Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 44 of 199
Found at i:13103102 original size:264 final size:265
Alignment explanation
Indices: 13102631--13103159 Score: 963
Period size: 264 Copynumber: 2.0 Consensus size: 265
13102621 CATGATAAGA
*
13102631 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCTGTGGCCCGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
* * *
13102696 AAGGATTATTTGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAAT
66 AAGAATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAAT
13102761 GAGCAACGAGTCACAGCCCAGATTGAGTAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTTC
131 GAGCAACGAGTCACAGCCCAGATTGAGTAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTTC
*
13102826 GTGAGACTTATCTTAACGCTCGAATGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAGC
196 GTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAGC
13102891 CGTAT
261 CGTAT
13102896 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGG-CCGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
*
13102960 AAGAATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAGT
66 AAGAATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAAT
* *
13103025 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGT-CCTTTTGAAGAGTT
131 GAGCAACGAGTCACAGCCCAGATTGAGT-AAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
13103089 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
195 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
13103154 CCGTAT
260 CCGTAT
13103160 ATGTATCCGC
Statistics
Matches: 255, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
264 189 0.74
265 66 0.26
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (265 bp):
GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
AAGAATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAAT
GAGCAACGAGTCACAGCCCAGATTGAGTAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTTC
GTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAGC
CGTAT
Found at i:13107734 original size:102 final size:103
Alignment explanation
Indices: 13107547--13107735 Score: 274
Period size: 102 Copynumber: 1.8 Consensus size: 103
13107537 TTTGTATTCT
*
13107547 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAGCAAATTTCATCTTA
1 AGCAAAATTTGCTATCTTGATTAATTTG-T--TTTAGAGCTTTGCTCTCAACAAATTTCATCTTA
*
13107612 TCCGTTGTGATAATCTTTTTCATCTTATTCCTTCGTATCTC
63 TCCATTGTGATAATCTTTTTCATCTTATTCCTTCGTATCTC
* * *
13107653 AGCAAAATTTGCTATCTTGATT-GTTTG-TTTAGAGCTTTGCTCTCAACAAAATTTCATTTTGTC
1 AGCAAAATTTGCTATCTTGATTAATTTGTTTTAGAGCTTTGCTCTCAAC-AAATTTCATCTTATC
*
13107716 CATTTTGATAATCTTTTTCA
65 CATTGTGATAATCTTTTTCA
13107736 AGCATTTTTC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
101 19 0.25
102 31 0.41
105 4 0.05
106 22 0.29
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (103 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTTTAGAGCTTTGCTCTCAACAAATTTCATCTTATCC
ATTGTGATAATCTTTTTCATCTTATTCCTTCGTATCTC
Found at i:13108240 original size:44 final size:43
Alignment explanation
Indices: 13108115--13108572 Score: 264
Period size: 44 Copynumber: 10.9 Consensus size: 43
13108105 ATAGGTCCTA
* * *
13108115 TCTTCCTATATTGGTAG-GAAGTGGATCAAAGAT-GCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATC-GAGATAGCAGATCTTG
* * * *
13108158 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCG-AGATAGCAGATCTTG
* * * * *
13108203 TCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGCGTGAAGTAGATCG-AGATAGCAGATCTTG
*
13108247 TCTT-CTATATT-G-GT--AGGATGATCGAGAT-GCAGATCTTG
1 TCTTCCTATATTGGCGTGAAGTA-GATCGAGATAGCAGATCTTG
* * * *
13108285 TCTTCCCATATTGGTG-GCGAGTAGATCGAGA-AACA-ATCTTG
1 TCTTCCTATATTGGCGTG-AAGTAGATCGAGATAGCAGATCTTG
* * *
13108326 TCTTCATGTATT-GCGTGAAGT-GA-CGAG-TAG-AGATC--C
1 TCTTCCTATATTGGCGTGAAGTAGATCGAGATAGCAGATCTTG
* * *
13108362 TATTCCTAT-TT-G-GTAGGAGTGGATCGAGAT-GCAGATCTTG
1 TCTTCCTATATTGGCGT-GAAGTAGATCGAGATAGCAGATCTTG
* * * *
13108402 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGC-GATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCG-AGATAGCAGATCTTG
* * * * *
13108446 TCTTCAATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTC-CTATATTGGCGTGAAGTAGATCG-AGATAGCAGATCTTG
* *
13108491 TCTTCCTATATTGGTAG-GAAGTGGATCGAGAT-GCAGATCTTG
1 TCTTCCTATATTGG-CGTGAAGTAGATCGAGATAGCAGATCTTG
* * * *
13108533 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGA
1 TCTTCCTATATTGG-CGTGAAGTAGATCG-AGATAGCAGA
13108573 CGTCCTTAGG
Statistics
Matches: 320, Mismatches: 62, Indels: 64
0.72 0.14 0.14
Matches are distributed among these distances:
34 2 0.01
35 7 0.02
36 8 0.03
37 6 0.02
38 26 0.08
39 14 0.04
40 18 0.06
41 21 0.07
42 35 0.11
43 45 0.14
44 93 0.29
45 45 0.14
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
TCTTCCTATATTGGCGTGAAGTAGATCGAGATAGCAGATCTTG
Found at i:13120846 original size:29 final size:30
Alignment explanation
Indices: 13120788--13120849 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
