAGAAATAGAGAGGCATTTGATCTCCATTTCATTCATCCCTCACTCA
*
13540445 CCATCTTTTCTCCATTTTCTCTCTTCTTTCACTTCCCTTTTTTCCATTCTTCAAAGTGTGTTTG
66 CCATCTTTTCTCCATTTTCTCTCTTCTTTCACTTCCC-TTTTTCCATTCTTCAAAGAGTGTTTG
*
13540509 CAA-AGAGCTCCTCACTATTAGAAATAGAGAGGCATTTGATCTCCATTTCATTCATCCCTCATTC
1 CAAGAG-GCTCCTCACTATTAGAAATAGAGAGGCATTTGATCTCCATTTCATTCATCCCTCACTC
** * * * *
13540573 AATATCTTTTCTCCCTTTTCTCTCTTCTTTCACTTTCATTTTTCTATTCTTCAAAGAGTGTTTG
65 ACCATCTTTTCTCCATTTTCTCTCTTCTTTCACTTCCCTTTTTCCATTCTTCAAAGAGTGTTTG
13540637 CAAG
1 CAAG
13540641 GCTTTGAGAG
Statistics
Matches: 235, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
128 123 0.52
129 112 0.48
ACGTcount: A:0.22, C:0.27, G:0.09, T:0.41
Consensus pattern (128 bp):
CAAGAGGCTCCTCACTATTAGAAATAGAGAGGCATTTGATCTCCATTTCATTCATCCCTCACTCA
CCATCTTTTCTCCATTTTCTCTCTTCTTTCACTTCCCTTTTTCCATTCTTCAAAGAGTGTTTG
Found at i:13546590 original size:220 final size:221
Alignment explanation
Indices: 13546178--13546591 Score: 638
Period size: 220 Copynumber: 1.9 Consensus size: 221
13546168 CTTTGATACA
* *
13546178 TGATATTCGTGATAGGTTTTAAATATTTATAATGAATCGTTCTTGAAACTAACTATTATCACGAT
1 TGATATTCGTGATAGGTTTTAAATATTTATAATGAATCGTTCTCGAAACTAACTATTATCACAAT
* * * * *
13546243 GAAGGCAAGTGTACTTATTGAACAGTAGTATAGCTTTAGCAAGACTGGATTTTCGAACCCAAAGG
66 GAAGGCAAGTGTACCTATCGAACAGTAGTATAGCTTTAGCAAGACCGGATTGTCAAACCCAAAGG
* *
13546308 AACTAAAAGTACTAGTATCAACTTTTTTTTATTATCTAGCCTAAAAAATAAAAGGGTTTTGTTTA
131 AACTAAAAGTACTAGTATCAACTTCTTTTTATTATCTAGCCTAAAAAATAAAAGGATTTTGTTTA
13546373 TCTAACTAATAAACTAAATGATCTCT
196 TCTAACTAATAAACTAAATGATCTCT
* *
13546399 TGAT-TTCGTGATAGGTTTTAAATATTTATAATTAATCGTTCTCGAAACTAACTATTATCGCAAT
1 TGATATTCGTGATAGGTTTTAAATATTTATAATGAATCGTTCTCGAAACTAACTATTATCACAAT
* *
13546463 GTAGGCAAGTGTACCTATCGAACAGTAGTATAGTTTTAGCAAGACCGGATTGTCAAACCCAAAGG
66 GAAGGCAAGTGTACCTATCGAACAGTAGTATAGCTTTAGCAAGACCGGATTGTCAAACCCAAAGG
* *
13546528 AACTAAAAGTACTAGTAAT-GACTGTCTTTTTATTATCTAGCCT-AAGAAT-AAAGAGATTTTGT
131 AACTAAAAGTACTAGT-ATCAACT-TCTTTTTATTATCTAGCCTAAAAAATAAAAG-GATTTTGT
13546590 TT
193 TT
13546592 TAATTAACTA
Statistics
Matches: 175, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
219 4 0.02
220 147 0.84
221 24 0.14
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (221 bp):
TGATATTCGTGATAGGTTTTAAATATTTATAATGAATCGTTCTCGAAACTAACTATTATCACAAT
GAAGGCAAGTGTACCTATCGAACAGTAGTATAGCTTTAGCAAGACCGGATTGTCAAACCCAAAGG
AACTAAAAGTACTAGTATCAACTTCTTTTTATTATCTAGCCTAAAAAATAAAAGGATTTTGTTTA
TCTAACTAATAAACTAAATGATCTCT
Found at i:13555132 original size:51 final size:50
Alignment explanation
Indices: 13555067--13555208 Score: 162
Period size: 51 Copynumber: 2.9 Consensus size: 50
13555057 TGTAAGGTCG
* * *
13555067 CATGTGTAGCACTAAGTGTAGGCTACTATGTGTACCTGATAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTT-GATCA
* * * * * *
13555118 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTAACGGATAA-TTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTGATCA
* *
13555167 CATGTGTAGTACTATGTGCA-GCTACTATGCGTACCAGATAAC
1 CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAAC
13555209 CTTGTCTACA
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
48 17 0.22
49 21 0.28
50 2 0.03
51 36 0.47
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAACTTGATCA
Found at i:13572123 original size:24 final size:24
Alignment explanation
Indices: 13572077--13572133 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
13572067 CACTTTTATC
13572077 TTTATTTATCTTCTTTAAGTACT-T
1 TTTATTT-TCTTCTTTAAGTACTAT
13572101 TTTATTTTCTTTCCTTTAA-TACTAT
1 TTTATTTTC-TT-CTTTAAGTACTAT
*
13572126 TTCATTTT
1 TTTATTTT
13572134 TAGGTTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.07
24 13 0.45
25 14 0.48
ACGTcount: A:0.19, C:0.14, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTATTTTCTTCTTTAAGTACTAT
Found at i:13582727 original size:43 final size:42
Alignment explanation
Indices: 13582692--13582846 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 42
13582682 TGTGTTCTCG
*
13582692 TGTAAGACCACATCTGGGACATTGGCATCGATATGTGATTACG
1 TGTAAGACCACATCTGGGACATTGGCATCGATATGTGATT-CA
** * * *
13582735 TGTAAGACCATGTCTGGGACATCGACATCG-TATTTGATTCA
1 TGTAAGACCACATCTGGGACATTGGCATCGATATGTGATTCA
* * * * *
13582776 TGTAAAACC-CTATCTAGGACAGTGGCATCGATATGTAATAGCA
1 TGTAAGACCAC-ATCTGGGACATTGGCATCGATATGTGAT-TCA
* *
13582819 TGTAACACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACATCTGGGACATTGGCAT
13582847 TGTACGATAT
Statistics
Matches: 88, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
41 23 0.26
42 14 0.16
43 50 0.57
44 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
TGTAAGACCACATCTGGGACATTGGCATCGATATGTGATTCA
Found at i:13584634 original size:48 final size:47
Alignment explanation
Indices: 13584514--13584728 Score: 222
Period size: 46 Copynumber: 4.6 Consensus size: 47
13584504 GTGATTGTGT
* * *
13584514 GCTAGTGTAAAACATGTCTGGGACATGCATCGGCCAC-A-ATATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATGA-A
* * * *
13584560 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATA-TGAA
* * * * *
13584608 GCTAGTGTAAGCCATGTCTGGGACATGCATCAGCATTGAGACA-GGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATGAA
*
13584654 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATA-GACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATG--AA
* * *
13584702 GCTAATGTAAGACCTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
13584729 GCGTCAGCTT
Statistics
Matches: 142, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
46 73 0.51
47 1 0.01
48 66 0.46
49 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATATGAA
Found at i:13584675 original size:94 final size:94
Alignment explanation
Indices: 13584558--13584728 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 94