13120778 AACTTACAAG
13120788 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
13120818 CAAATGTCTTTAAAAT-ATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
13120847 CAA
1 CAA
13120850 TAAAAATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.56, C:0.15, G:0.03, T:0.26
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:13121299 original size:15 final size:15
Alignment explanation
Indices: 13121256--13121303 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
13121246 TCAGGTTACA
13121256 TTTTAGTCACTTATG
1 TTTTAGTCACTTATG
* * *
13121271 TTTAAAT--GTTATG
1 TTTTAGTCACTTATG
13121284 TTTTAGTCACTTATG
1 TTTTAGTCACTTATG
13121299 TTTTA
1 TTTTA
13121304 TTTTGTTACA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 10 0.40
15 15 0.60
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTTAGTCACTTATG
Found at i:13123225 original size:21 final size:21
Alignment explanation
Indices: 13123200--13123250 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
13123190 TTTAGTTGAT
*
13123200 AAATAAAATAAAAACAATATA
1 AAATAAAATAAAAACAATACA
* * *
13123221 AAATAAAATAATAACAGTGCA
1 AAATAAAATAAAAACAATACA
13123242 AAATAAAAT
1 AAATAAAAT
13123251 TAAGGCAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.71, C:0.06, G:0.04, T:0.20
Consensus pattern (21 bp):
AAATAAAATAAAAACAATACA
Found at i:13128464 original size:266 final size:266
Alignment explanation
Indices: 13127990--13128521 Score: 992
Period size: 266 Copynumber: 2.0 Consensus size: 266
13127980 CATGATAAGA
*
13127990 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCTGTGGCCCGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
* * *
13128055 AAGGATTATTTGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGCACCATGAGGTTTAAT
66 AAGAATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAAT
13128120 GAGCAACGAGTCACAGCCCAGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
131 GAGCAACGAGTCACAGCCCAGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
*
13128185 CGTGAGACTTATCTTAACGCTCGAATGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
196 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
13128250 CCGTAT
261 CCGTAT
13128256 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
1 GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
*
13128321 AAGAATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAGT
66 AAGAATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAAT
* *
13128386 GAGCAACGAGTCACGGCCCGGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
131 GAGCAACGAGTCACAGCCCAGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
13128451 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
196 CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
13128516 CCGTAT
261 CCGTAT
13128522 ATGTATCCGC
Statistics
Matches: 258, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
266 258 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (266 bp):
GAAGGATGATAGTTTAATGGAGGACCACACAACCATTGCTCCGTGGCCCGAGAATTTAATGTGAC
AAGAATTATTCGAGAGCCGCTGAACTTTCTTAAAAGAGAAGCCAACGAGAACCATGAGGTTTAAT
GAGCAACGAGTCACAGCCCAGATTGAGTAAAAAGGAGATATAAGATACGTCCCTTTTGAAGAGTT
CGTGAGACTTATCTTAACGCTCGAACGAAGAAAATGATCGAATGTCTCCGCATATGAGGGCAAAG
CCGTAT
Found at i:13133071 original size:104 final size:105
Alignment explanation
Indices: 13132920--13133111 Score: 271
Period size: 104 Copynumber: 1.8 Consensus size: 105
13132910 TTTGTATTCT
* *
13132920 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAGCAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTG-T--TTTAGAGCTTTGCTCTCAACAAAATTTCATCTT
*
13132985 ATCCGTTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
63 ATCCATTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
* * *
13133028 AGCAAAATTTGCTATCTTGACTT-GTTTG-TTTAGAGCTTTGCTCTCAACAAAATTTCATTTTGT
1 AGCAAAATTTGCTATCTTGA-TTAATTTGTTTTAGAGCTTTGCTCTCAACAAAATTTCATCTTAT
*
13133091 CCATTTTGATAATCTTTTTCA
65 CCATTGTGATAATCTTTTTCA
13133112 AGCATTTTTC
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
104 50 0.66
108 24 0.32
109 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.46
Consensus pattern (105 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTTTAGAGCTTTGCTCTCAACAAAATTTCATCTTATC
CATTGTGATAATCTTTTTCATCTTATTCCTCTCGTATCTC
Found at i:13133619 original size:44 final size:45
Alignment explanation
Indices: 13133494--13134195 Score: 625
Period size: 44 Copynumber: 15.9 Consensus size: 45
13133484 ATAGGTCCTA
* * *
13133494 TCTTCCTATATTGGTAG-GAAGTGGATCAAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
13133537 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
13133582 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * *
13133626 TCTTCTTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
13133669 TCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCATATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
13133714 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* *