13584548 CACAATATGA
* * *** *
13584558 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCGTCGAGATATTTAAGCTAGTGTAAG-CCA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAATGTAAGACC-
*
13584622 TGTCTGGGACATGCATCAGCATTGAGACAG
65 TATCTGGGACATGCATCAGCATTGAGACAG
* *
13584652 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGCGATAGACAAGCTAATGTAAGACCT
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAATGTAAGACCT
13584717 ATCTGGGACATG
66 ATCTGGGACATG
13584729 GCGTCAGCTT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
94 65 0.97
95 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (94 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGATAGACAAGCTAATGTAAGACCT
ATCTGGGACATGCATCAGCATTGAGACAG
Found at i:13585961 original size:22 final size:21
Alignment explanation
Indices: 13585936--13585976 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
13585926 TCGAATTGGT
*
13585936 CACACGGGCGTGTTGCCCCTCC
1 CACACGGGCATG-TGCCCCTCC
*
13585958 CACACGTGCATGTGCCCCT
1 CACACGGGCATGTGCCCCT
13585977 ATGTCTAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.12, C:0.44, G:0.24, T:0.20
Consensus pattern (21 bp):
CACACGGGCATGTGCCCCTCC
Found at i:13593089 original size:55 final size:54
Alignment explanation
Indices: 13592973--13593093 Score: 136
Period size: 55 Copynumber: 2.2 Consensus size: 54
13592963 TACCAAAACA
* *
13592973 ACACGGGCGTGTGACACGCCCGTGTGGAAGAACCAGGGGTGAACCTGTTAAAAT
1 ACACGGGCGTGTGACACGCCCGTGTGCAAGAACCAGGGCTGAACCTGTTAAAAT
* * * * * *
13593027 AGGACGGGCGTGTGACACGCCCGTGT-CTAGCACCCATGGCTGAACCTGTTAGATT
1 A-CACGGGCGTGTGACACGCCCGTGTGCAAG-AACCAGGGCTGAACCTGTTAAAAT
13593082 GACACGGGCGTG
1 -ACACGGGCGTG
13593094 GATCTACATA
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
54 3 0.05
55 51 0.93
56 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.34, T:0.18
Consensus pattern (54 bp):
ACACGGGCGTGTGACACGCCCGTGTGCAAGAACCAGGGCTGAACCTGTTAAAAT
Found at i:13595046 original size:7 final size:6
Alignment explanation
Indices: 13595000--13595045 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
13594990 TTTAATTCAA
* * * *
13595000 TTTTAT CTTTAT TTTTAT TTTTCT TTCTAC TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
13595046 TTAAGTTTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:13603976 original size:17 final size:17
Alignment explanation
Indices: 13603954--13603986 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13603944 TACATCATAA
*
13603954 TTTAATCACTATGTTCC
1 TTTAATCACGATGTTCC
13603971 TTTAATCACGATGTTC
1 TTTAATCACGATGTTC
13603987 GGAACTAATC
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:0.24, C:0.21, G:0.09, T:0.45
Consensus pattern (17 bp):
TTTAATCACGATGTTCC
Found at i:13611751 original size:49 final size:50
Alignment explanation
Indices: 13611686--13611810 Score: 164
Period size: 49 Copynumber: 2.5 Consensus size: 50
13611676 AATGCCGATG
* *
13611686 CCATGTCCCAGACATGGTCTTACACTAACTATCGAAAT-TGAG-GCCGACA
1 CCATGTCCCAGACATGGTCTTACACTAACTATC-AAATATCAGTACCGACA
* * * **
13611735 CCATGTCCCAGACATGGTCTTACACTAGCTATCACATATCCGTACCGATG
1 CCATGTCCCAGACATGGTCTTACACTAACTATCAAATATCAGTACCGACA
13611785 CCATGTCCCAGACATGGTCTTACACT
1 CCATGTCCCAGACATGGTCTTACACT
13611811 GACACATCTC
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
48 3 0.04
49 34 0.51
50 30 0.45
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACTAACTATCAAATATCAGTACCGACA
Found at i:13611865 original size:46 final size:47
Alignment explanation
Indices: 13611679--13611997 Score: 254
Period size: 46 Copynumber: 6.7 Consensus size: 47
13611669 TGGGTGTAAT
* *
13611679 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAAT-T-G-A
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCT-T--ACATCTCGTA
** *
13611727 GGCCGACACCATGTCCCAGACATGGTCTTACACTAGCTATCACATATCCGTA
1 -GCCGA-TGCATGTCCCAGACATGGTCTTACACTAGCT-T-ACATCT-CGTA
13611779 -CCGATGCCATGTCCCAGACATGGTCTTACACT-GAC--ACATCTCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTAG-CTTACATCTCGTA
*
13611824 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCG-A
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA
* * * *
13611869 GGCCGATACATGTCCCAGACAT-GTCTTACACTAG-TTCTCGTCTC-AA
1 -GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTT-ACATCTCGTA
* * * *
13611915 TGCCAATGCCATGTCCTAGACATGGTCTTACACTAGCTCT-CATAAT-GTG
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACTAGCT-TACAT-CTCGTA
13611964 GCCGATGCATGTCCCAGACAT-GTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGGTCTTACACTAGC
13611998 ACACAAATAA
Statistics
Matches: 228, Mismatches: 22, Indels: 43
0.78 0.08 0.15
Matches are distributed among these distances:
44 11 0.05
45 22 0.10
46 74 0.32
47 26 0.11
48 23 0.10
49 39 0.17
50 31 0.14
51 1 0.00
52 1 0.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTAGCTTACATCTCGTA
Found at i:13611943 original size:94 final size:94
Alignment explanation
Indices: 13611735--13612002 Score: 284
Period size: 94 Copynumber: 2.9 Consensus size: 94
13611725 GAGGCCGACA
*
13611735 CCATGTCCCAGACATGGTCTTACACTAGCTATCACATATCCGTA--CCGATGCCATGTCCCAGAC
1 CCATGTCCCAGACATGGTCTTACACTAGCTAT-ACATAT-CG-AGGCCGAT-ACATGTCCCAGAC
* *
13611798 ATGGTCTTACACT-GACACATCTCGTAGCCGATG
62 AT-GTCTTACACTAGACACATCTCATAGCCAATG
* *
13611831 -CATGTCCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCCGATACATGTCCCAGACATGT
1 CCATGTCCCAGACATGGTCTTACACTAGCTATACATATCGAGGCCGATACATGTCCCAGACATGT
* * *
13611893 CTTACACTAGTTCTCGTCTCA-ATGCCAATG
66 CTTACACTAG-ACACATCTCATA-GCCAATG
* * * *
13611923 CCATGTCCTAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCGATGCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTAGCTATACAT-ATCGAGGCCGATACATGTCCCAGACATG
13611986 TCTTACACTAGCACACA
65 TCTTACACTAG-ACACA
13612003 AATAACCCAA
Statistics
Matches: 146, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
90 11 0.08
91 18 0.12
92 22 0.15
93 14 0.10
94 65 0.45
95 16 0.11
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (94 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTATACATATCGAGGCCGATACATGTCCCAGACATGT
CTTACACTAGACACATCTCATAGCCAATG
Found at i:13611979 original size:140 final size:142
Alignment explanation
Indices: 13611679--13611995 Score: 369
Period size: 140 Copynumber: 2.2 Consensus size: 142
13611669 TGGGTGTAAT
13611679 GCCGATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATTGAGGCCGACACCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAACTATC-AAATTGAGGCCGACACCATGTCCC
** *
13611744 AGACATGGTCTTACACTAGCTATCACATATCCGTACCGATGCCATGTCCCAGACATGGTCTTACA
63 AGACATGGTCTTACACTAGCTATCACATATCAATACCAATGCCATGTCCCAGACATGGTCTTACA
*
13611809 CTGACACATCTCGTA
128 CTGACACATATCGTA
** * *
13611824 GCCGATGCATGTCCCAGACATGTCTTACACTGGCT-T-ACATCTCGAGGCCGATA-CATGTCCCA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAACTATCAAAT-T-GAGGCCGACACCATGTCCCA
* * * * *
13611886 GACAT-GTCTTACACTAG-T-TCTCGTCTCAATGCCAATGCCATGTCCTAGACATGGTCTTACAC
64 GACATGGTCTTACACTAGCTATCACATATCAATACCAATGCCATGTCCCAGACATGGTCTTACAC
* * *
13611948 TAGCTCTCATAAT-GTG
129 T-G-ACACAT-ATCGTA
13611964 GCCGATGCATGTCCCAGACATGTCTTACACTA
1 GCCGATGCATGTCCCAGACATGTCTTACACTA
13611996 GCACACAAAT
Statistics
Matches: 150, Mismatches: 17, Indels: 15
0.82 0.09 0.08
Matches are distributed among these distances:
138 37 0.25
139 2 0.01
140 52 0.35
141 16 0.11
142 10 0.07
143 12 0.08
144 14 0.09
145 7 0.05
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (142 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAACTATCAAATTGAGGCCGACACCATGTCCCAGA
CATGGTCTTACACTAGCTATCACATATCAATACCAATGCCATGTCCCAGACATGGTCTTACACTG
ACACATATCGTA
Found at i:13613753 original size:19 final size:19
Alignment explanation
Indices: 13613728--13613765 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
13613718 CGTTTACTCT
*
13613728 TTTTTTTTTCCATTTTGGCA
1 TTTTTTTGT-CATTTTGGCA
13613748 TTTTTTTGTCATTTTGGC
1 TTTTTTTGTCATTTTGGC
13613766 TCTCAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.08, C:0.13, G:0.13, T:0.66
Consensus pattern (19 bp):
TTTTTTTGTCATTTTGGCA
Found at i:13621131 original size:65 final size:65
Alignment explanation
Indices: 13621027--13621159 Score: 221
Period size: 65 Copynumber: 2.0 Consensus size: 65
13621017 TAAATAAACA
* * *
13621027 AACAAACATGATCAGAAATTTACCTATTCTGTTCAATAATAATTCTCTTCCAATTTGCAACCATT
1 AACAAACATAATCAGAAATTTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCATT
* *
13621092 AACAAACATAATCAGAAATTTACCTGTTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCGTT
1 AACAAACATAATCAGAAATTTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCATT
13621157 AAC
1 AAC
13621160 TATTAGGGGT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (65 bp):
AACAAACATAATCAGAAATTTACCTATTCTGTTCAATAATAATCCTCCTCCAATTTGCAACCATT
Found at i:13624090 original size:17 final size:19
Alignment explanation
Indices: 13624068--13624103 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
13624058 ACTTAATTGT
13624068 TTTCATCT-TCTC-CTTCA
1 TTTCATCTCTCTCTCTTCA
13624085 TTTCATCTCTCTCTCTTCA
1 TTTCATCTCTCTCTCTTCA
13624104 ATAATGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.11, C:0.36, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTCATCTCTCTCTCTTCA
Found at i:13626662 original size:13 final size:13
Alignment explanation
Indices: 13626644--13626671 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
13626634 ATATCGAATA
13626644 ATCCATTAAACAC
1 ATCCATTAAACAC
13626657 ATCCATTAAACAC
1 ATCCATTAAACAC
13626670 AT
1 AT
13626672 ACTTATTTAG
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:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (13 bp):
ATCCATTAAACAC
Found at i:13640450 original size:18 final size:19
Alignment explanation
Indices: 13640422--13640457 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
13640412 AAATAATAGT
13640422 AAAAATATAATAAAATAAA
1 AAAAATATAATAAAATAAA
13640441 AAAAAT-TAATAAAATAA
1 AAAAATATAATAAAATAA
13640458 TAAGAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATATAATAAAATAAA
Found at i:13641032 original size:19 final size:19
Alignment explanation
Indices: 13640982--13641034 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
13640972 AATTTCAAAA
*
13640982 AAAAAAACAAAAAGAATTAT
1 AAAAATACAAAAA-AATTAT
* ** *
13641002 AAATATTTAAAAAAGTTAT
1 AAAAATACAAAAAAATTAT
13641021 AAAAATACAAAAAA
1 AAAAATACAAAAAA
13641035 TTCCCAAAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.72, C:0.04, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAAATACAAAAAAATTAT
Found at i:13644168 original size:9 final size:9
Alignment explanation
Indices: 13644154--13644183 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
13644144 TCTTCCCTAC
13644154 ATTCTTGAA
1 ATTCTTGAA
13644163 ATTCTTGAA
1 ATTCTTGAA
13644172 ATTCTTGAA
1 ATTCTTGAA
13644181 ATT
1 ATT
13644184 AAAGGCGAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (9 bp):
ATTCTTGAA
Found at i:13646533 original size:44 final size:44
Alignment explanation
Indices: 13646391--13646549 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 44
13646381 AGCTCGTACA
* * *
13646391 ATGCCAACGTCCTAGACGTGGTCTTACATGT-AATCA-AATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCG
** * * *
13646434 ATGCCATTGTCCTAGAAAGGGTCTTACACG-AAAT--CAAATACG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCACAAAT-CG
*
13646476 ATGCCAAAGTCCCAGACATGGTCTTACACGTAAATCACAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCACAAATCG
* *
13646520 ATGCCAACTTCCCAGACGTGGTCTTACACG