13133758 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
13133801 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
13133846 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGGTAGCAGATCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* *
13133890 TCTTCCTATATTGGTAG-GAAGTGGATCGAAGAT-GCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
13133933 TCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * * *
13133978 TCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTA
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
13134022 TCTTCCTATATTGATAG-GAAGTGGATCCAAGATA-CAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
13134065 TCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTG
1 TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
* * * *
13134110 TC--CCTGTATTTGG-CAGTGGAA-TAGATTGAGGATTGCAGATCTTG
1 TCTTCCTATA-TTGGTC-GT-GAAGTAGATCGAAGATAGCAGATCTTG
* * * *
13134154 CCTTCCTGTATTTGG-CG-GCAAAGCAGATCGAAGATGGCAGAT
1 TCTTCCTATA-TTGGTCGTG--AAGTAGATCGAAGATAGCAGAT
13134196 TTTACCTCCC
Statistics
Matches: 527, Mismatches: 110, Indels: 41
0.78 0.16 0.06
Matches are distributed among these distances:
43 107 0.20
44 289 0.55
45 104 0.20
46 27 0.05
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (45 bp):
TCTTCCTATATTGGTCGTGAAGTAGATCGAAGATAGCAGATCTTG
Found at i:13133726 original size:132 final size:132
Alignment explanation
Indices: 13133489--13134111 Score: 1138
Period size: 132 Copynumber: 4.7 Consensus size: 132
13133479 CGTAAATAGG
*
13133489 TCCTATCTTCCTATATTGGTAGGAAGTGGATCAAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
13133554 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
13133619 GA
131 GA
*
13133621 TCCTATCTTCTTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
13133686 CGAAGTAGATCGAAGAAAGCATATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
13133751 GA
131 GA
13133753 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
13133818 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
13133883 GA
131 GA
13133885 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
* *
13133950 CGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
*
13134015 GG
131 GA
* * * *
13134017 TCCTATCTTCCTATATTGATAGGAAGTGGATCCAAGATACAGATCTTGTCTTCCCATACTGGTGG
1 TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
*
13134082 TGAAGTAGATCGAAGAAAGCAGATCTTGTC
66 CGAAGTAGATCGAAGAAAGCAGATCTTGTC
13134112 CCTGTATTTG
Statistics
Matches: 477, Mismatches: 14, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 477 1.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (132 bp):
TCCTATCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGG
CGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCA
GA
Found at i:13134437 original size:100 final size:98
Alignment explanation
Indices: 13134264--13134554 Score: 354
Period size: 100 Copynumber: 2.9 Consensus size: 98
13134254 GCAGTGGAAT
* *
13134264 AGATTGAAGCTACAACGGCAAATCTTGTTCCCCGACATTGCAATTAAAGAGATTGAAGCCACAAT
1 AGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAA-AGATTGAAGCCACAAC
13134329 GGCGAATCTCACTTCTCTGGCAGTACAGTGCAGC
65 GGCGAATCTCACTTCTCTGGCAGTACAGTGCAGC
* * ** * *
13134363 AGATTAAAGCTACGACGGCGAATCTTGCTTCCTTGATATTGCAATTTAAAAGATTGAAGCCGCAA
1 AGATTGAAGCTACAACGGCGAATCTTG-TTCCCCGACATTGCAA-TTAAAAGATTGAAGCCACAA
* * * **
13134428 CGGCGAATCTTACTT-TCTTGGC-GATGCAGTGGATT
64 CGGCGAATCTCACTTCTC-TGGCAG-TACAGTGCAGC
* *
13134463 AGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGTAATTAATCAGATTGAAGCCACAAC
1 AGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAA-AAGATTGAAGCCACAAC
* *
13134528 GGGGAATCTCACTTCTCTAGCAG-ACAG
65 GGCGAATCTCACTTCTCTGGCAGTACAG
13134555 AAACCAGATC
Statistics
Matches: 160, Mismatches: 25, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
98 7 0.04
99 69 0.43
100 79 0.49
101 5 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (98 bp):
AGATTGAAGCTACAACGGCGAATCTTGTTCCCCGACATTGCAATTAAAAGATTGAAGCCACAACG
GCGAATCTCACTTCTCTGGCAGTACAGTGCAGC
Found at i:13134608 original size:40 final size:40
Alignment explanation
Indices: 13134563--13134874 Score: 337
Period size: 40 Copynumber: 7.7 Consensus size: 40
13134553 AGAAACCAGA
*
13134563 TCTTATCTCCCTAAGCAATAGTGCAGCAGATCGCATCAAG
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAG
* * *
13134603 TCTTATCTCCCTAAGCAATAGTGGAGCA-AACAGAACCACAG
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGATC-GCATCA-AG
*
13134644 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAG
* * * *
13134685 TCTTACCTCCCTAAGCAATAGTGGAGCTGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGATC-GCATCA-AG
*
13134726 ATCTTATCTCCCTAAG-AAGTAGTAGAGCAGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAA-TAGTGGAGCAGATCGCATCAAG
* *
13134767 TCTTATCTCCCTAAGCAATAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGATC-GCATCA-AG
* * * *
13134808 ATCTTAT-TCCCCTAAGCAGTAGTGGAGTAGATCACATCCAG