1 ATGCCAACGTCCCAGACATGGTCTTACACG
13646550 GTAACACATA
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 2 0.02
42 29 0.30
43 31 0.32
44 29 0.30
45 5 0.05
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAAATCACAAATCG
Found at i:13646543 original size:86 final size:85
Alignment explanation
Indices: 13646391--13646549 Score: 198
Period size: 86 Copynumber: 1.9 Consensus size: 85
13646381 AGCTCGTACA
* * * * * *
13646391 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCGATGCCATTGTCCTAGAAAGGGT
1 ATGCCAAAGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGAAAGGGT
13646456 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
*
13646476 ATGCCAAAGTCCCAGACATGGTCTTACACGTAAATCACAA-ATCGATGCCAACT-TCCCAG-ACG
1 ATGCCAAAGTCCCAGACATGGTCTTACACGT-AATCA-AATATCGATGCC-ACTGTCCCAGAAAG
13646538 TGGTCTTACACG
63 -GGTCTTACACG
13646550 GTAACACATA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
85 29 0.46
86 30 0.48
87 4 0.06
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (85 bp):
ATGCCAAAGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGAAAGGGT
CTTACACGAAATCAAATACG
Found at i:13654107 original size:15 final size:15
Alignment explanation
Indices: 13654087--13654124 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
13654077 ACTAACCATT
* *
13654087 AATTCAATTAATTAA
1 AATTCAATAAAATAA
13654102 AATTC-ATAAAATAA
1 AATTCAATAAAATAA
13654116 AATTCAATA
1 AATTCAATA
13654125 TAAAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (15 bp):
AATTCAATAAAATAA
Found at i:13660338 original size:16 final size:16
Alignment explanation
Indices: 13660309--13660343 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13660299 TTTTAAAAAC
* *
13660309 TTTTATAATGCTAATA
1 TTTTAAAATACTAATA
13660325 TTTTAAAATACTAATA
1 TTTTAAAATACTAATA
13660341 TTT
1 TTT
13660344 ATGATTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.51
Consensus pattern (16 bp):
TTTTAAAATACTAATA
Found at i:13660427 original size:16 final size:17
Alignment explanation
Indices: 13660396--13660429 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13660386 TCAAAAGGAA
*
13660396 AAAATGATATTAAAAAT
1 AAAATAATATTAAAAAT
13660413 AAAATAATA-TAAAAAT
1 AAAATAATATTAAAAAT
13660429 A
1 A
13660430 TATCAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (17 bp):
AAAATAATATTAAAAAT
Found at i:13682565 original size:28 final size:27
Alignment explanation
Indices: 13682501--13682649 Score: 226
Period size: 27 Copynumber: 5.4 Consensus size: 27
13682491 TTATTAAGTC
* *
13682501 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
13682528 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
13682556 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
13682583 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
13682611 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
13682638 CGCACACTTAGT
1 CGCACACTTAGT
13682650 ACTGCACAAT
Statistics
Matches: 115, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 63 0.55
28 52 0.45
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:13682585 original size:55 final size:55
Alignment explanation
Indices: 13682501--13682677 Score: 237
Period size: 55 Copynumber: 3.2 Consensus size: 55
13682491 TTATTAAGTC
* * *
13682501 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
13682556 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * * *
13682611 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTACTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
13682667 CGCACACTTAG
1 CGCACACTTAG
13682678 CGCCAATCTC
Statistics
Matches: 108, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
55 92 0.85
56 16 0.15
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:13690538 original size:28 final size:27
Alignment explanation
Indices: 13690474--13690625 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
13690464 TTATTAAGTC
* *
13690474 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
13690501 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
13690529 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
13690556 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
13690584 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
13690611 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
13690626 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:13690558 original size:55 final size:55
Alignment explanation
Indices: 13690474--13690650 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
13690464 TTATTAAGTC
* * *
13690474 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
13690529 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
13690584 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
13690640 CGCACACTTAG
1 CGCACACTTAG
13690651 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:13696200 original size:30 final size:31
Alignment explanation
Indices: 13696152--13696218 Score: 118
Period size: 30 Copynumber: 2.2 Consensus size: 31
13696142 TTAATATGAG
13696152 TTAATACAAAACATCTATTATTTTAACTGTA
1 TTAATACAAAACATCTATTATTTTAACTGTA
*
13696183 TTAATACAAAA-ATCTATTGTTTTAACTGTA
1 TTAATACAAAACATCTATTATTTTAACTGTA
13696213 TTAATA
1 TTAATA
13696219 TGATTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 24 0.69
31 11 0.31
ACGTcount: A:0.42, C:0.10, G:0.04, T:0.43
Consensus pattern (31 bp):
TTAATACAAAACATCTATTATTTTAACTGTA
Found at i:13699780 original size:14 final size:15
Alignment explanation
Indices: 13699761--13699789 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13699751 ATTTAACCTT
13699761 ATTTTAAT-ATAAAA
1 ATTTTAATCATAAAA
13699775 ATTTTAATCATAAAA
1 ATTTTAATCATAAAA
13699790 CTTAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTTAATCATAAAA
Found at i:13700878 original size:15 final size:15
Alignment explanation
Indices: 13700858--13700892 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
13700848 AAGATTAACT
13700858 AGTTAAGGTTAATTA
1 AGTTAAGGTTAATTA
*
13700873 AGTTAAGTTTAATTA
1 AGTTAAGGTTAATTA
13700888 A-TTAA
1 AGTTAA
13700893 ATATTAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (15 bp):
AGTTAAGGTTAATTA
Found at i:13715483 original size:14 final size:16
Alignment explanation
Indices: 13715457--13715488 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
13715447 AAATAAGAAC
13715457 AAGTACAATAAT-AGA
1 AAGTACAATAATAAGA
13715472 AAGTAC-ATAATAAGA
1 AAGTACAATAATAAGA
13715487 AA
1 AA
13715489 TAATTCAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.62, C:0.06, G:0.12, T:0.19
Consensus pattern (16 bp):
AAGTACAATAATAAGA
Found at i:13719798 original size:46 final size:46
Alignment explanation
Indices: 13719748--13719923 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
13719738 TGATTGAGCA
13719748 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13719794 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
13719839 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13719887 -CCTGAGCTCTTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13719924 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:13719904 original size:93 final size:93
Alignment explanation
Indices: 13719745--13719916 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
13719735 GGATGATTGA
* *
13719745 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAGT
13719810 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
13719838 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG-CCTGAGCTCTTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCC-GAACTCGTTGAG
13719902 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
13719917 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:13727380 original size:46 final size:46
Alignment explanation
Indices: 13727330--13727505 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
13727320 TGATTGAGCA
13727330 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13727376 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
13727421 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13727469 -CCTGAGCTCTTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13727506 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:13727486 original size:93 final size:93
Alignment explanation
Indices: 13727327--13727498 Score: 292
Period size: 93 Copynumber: 1.8 Consensus size: 93
13727317 GGATGATTGA
*
13727327 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
13727392 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
13727420 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCTTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
13727484 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
13727499 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:13737347 original size:19 final size:19
Alignment explanation
Indices: 13737307--13737349 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
13737297 TTAATTATTA
*
13737307 TTATTATTTATTTATTTAT
1 TTATTATTTATTTATATAT
*
13737326 TTATTATTTACTTT-TATCT
1 TTATTATTTA-TTTATATAT
13737345 TTATT
1 TTATT
13737350 TATCTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (19 bp):
TTATTATTTATTTATATAT
Found at i:13737366 original size:29 final size:28
Alignment explanation
Indices: 13737313--13737385 Score: 80
Period size: 29 Copynumber: 2.6 Consensus size: 28
13737303 ATTATTATTA
* *
13737313 TTTA-TTTATTTAT-TTATTATTTAC-T
1 TTTATTTTATTTATCTTTTTAATTACTT
13737338 TTTATCTTTATTTATCTTTTTAAATTACTT
1 TTTAT-TTTATTTATCTTTTT-AATTACTT
*
13737368 TTTATTTTATTTCTCTTT
1 TTTATTTTATTTATCTTT
13737386 AATACTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.10
27 9 0.22
28 4 0.10
29 17 0.43
30 6 0.15
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTATTTTATTTATCTTTTTAATTACTT
Found at i:13747580 original size:39 final size:33
Alignment explanation
Indices: 13747504--13747613 Score: 148
Period size: 33 Copynumber: 3.3 Consensus size: 33
13747494 AGTGAATAAC
* * ** *
13747504 ACAGTATAAGTACAATCTGGGCGAAAGCTCTAT
1 ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
* *
13747537 TCAGTATCAGTACAGTCTGGGCTTAAGCCCTAT
1 ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
13747570 ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
1 ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
*
13747603 ACAGTAGCAGT
1 ACAGTATCAGT
13747614 GTGGGCCTAA
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (33 bp):
ACAGTATCAGTACAGTCTGGGCCTAAGCCCTAT
Found at i:13747618 original size:28 final size:28
Alignment explanation
Indices: 13747544--13747627 Score: 98
Period size: 33 Copynumber: 2.9 Consensus size: 28
13747534 TATTCAGTAT
*
13747544 CAGTA-CAGTCTGGGCTTAAGCCCTATA
1 CAGTAGCAGTCTGGGCCTAAGCCCTATA
13747571 CAGTATCAGTACAGTCTGGGCCTAAGCCCTATA
1 CAG--T-AG--CAGTCTGGGCCTAAGCCCTATA
*
13747604 CAGTAGCAGTGTGGGCCTAAGCCC
1 CAGTAGCAGTCTGGGCCTAAGCCC
13747628 AATGTAGTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
27 3 0.06
28 17 0.35
29 1 0.02
30 3 0.06
31 1 0.02
33 24 0.49
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (28 bp):
CAGTAGCAGTCTGGGCCTAAGCCCTATA
Found at i:13748031 original size:27 final size:27
Alignment explanation
Indices: 13747975--13748051 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
13747965 ATAATCGTCA
* *
13747975 TTACCATACAGGGGTATTACAGTCACT
1 TTACCCTACAGGGGCATTACAGTCACT
* **
13748002 TTACCCTACAGGGGCATTACGGTCTTT
1 TTACCCTACAGGGGCATTACAGTCACT
*
13748029 TTA-CCTATTAGGGGCATTACAGT
1 TTACCCTA-CAGGGGCATTACAGT
13748052 GTTTTGGTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 4 0.10