1 -TCTTATCT-CCCTAAGCAATAGTGGAGCAGATCGCATCAAG
*
13134849 TCTTATCTCCCTAAGCAGTAGTGGAG
1 TCTTATCTCCCTAAGCAATAGTGGAG
13134875 TAGACTAAAA
Statistics
Matches: 229, Mismatches: 27, Indels: 32
0.80 0.09 0.11
Matches are distributed among these distances:
39 4 0.02
40 116 0.51
41 18 0.08
42 87 0.38
43 4 0.02
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAG
Found at i:13134901 original size:82 final size:82
Alignment explanation
Indices: 13134546--13134879 Score: 528
Period size: 82 Copynumber: 4.1 Consensus size: 82
13134536 TCACTTCTCT
* * *
13134546 AGCAGACAGAAAC-CAGATCTTATCTCCCTAAGCAATAGTGCAGCAGATCGCATCAAGTCTTATC
1 AGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATC
13134610 TCCCTAAGCAATAGTGG
66 TCCCTAAGCAATAGTGG
* *
13134627 AGCAAACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTACC
1 AGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATC
13134692 TCCCTAAGCAATAGTGG
66 TCCCTAAGCAATAGTGG
* * *
13134709 AGCTGACAGAACCACAGATCTTATCTCCCTAAGAAGTAGTAGAGCAGATCGCATCAAGTCTTATC
1 AGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATC
13134774 TCCCTAAGCAATAGTGG
66 TCCCTAAGCAATAGTGG
* * *
13134791 AGCAGACAGAACCACAGATCTTAT-TCCCCTAAGCAGTAGTGGAGTAGATCACATCCAGTCTTAT
1 AGCAGACAGAACCACAGATCTTATCT-CCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTAT
*
13134855 CTCCCTAAGCAGTAGTGG
65 CTCCCTAAGCAATAGTGG
*
13134873 AGTAGAC
1 AGCAGAC
13134880 TAAAAACACA
Statistics
Matches: 233, Mismatches: 18, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
81 12 0.05
82 221 0.95
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (82 bp):
AGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGCATCAAGTCTTATC
TCCCTAAGCAATAGTGG
Found at i:13142554 original size:18 final size:18
Alignment explanation
Indices: 13142527--13142619 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
13142517 TACGACCGTT
*
13142527 TACGGTACTATTCATGTA
1 TACGGTACTATTCACGTA
*
13142545 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
13142563 TACAGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
*
13142581 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
13142599 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
13142617 TAC
1 TAC
13142620 AATAGTTGGG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 65 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:13142582 original size:36 final size:36
Alignment explanation
Indices: 13142531--13142619 Score: 151
Period size: 36 Copynumber: 2.5 Consensus size: 36
13142521 ACCGTTTACG
* *
13142531 GTACTATTCATGTATACGGCACTATTCACGTATACA
1 GTACTGTTCACGTATACGGCACTATTCACGTATACA
*
13142567 GTACTGTTCACGTATACGGCACTATTCACGTATACG
1 GTACTGTTCACGTATACGGCACTATTCACGTATACA
13142603 GTACTGTTCACGTATAC
1 GTACTGTTCACGTATAC
13142620 AATAGTTGGG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (36 bp):
GTACTGTTCACGTATACGGCACTATTCACGTATACA
Found at i:13151542 original size:11 final size:10
Alignment explanation
Indices: 13151526--13151568 Score: 61
Period size: 11 Copynumber: 4.2 Consensus size: 10
13151516 AAAGTAAATT
13151526 AAAATCATAA
1 AAAATCATAA
13151536 AAGAATCATAA
1 AA-AATCATAA
13151547 AAAATTCATAA
1 AAAA-TCATAA
13151558 AAAATCA-AA
1 AAAATCATAA
13151567 AA
1 AA
13151569 TATTAGCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
9 4 0.13
10 7 0.23
11 20 0.65
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (10 bp):
AAAATCATAA
Found at i:13151580 original size:22 final size:22
Alignment explanation
Indices: 13151526--13151568 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
13151516 AAAGTAAATT
13151526 AAAA-TCATAAAAGAATCATAA
1 AAAATTCATAAAAGAATCATAA
13151547 AAAATTCATAAAA-AATCA-AA
1 AAAATTCATAAAAGAATCATAA
13151567 AA
1 AA
13151569 TATTAGCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 9 0.43
22 8 0.38
ACGTcount: A:0.70, C:0.09, G:0.02, T:0.19
Consensus pattern (22 bp):
AAAATTCATAAAAGAATCATAA
Found at i:13152573 original size:16 final size:14
Alignment explanation
Indices: 13152552--13152585 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
13152542 ATTGGACAAT
13152552 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
13152568 TTATAAATTTTATA
1 TTATAAATTTTATA
13152582 TTAT
1 TTAT
13152586 TTTTTACTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:13153813 original size:2 final size:2
Alignment explanation
Indices: 13153806--13153831 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13153796 TCCTATAATG
13153806 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
13153832 ATCACATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:13154865 original size:12 final size:11
Alignment explanation
Indices: 13154837--13154869 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
13154827 TAAAATGAAT
13154837 AAAAT-TATAA
1 AAAATATATAA
13154847 AAAATATATAA
1 AAAATATATAA
13154858 AAAGATATATAA
1 AAA-ATATATAA
13154870 GTATGTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 5 0.24
11 8 0.38
12 8 0.38
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (11 bp):
AAAATATATAA
Found at i:13155081 original size:3 final size:3
Alignment explanation
Indices: 13154996--13155061 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
13154986 AATGGAAATG
* * * * * *
13154996 TAA TGA TAA TAA CAG TAA TAT TAA TAA TAA TAC TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
13155044 TAA TAG TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
13155062 CCTAATTAGT
Statistics
Matches: 49, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13156900 original size:21 final size:21
Alignment explanation
Indices: 13156870--13156913 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
13156860 GATTCGCTGC
* *
13156870 CTTCAGCTTTAATCCGTTCCA
1 CTTCAACTTTAATCCATTCCA
*
13156891 CTTCAACTTTAATCTATTCCA
1 CTTCAACTTTAATCCATTCCA
13156912 CT
1 CT
13156914 ACAATGCCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.05, T:0.41
Consensus pattern (21 bp):
CTTCAACTTTAATCCATTCCA
Found at i:13157217 original size:48 final size:46
Alignment explanation
Indices: 13157165--13157345 Score: 138
Period size: 48 Copynumber: 4.0 Consensus size: 46
13157155 TGATGTTTTT
*
13157165 GATCTACTTCGCTGCTACTACAGGAAGACAAGATCTGCTACTTTCTTC
1 GATCTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTA--TTCTTC
* * * ** *
13157213 GATCTACTTTGCTGCCAATACAGGAAAATGAGACCTGCTA-TCTTC
1 GATCTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATTCTTC
* * * * ** * * * *
13157258 AACCTACTCCACTGCTGCT-CAGGAAGATAAGGTTTG-TGTT-TTC
1 GATCTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATTCTTC
* *
13157301 GATCTACTTCGCTGCAAATACAGGAAGACAAGATTTGCTA-TCTTC
1 GATCTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATTCTTC
13157346 CACCTACTCC
Statistics
Matches: 98, Mismatches: 31, Indels: 11
0.70 0.22 0.08
Matches are distributed among these distances:
43 16 0.16
44 29 0.30
45 20 0.20
48 33 0.34
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (46 bp):
GATCTACTTCGCTGCTAATACAGGAAGACAAGATCTGCTATTCTTC
Found at i:13157529 original size:206 final size:207
Alignment explanation
Indices: 13157166--13157540 Score: 599
Period size: 206 Copynumber: 1.8 Consensus size: 207
13157156 GATGTTTTTG
* * *
13157166 ATCTACTTCGCTGCTACTACAGGAAGACAAGATCTGCTACTTTCTTCGATCTACTTTGCTGCCAA
1 ATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA--TTCTTCGATCTACTTTGCTGCCAA
** *
13157231 TACAGGAAAATGAGACCTGCTATCTTCAACCTACTCCACTGCTGCTCAGGAAGATAAGGTTTGTG
64 TACAGGAAAACAAGACCTCCTATCTTCAACCTACTCCACTGCTGCTCAGGAAGATAAGGTTTGTG
* *
13157296 TTTTCGATCTACTTCGCTGCAAATACAGGAAGACAAGATTTGCTATCTTCCACCTACTCCACTGA
129 TTTTCGATCTACTTCACTACAAATACAGGAAGACAAGATTTGCTATCTTCCACCTACTCCACTGA
13157361 GGCTGGTTTCTTCA
194 GGCTGGTTTCTTCA
* *
13157375 ATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTA-TCTTCGATCTACTTTGTTTCCAATA
1 ATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTCTTCGATCTACTTTGCTGCCAATA
* * *
13157439 CAGGAAGACAAGATCTCCTATCTTCAACCTACTCCACTGCTGTTCAGGAAGATAAGGTTTGTGTT
66 CAGGAAAACAAGACCTCCTATCTTCAACCTACTCCACTGCTGCTCAGGAAGATAAGGTTTGTGTT
*
13157504 TTCGATCTACTTCACTACCAATACAGGAAGACAAGAT
131 TTCGATCTACTTCACTACAAATACAGGAAGACAAGAT
13157541 CTACAATCTT
Statistics
Matches: 152, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
206 116 0.76
209 36 0.24
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (207 bp):
ATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTCTTCGATCTACTTTGCTGCCAATA
CAGGAAAACAAGACCTCCTATCTTCAACCTACTCCACTGCTGCTCAGGAAGATAAGGTTTGTGTT
TTCGATCTACTTCACTACAAATACAGGAAGACAAGATTTGCTATCTTCCACCTACTCCACTGAGG
CTGGTTTCTTCA
Found at i:13169678 original size:8 final size:8
Alignment explanation
Indices: 13169665--13169691 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
13169655 TATAAGTATG
13169665 TATATGTA
1 TATATGTA
13169673 TATATGTA
1 TATATGTA
13169681 TATATGTA
1 TATATGTA
13169689 TAT
1 TAT
13169692 TAAAATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (8 bp):
TATATGTA
Found at i:13169870 original size:3 final size:3
Alignment explanation
Indices: 13169794--13169850 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
13169784 AATGGAAATG
* * * * *
13169794 TAA TGA TAA TAA CAG TAA TAT TAA TAA TAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13169842 TAA TAA TAA
1 TAA TAA TAA
13169851 CCTAATTAGT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13172732 original size:17 final size:17
Alignment explanation
Indices: 13172695--13172751 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
13172685 ACAATTATTT
* *
13172695 AATTTTAAAAAATTCAT
1 AATTTTAAAAAATTAAA
*
13172712 AATTTTATAAAATTAAA
1 AATTTTAAAAAATTAAA
*
13172729 AATTATTTAAAAAGTATAAA
1 AA-T-TTTAAAAAAT-TAAA
13172749 AAT
1 AAT
13172752 ATTTTTTAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 16 0.50
18 1 0.03
19 9 0.28
20 6 0.19
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (17 bp):