27 38 0.90
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (27 bp):
TTACCCTACAGGGGCATTACAGTCACT
Found at i:13748097 original size:27 final size:27
Alignment explanation
Indices: 13748067--13748144 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
13748057 GGTAAATCTA
*
13748067 CAAACCAAAGGTATTTCAGTAATTTTG
1 CAAACCAAAGGTATTTCAGTAATTTAG
*
13748094 CAAACCAATGGTATTTCTA-TAATTTAG
1 CAAACCAAAGGTATTTC-AGTAATTTAG
* * *
13748121 -AAAGTCAAGGGTATTTCTGTAATT
1 CAAA-CCAAAGGTATTTCAGTAATT
13748145 GTAATAGCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (27 bp):
CAAACCAAAGGTATTTCAGTAATTTAG
Found at i:13749346 original size:18 final size:19
Alignment explanation
Indices: 13749313--13749348 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
13749303 TTAAATTTAG
*
13749313 TAAATTAATTGAATTATGT
1 TAAATTAAATGAATTATGT
13749332 TAAATTAAATG-ATTATG
1 TAAATTAAATGAATTATG
13749349 ATGCCAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (19 bp):
TAAATTAAATGAATTATGT
Found at i:13751761 original size:27 final size:27
Alignment explanation
Indices: 13751714--13751950 Score: 167
Period size: 27 Copynumber: 8.9 Consensus size: 27
13751704 GTAATTATGT
*
13751714 AAATT-AGGGTATTTCTA-TAATTTTCC
1 AAATTAAGGGTATTTC-AGTAATTTTAC
*
13751740 AAATTAAGGGTATTTCAGTAATTTTCC
1 AAATTAAGGGTATTTCAGTAATTTTAC
* * ** *
13751767 AAATCAGGGGTATTTTGGTAATTTTAA
1 AAATTAAGGGTATTTCAGTAATTTTAC
* *
13751794 AAATTGAGGGTATTTCAATAATTTTAC
1 AAATTAAGGGTATTTCAGTAATTTTAC
* * * *
13751821 AAGTTAGGGGTATTT-TGATAATTTTAT
1 AAATTAAGGGTATTTCAG-TAATTTTAC
** * * *
13751848 AGGTTGAGGGTATTTCGGTAATTTCAC
1 AAATTAAGGGTATTTCAGTAATTTTAC
* * **
13751875 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAATTAAGGGTATTTCAGTAATTTTAC
* ** **
13751902 AAACTAAGGGTATTTTGGTAATTTTGT
1 AAATTAAGGGTATTTCAGTAATTTTAC
**
13751929 AAACCAAGGGTA-TTCAGTAATT
1 AAATTAAGGGTATTTCAGTAATT
13751951 CTACCCTACA
Statistics
Matches: 169, Mismatches: 38, Indels: 8
0.79 0.18 0.04
Matches are distributed among these distances:
26 14 0.08
27 154 0.91
28 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
AAATTAAGGGTATTTCAGTAATTTTAC
Found at i:13751939 original size:81 final size:81
Alignment explanation
Indices: 13751719--13751950 Score: 216
Period size: 81 Copynumber: 2.9 Consensus size: 81
13751709 TATGTAAATT
* * ** ** * *
13751719 AGGGTATTTCTATAATTTTCCAAATTAAGGGTATTTCAGTAATTTTCCAAATCAGGGGTATTTTG
1 AGGGTATTTCAATAATTTTACAAATTAAGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCG
* *
13751784 GTAATTTTAAAAATTG
66 GTAATTTCAAAAATAG
* * * ** **
13751800 AGGGTATTTCAATAATTTTACAAGTTAGGGGTATTTTGATAATTTTATAGGTTGAGGGTATTTCG
1 AGGGTATTTCAATAATTTTACAAATTAAGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCG
*
13751865 GTAATTTCACAAACTAG
66 GTAATTTCA-AAAATAG
*** * * * *
13751882 -GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTA-TTCA
1 AGGGTATTTCAATAATTTTACAAATTAAGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCG
13751945 GTAATT
66 GTAATT
13751951 CTACCCTACA
Statistics
Matches: 118, Mismatches: 32, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
80 9 0.08
81 104 0.88
82 5 0.04
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (81 bp):
AGGGTATTTCAATAATTTTACAAATTAAGGGTATTTTGGTAATTTTATAAATCAAGGGTATTTCG
GTAATTTCAAAAATAG
Found at i:13751940 original size:54 final size:54
Alignment explanation
Indices: 13751731--13751942 Score: 217
Period size: 54 Copynumber: 3.9 Consensus size: 54
13751721 GGTATTTCTA
* * *
13751731 TAATTTTCCAAATTAAGGGTATTTCAGTAATTTTCCAAATCAGGGGTATTTTGG
1 TAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTGG
* * * *** *
13751785 TAATTTTAAAAATTGAGGGTATTTCAATAATTTTACAAGTTAGGGGTATTTTGA
1 TAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTGG
* ** * * * *
13751839 TAATTTTATAGGTTGAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGG
1 TAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTGG
* ** ** *
13751893 TAATTTTACAAACTAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATT
1 TAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAACCAGGGGTATT
13751943 CAGTAATTCT
Statistics
Matches: 130, Mismatches: 28, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 130 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
TAATTTTACAAATTAAGGGTATTTCAGTAATTTTACAAACCAGGGGTATTTTGG
Found at i:13751976 original size:27 final size:26
Alignment explanation
Indices: 13751933--13752014 Score: 101
Period size: 27 Copynumber: 3.1 Consensus size: 26
13751923 TTTTGTAAAC
*
13751933 CAAGGGTATTCAGTAATTCTACCCTA
1 CAAGGGCATTCAGTAATTCTACCCTA
13751959 CAAGGGCATTTCAGTAATTCTACCCTA
1 CAAGGGCA-TTCAGTAATTCTACCCTA
* * * *
13751986 TAGGGGCAATTCAGTAATACTAGCCTA
1 CAAGGGC-ATTCAGTAATTCTACCCTA
13752013 CA
1 CA
13752015 GAAATGAGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 7 0.15
27 40 0.83
28 1 0.02
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (26 bp):
CAAGGGCATTCAGTAATTCTACCCTA
Found at i:13756285 original size:18 final size:18
Alignment explanation
Indices: 13756255--13756302 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
13756245 CAGTTTCTTT
*
13756255 CAGTAACATTTAGTCATC
1 CAGTAACAATTAGTCATC
*
13756273 C-GATAACAATTAGTTATC
1 CAG-TAACAATTAGTCATC
13756291 CAGTAACAATTA
1 CAGTAACAATTA
13756303 TTCGTTCAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (18 bp):
CAGTAACAATTAGTCATC
Found at i:13756414 original size:22 final size:22
Alignment explanation
Indices: 13756384--13756432 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
13756374 TCATTTAATC
*
13756384 ATTA-TTATTCAGTATCAGTCA
1 ATTATTTATTCAGTAACAGTCA
* *
13756405 TTTATTTATTTAGTAACAGTCA
1 ATTATTTATTCAGTAACAGTCA
13756427 ATTATT
1 ATTATT
13756433 CGGTAGCAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (22 bp):