AATTTTAAAAAATTAAA
Found at i:13173208 original size:14 final size:14
Alignment explanation
Indices: 13173189--13173216 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13173179 TTTTCCTCTC
13173189 TTTTTTATTTGTTT
1 TTTTTTATTTGTTT
13173203 TTTTTTATTTGTTT
1 TTTTTTATTTGTTT
13173217 ATTATTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.00, G:0.07, T:0.86
Consensus pattern (14 bp):
TTTTTTATTTGTTT
Found at i:13173360 original size:9 final size:10
Alignment explanation
Indices: 13173324--13173370 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
13173314 GTTTATTATT
13173324 TATTTTATAA
1 TATTTTATAA
*
13173334 TATTTTAAATGTA
1 TATTTT--AT-AA
13173347 TATTTTA-AA
1 TATTTTATAA
13173356 TATTTTATAA
1 TATTTTATAA
13173366 TATTT
1 TATTT
13173371 GTTTATTCAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
9 8 0.26
10 13 0.42
11 1 0.03
12 2 0.06
13 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (10 bp):
TATTTTATAA
Found at i:13173423 original size:14 final size:12
Alignment explanation
Indices: 13173393--13173424 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
13173383 GTTTATTTAA
13173393 ATTTTTTATTAT
1 ATTTTTTATTAT
*
13173405 ATTTTTTATAAT
1 ATTTTTTATTAT
13173417 ATTTTTTA
1 ATTTTTTA
13173425 AAAATTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTTTTATTAT
Found at i:13173431 original size:11 final size:12
Alignment explanation
Indices: 13173391--13173432 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
13173381 ACGTTTATTT
*
13173391 AAATTTTTTATT
1 AAATTTTTTATA
*
13173403 ATATTTTTTATA
1 AAATTTTTTATA
*
13173415 ATATTTTTTA-A
1 AAATTTTTTATA
13173426 AAATTTT
1 AAATTTT
13173433 AAATAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 7 0.26
12 20 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
AAATTTTTTATA
Found at i:13173482 original size:15 final size:15
Alignment explanation
Indices: 13173462--13173494 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
13173452 AATAATAAAC
13173462 AATTTTCAAAAAATA
1 AATTTTCAAAAAATA
13173477 AATTTTCAAAAAATA
1 AATTTTCAAAAAATA
13173492 AAT
1 AAT
13173495 GTTTGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
AATTTTCAAAAAATA
Found at i:13180421 original size:21 final size:19
Alignment explanation
Indices: 13180381--13180430 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
13180371 ATAATCGTTT
**
13180381 TATATTTTTAAATTTATTA
1 TATATTTTTAAAAATATTA
13180400 TATAATTTTTAAAAATATTTA
1 TAT-ATTTTTAAAAATA-TTA
*
13180421 TGTATTTTTA
1 TATATTTTTA
13180431 TATATTTCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 3 0.12
20 18 0.69
21 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TATATTTTTAAAAATATTA
Found at i:13192323 original size:18 final size:18
Alignment explanation
Indices: 13192274--13192324 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
13192264 AGCTCTCAGG
13192274 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
* *** *
13192292 CAGTAAGCTACCTTCATC
1 CATTCTTCTCCCTTCATC
13192310 CATTCTTCTCCCTTC
1 CATTCTTCTCCCTTC
13192325 CTTCATTCCT
Statistics
Matches: 23, Mismatches: 10, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.41, G:0.04, T:0.39
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:13195417 original size:14 final size:14
Alignment explanation
Indices: 13195384--13195417 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
13195374 TCTAGTAAAT
*
13195384 CATTTTCCAGAAAT
1 CATTTTCCAGAAAA
*
13195398 CATTTTCCGGAAAA
1 CATTTTCCAGAAAA
13195412 CATTTT
1 CATTTT
13195418 ACTGTCAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (14 bp):
CATTTTCCAGAAAA
Found at i:13197099 original size:29 final size:28
Alignment explanation
Indices: 13197013--13197108 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 28
13197003 GAGAACATCC
* *
13197013 AAAAATTTTGGAGGGTCTGATTAAAATTTT
1 AAAAATTTT-GAGAG-CTAATTAAAATTTT
* * *
13197043 CAAAAATTTTAAGAAGCTAATGAGAATTTT
1 -AAAAATTTTGAG-AGCTAATTAAAATTTT
13197073 AAAAATTTTGAGAGCTAATTAAAAATTTT
1 AAAAATTTTGAGAGCTAATT-AAAATTTT
13197102 AAAAATT
1 AAAAATT
13197109 ATGAAAGGCT
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
28 7 0.13
29 25 0.45
30 13 0.24
31 10 0.18
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.36
Consensus pattern (28 bp):
AAAAATTTTGAGAGCTAATTAAAATTTT
Found at i:13200579 original size:45 final size:45
Alignment explanation
Indices: 13200530--13200615 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
13200520 GTGATAAAAT
*
13200530 AGTAGATCCTAAACTAAAAGGCAAAGATACAGTCAGTGATGGAAC
1 AGTAGATCCTAAACTAAAAGGCAAAGATACAATCAGTGATGGAAC
* * *
13200575 AGTAGATCCTGAATTAGAAGGCAAAGATACAATCAGTGATG
1 AGTAGATCCTAAACTAAAAGGCAAAGATACAATCAGTGATG
13200616 AGACAGAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (45 bp):
AGTAGATCCTAAACTAAAAGGCAAAGATACAATCAGTGATGGAAC
Found at i:13205307 original size:23 final size:25
Alignment explanation
Indices: 13205262--13205307 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
13205252 TTGATCTATT
*
13205262 TTTTACTTTTGTATATATCATTTTA
1 TTTTACTTTTGTATATATAATTTTA
13205287 TTTTAC-TTT-TATATATAATTT
1 TTTTACTTTTGTATATATAATTT
13205308 ATATCACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 3 0.15
25 6 0.30
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (25 bp):
TTTTACTTTTGTATATATAATTTTA
Found at i:13206484 original size:17 final size:17
Alignment explanation
Indices: 13206462--13206494 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13206452 GCATTATTTT
*
13206462 TTAAAAATACTTTTGAG
1 TTAAAAACACTTTTGAG
13206479 TTAAAAACACTTTTGA
1 TTAAAAACACTTTTGA
13206495 TCCTGTTTTT
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:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (17 bp):
TTAAAAACACTTTTGAG
Found at i:13220828 original size:4 final size:4
Alignment explanation
Indices: 13220815--13220876 Score: 51
Period size: 4 Copynumber: 15.5 Consensus size: 4
13220805 CAACCCAATT
*
13220815 TTTA -TTA TTTA TTTA TTTA -TTC TTTA CTTTA TTTA -TTA CTTTA TTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA -TTTA -TTTA
13220863 TTT- TATTA TTTA TT
1 TTTA T-TTA TTTA TT
13220877 ACTTATTTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 14
0.74 0.05 0.22
Matches are distributed among these distances:
3 9 0.19
4 27 0.56
5 12 0.25
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:13221916 original size:10 final size:10
Alignment explanation
Indices: 13221894--13221937 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
13221884 TTCCTAAAGC
*
13221894 ATAAAAA-AT
1 ATAAAAATAA
13221903 ATAAAAATAA
1 ATAAAAATAA
*
13221913 ATAAATATAA
1 ATAAAAATAA
*
13221923 ATCAAAATAA
1 ATAAAAATAA
13221933 ATAAA
1 ATAAA
13221938 TAAAAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
9 7 0.24
10 22 0.76
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (10 bp):
ATAAAAATAA
Found at i:13221918 original size:16 final size:15
Alignment explanation
Indices: 13221894--13221923 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
13221884 TTCCTAAAGC
13221894 ATAAAAAATATAAAA
1 ATAAAAAATATAAAA
13221909 ATAAATAAATATAAA
1 ATAAA-AAATATAAA
13221924 TCAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
ATAAAAAATATAAAA
Found at i:13221945 original size:16 final size:16
Alignment explanation
Indices: 13221894--13221945 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 16
13221884 TTCCTAAAGC
*
13221894 ATAAA-AAATATAAAA
1 ATAAATAAATAAAAAA
13221909 ATAAATAAATATAAATCAAA
1 ATAAAT-AA-ATAAA--AAA
13221929 ATAAATAAATAAAAAA
1 ATAAATAAATAAAAAA
13221945 A
1 A
13221946 AAAGAAAAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
15 5 0.16
16 4 0.13
17 2 0.06
18 9 0.29
19 2 0.06
20 9 0.29
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (16 bp):
ATAAATAAATAAAAAA
Found at i:13221953 original size:24 final size:24
Alignment explanation
Indices: 13221907--13221953 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
13221897 AAAAATATAA
* * *
13221907 AAATAAATAAATATAAATCAAAAT
1 AAATAAATAAAAAAAAAACAAAAT
*
13221931 AAATAAATAAAAAAAAAAGAAAA
1 AAATAAATAAAAAAAAAACAAAA
13221954 AGAAAAAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (24 bp):
AAATAAATAAAAAAAAAACAAAAT
Found at i:13224454 original size:16 final size:18
Alignment explanation
Indices: 13224421--13224454 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13224411 TGTTAATAGA
13224421 ATGAATTTAGTGTTAATT
1 ATGAATTTAGTGTTAATT
13224439 ATGAATTT-GT-TTAATT
1 ATGAATTTAGTGTTAATT
13224455 GTGTGTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 2 0.12
18 8 0.50
ACGTcount: A:0.32, C:0.00, G:0.15, T:0.53
Consensus pattern (18 bp):
ATGAATTTAGTGTTAATT
Found at i:13229554 original size:15 final size:16
Alignment explanation
Indices: 13229534--13229567 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
13229524 ATTATTAGTT
13229534 TATTATTATATG-ATA
1 TATTATTATATGTATA
13229549 TATTATTATATGTATA
1 TATTATTATATGTATA
13229565 TAT
1 TAT
13229568 GTGCGCGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TATTATTATATGTATA
Found at i:13229864 original size:20 final size:20
Alignment explanation
Indices: 13229827--13229864 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
13229817 TATATTTACT
*
13229827 AATATATTATACTTTTTTTA
1 AATATATTATACTATTTTTA
13229847 AATATATTAATA-TATTTT
1 AATATATT-ATACTATTTT
13229865 ATATGTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
AATATATTATACTATTTTTA
Found at i:13229873 original size:28 final size:28
Alignment explanation
Indices: 13229801--13229873 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 28
13229791 GCTATTATAA
* * *
13229801 ATATTTTCTATGTTTTTATATTTACTAAT
1 ATATTTTATATG-TTTTAAATATACTAAT
* * *
13229830 ATATTATACT-TTTTTTAAATATATTAAT
1 ATATTTTA-TATGTTTTAAATATACTAAT
13229858 ATATTTTATATGTTTT
1 ATATTTTATATGTTTT
13229874 TTATCATTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
27 1 0.03
28 25 0.74