ATTATTTATTCAGTAACAGTCA
Found at i:13756645 original size:42 final size:42
Alignment explanation
Indices: 13756599--13756679 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
13756589 GTAGCGGTAC
13756599 ACAGAGTACCTCATC-AGAACAAATCTGAAACAGTAACAGGGT
1 ACAGAGTACCTCATCGA-AACAAATCTGAAACAGTAACAGGGT
* * * *
13756641 ACAGAGTACCTCTTCGAAACGAATCTGGAACAGTCACAG
1 ACAGAGTACCTCATCGAAACAAATCTGAAACAGTAACAG
13756680 TAGTCGACAC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 33 0.97
43 1 0.03
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (42 bp):
ACAGAGTACCTCATCGAAACAAATCTGAAACAGTAACAGGGT
Found at i:13762235 original size:26 final size:25
Alignment explanation
Indices: 13762190--13762254 Score: 62
Period size: 26 Copynumber: 2.5 Consensus size: 25
13762180 AGAAATCTAA
13762190 CATCAATCATATAGTATTATCTCATG
1 CATCAATCATATAGTATTAT-TCATG
13762216 CATCAAT-ATATA-TAATTTATTCATG
1 CATCAATCATATAGT-A-TTATTCATG
*
13762241 TCATAAACTCATAT
1 -CATCAA-TCATAT
13762255 GCTAACACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
24 1 0.03
25 11 0.33
26 16 0.48
27 1 0.03
28 4 0.12
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (25 bp):
CATCAATCATATAGTATTATTCATG
Found at i:13765685 original size:49 final size:49
Alignment explanation
Indices: 13765610--13765734 Score: 142
Period size: 49 Copynumber: 2.5 Consensus size: 49
13765600 GATGCCGACG
* * * * *
13765610 CCATGTCCCAGACATGATCTTACACTGGCTTTCATATAGCTAGGCCGCTA
1 CCATGTCCCAAACA-GGTCTTACACTGGCTCTCATATAGCGAGGCCGATA
* * * ** *
13765660 CCATGTCCCAAACAGGTCTTACACTGGCTCTCATCTATCGATGTTGATG
1 CCATGTCCCAAACAGGTCTTACACTGGCTCTCATATAGCGAGGCCGATA
13765709 CCATGTCCCAAACAGGTCTTACACTG
1 CCATGTCCCAAACAGGTCTTACACTG
13765735 ACACACCACA
Statistics
Matches: 64, Mismatches: 11, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
49 51 0.80
50 13 0.20
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (49 bp):
CCATGTCCCAAACAGGTCTTACACTGGCTCTCATATAGCGAGGCCGATA
Found at i:13765772 original size:44 final size:44
Alignment explanation
Indices: 13765708--13765909 Score: 280
Period size: 44 Copynumber: 4.6 Consensus size: 44
13765698 CGATGTTGAT
* * *
13765708 GCCATGTCCCAAACAGGTCTTACACTGACACACCACAACCTGAC
1 GCCATGTCCCAGACAAGTCTTACACTGACACACCACAAGCTGAC
*
13765752 GCCATGTCCCAGACAAGTCTTACACTGACACACCACAAGCTAAC
1 GCCATGTCCCAGACAAGTCTTACACTGACACACCACAAGCTGAC
* * * *
13765796 ACCATGTCCCAGATAGGTCTTACACTGACACACCACAAGTTGAC
1 GCCATGTCCCAGACAAGTCTTACACTGACACACCACAAGCTGAC
* * *
13765840 ACCATGTCCCAGAC-AGCTCTTATACTGACACACTACAAGCTGAC
1 GCCATGTCCCAGACAAG-TCTTACACTGACACACCACAAGCTGAC
*
13765884 GCCATGTCCCAGACATGTCTTACACT
1 GCCATGTCCCAGACAAGTCTTACACT
13765910 AGCTCTCGTC
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
43 1 0.01
44 137 0.99
45 1 0.01
ACGTcount: A:0.31, C:0.35, G:0.14, T:0.19
Consensus pattern (44 bp):
GCCATGTCCCAGACAAGTCTTACACTGACACACCACAAGCTGAC
Found at i:13767483 original size:19 final size:19
Alignment explanation
Indices: 13767459--13767498 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
13767449 TTCATGTGAG
13767459 TTTAATTCTTGCCTTTTTC
1 TTTAATTCTTGCCTTTTTC
13767478 TTTAATTCTTGCCTTTTTC
1 TTTAATTCTTGCCTTTTTC
13767497 TT
1 TT
13767499 GAAATTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.10, C:0.20, G:0.05, T:0.65
Consensus pattern (19 bp):
TTTAATTCTTGCCTTTTTC
Found at i:13767613 original size:19 final size:22
Alignment explanation
Indices: 13767589--13767628 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
13767579 AAAATTACCA
13767589 TTTATGA-AT-AC-TGGATTTT
1 TTTATGACATAACATGGATTTT
13767608 TTTATGACATAACATGGATTT
1 TTTATGACATAACATGGATTT
13767629 AGAGCTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 2 0.11
22 7 0.39
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.47
Consensus pattern (22 bp):
TTTATGACATAACATGGATTTT
Found at i:13772026 original size:46 final size:46
Alignment explanation
Indices: 13771970--13772143 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 46
13771960 TGGTTGAGCA
*
13771970 TCCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
13772016 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
13772061 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
13772109 CCCGAGCTCGTTGATTTGAGTCCGAGTTCGCTTAT
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
13772144 AGGCCGGTTA
Statistics
Matches: 107, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.56
47 30 0.28
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:13772128 original size:93 final size:93
Alignment explanation
Indices: 13771967--13772137 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
13771957 GGATGGTTGA
* *
13771967 GCATCCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13772032 TGAGTCCGAGTTCATGAAATGTAACTAG
66 TGAGTCCGAGTTCATGAAATGTAACTAG
* * *
13772060 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGATT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
13772125 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13772138 GCTTATAGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTGCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAAATGTAACTAG
Found at i:13773908 original size:29 final size:30
Alignment explanation
Indices: 13773875--13773931 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
13773865 ACGACCGAAC
13773875 CACACGCCCATAGA-ACA-GACCGTGTGTCG
1 CACACGCCC-TAGACACACGACCGTGTGTCG
* *
13773904 CACACGGCCTAGACACACGCCCGTGTGT
1 CACACGCCCTAGACACACGACCGTGTGT
13773932 ATACCCGTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
29 11 0.46
30 9 0.38
ACGTcount: A:0.25, C:0.37, G:0.25, T:0.14
Consensus pattern (30 bp):
CACACGCCCTAGACACACGACCGTGTGTCG
Found at i:13777188 original size:47 final size:47
Alignment explanation
Indices: 13777136--13777541 Score: 641
Period size: 47 Copynumber: 8.6 Consensus size: 47
13777126 GATAATTGTG
* * *
13777136 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
13777183 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
13777230 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
13777277 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
13777326 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13777375 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13777422 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
13777469 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
13777516 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
13777542 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 21, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 242 0.72
49 94 0.28
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:13777427 original size:192 final size:190
Alignment explanation
Indices: 13777136--13777541 Score: 658
Period size: 192 Copynumber: 2.1 Consensus size: 190
13777126 GATAATTGTG
*
13777136 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
13777199 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* * * *
13777264 GCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
131 GCCAATGTGATGAATGTGAAAGTG--TATATATGTGACAAGGCCGAATGGCCAACGTGATGA
13777326 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
13777391 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCTAATG
66 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
* * * *
13777456 GCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
131 GCCAATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGA
13777516 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
13777542 TCCCGAAGGG
Statistics
Matches: 202, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
188 10 0.05
189 1 0.00
190 49 0.24
191 2 0.01
192 140 0.69
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (190 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
GCCAATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGATGA
Found at i:13787068 original size:17 final size:18
Alignment explanation
Indices: 13787046--13787081 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13787036 CACATTGAAG
13787046 TGTTTT-ATCGAAAACCT
1 TGTTTTAATCGAAAACCT
*
13787063 TGTTTTAATTGAAAACCT
1 TGTTTTAATCGAAAACCT
13787081 T
1 T
13787082 TCTTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (18 bp):
TGTTTTAATCGAAAACCT
Found at i:13788389 original size:29 final size:28
Alignment explanation
Indices: 13788323--13788396 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
13788313 AAGTCTACAT
* *
13788323 ACATGCATATGGCCCACTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
*
13788351 TCATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
*
13788380 ACATTCATATGACCCAT
1 ACATTCATATGGCCCAT
13788397 CCAACCCGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 21 0.52
29 19 0.47
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:13791893 original size:93 final size:93
Alignment explanation
Indices: 13791781--13791952 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
13791771 GCCCATAAGT
* *
13791781 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13791846 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
13791874 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
13791939 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
13791953 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:13791948 original size:46 final size:46
Alignment explanation
Indices: 13791773--13791948 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
13791763 TGTAACCCGC
* * *
13791773 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13791819 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
13791869 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13791912 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
13791949 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 1 0.01
46 64 0.58
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13794374 original size:30 final size:30
Alignment explanation
Indices: 13794330--13794418 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
13794320 CAAAGATAAC
13794330 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
13794359 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
13794389 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
13794419 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:13794378 original size:15 final size:15
Alignment explanation
Indices: 13794330--13794409 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
13794320 CAAAGATAAC
*
13794330 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
13794344 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
13794359 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
13794374 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
13794389 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
13794404 AAGAAA
1 AAGAAA
13794410 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:13794418 original size:15 final size:15
Alignment explanation
Indices: 13794341--13794418 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
13794331 AGAAAACCGA
13794341 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
13794356 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
13794370 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
13794385 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
13794401 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
13794416 ATA
1 ATA
13794419 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Done.