29 7 0.21
30 1 0.03
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (28 bp):
ATATTTTATATGTTTTAAATATACTAAT
Found at i:13231831 original size:21 final size:22
Alignment explanation
Indices: 13231777--13231836 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
13231767 ATGAGTTTAA
*
13231777 CACTTCAG-TGCTCTATGCTTAG
1 CACTT-AGATGCTCTTTGCTTAG
*
13231799 CACTTAGATGCTCTTTGTTTAG
1 CACTTAGATGCTCTTTGCTTAG
*
13231821 CA-TTCGATGCTCTTTG
1 CACTTAGATGCTCTTTG
13231837 GTGCTGTGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
21 15 0.44
22 19 0.56
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (22 bp):
CACTTAGATGCTCTTTGCTTAG
Found at i:13232485 original size:17 final size:17
Alignment explanation
Indices: 13232463--13232555 Score: 79
Period size: 17 Copynumber: 5.6 Consensus size: 17
13232453 CTTATCAAGA
13232463 TAAATATTAAATTAAAT
1 TAAATATTAAATTAAAT
13232480 TAAATATTAAGA-T-AAT
1 TAAATATTAA-ATTAAAT
*
13232496 TAATTTATTAAATT-AAT
1 TAA-ATATTAAATTAAAT
* * * *
13232513 AAAATACT--ATCAAAA
1 TAAATATTAAATTAAAT
13232528 TAAATATTAAATTAAAT
1 TAAATATTAAATTAAAT
*
13232545 TTAATATTAAA
1 TAAATATTAAA
13232556 ACTATTAAAA
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
14 2 0.03
15 8 0.14
16 10 0.17
17 38 0.64
18 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (17 bp):
TAAATATTAAATTAAAT
Found at i:13232561 original size:26 final size:26
Alignment explanation
Indices: 13232529--13232595 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
13232519 CTATCAAAAT
13232529 AAATATTAAATTAAAT-TTAATATTA
1 AAATATTAAATTAAATATTAATATTA
* *
13232554 AAACTATTAAAAT-AATATTAATTTTA
1 AAA-TATTAAATTAAATATTAATATTA
*
13232580 AAATAATTAATTTAAA
1 AAAT-ATTAAATTAAA
13232596 ATCAAATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
25 7 0.21
26 25 0.74
27 2 0.06
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (26 bp):
AAATATTAAATTAAATATTAATATTA
Found at i:13232593 original size:14 final size:17
Alignment explanation
Indices: 13232560--13232597 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
13232550 ATTAAAACTA
13232560 TTAAAATAATATTAATT
1 TTAAAATAATATTAATT
13232577 TTAAAAT-A-ATTAA-T
1 TTAAAATAATATTAATT
13232591 TTAAAAT
1 TTAAAAT
13232598 CAAATTATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 5 0.24
16 1 0.05
17 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAAATAATATTAATT
Found at i:13233184 original size:15 final size:15
Alignment explanation
Indices: 13233157--13233195 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
13233147 GGCGCCGAAA
*
13233157 GCCGAGAAAAAGCCC
1 GCCGAGAAGAAGCCC
* *
13233172 GCTGAGAAGAAGCCT
1 GCCGAGAAGAAGCCC
13233187 GCCGAGAAG
1 GCCGAGAAG
13233196 CCAACGGAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.26, G:0.33, T:0.05
Consensus pattern (15 bp):
GCCGAGAAGAAGCCC
Found at i:13247530 original size:3 final size:3
Alignment explanation
Indices: 13247522--13247565 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
13247512 TCCGAAAACG
13247522 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
13247566 AAGATGAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:13257389 original size:21 final size:22
Alignment explanation
Indices: 13257365--13257416 Score: 72
Period size: 20 Copynumber: 2.4 Consensus size: 22
13257355 TTTAAAATAC
13257365 TTTAAAAATATTTTTTT-TATT
1 TTTAAAAATATTTTTTTGTATT
*
13257386 TTT-AAAATATTTTTTTGTGTT
1 TTTAAAAATATTTTTTTGTATT
13257407 TATTAAAAAT
1 T-TTAAAAAT
13257417 CGGGCCGGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 13 0.48
21 7 0.26
22 2 0.07
23 5 0.19
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTAAAAATATTTTTTTGTATT
Found at i:13271710 original size:19 final size:19
Alignment explanation
Indices: 13271686--13271727 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
13271676 TAAAAGCAAC
13271686 ACAACATCAACCCAAATAA
1 ACAACATCAACCCAAATAA
* **
13271705 ACAACATGATTCCAAATAA
1 ACAACATCAACCCAAATAA
13271724 ACAA
1 ACAA
13271728 GATTATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.57, C:0.26, G:0.02, T:0.14
Consensus pattern (19 bp):
ACAACATCAACCCAAATAA
Found at i:13278173 original size:31 final size:31
Alignment explanation
Indices: 13278116--13278175 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
13278106 AGAGGTGGGA
*
13278116 TGGGAAGGGAATAAAAGTTTTAGGGAAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
* * *
13278147 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGAAAAA
13278176 TAAAAGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGAAAAAG
Found at i:13287806 original size:46 final size:46
Alignment explanation
Indices: 13287739--13287915 Score: 284
Period size: 46 Copynumber: 3.8 Consensus size: 46
13287729 AGTGTGGAAC
* * *
13287739 GTAGGTATGGTATTTCAGTAAAGAAAACCATATTCAGTTGTGAAAA
1 GTAGGTATGATATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
*
13287785 GTAGGTATGATATTTCAGTAAAGAAAACCATACTGAGTTGTGAGAA
1 GTAGGTATGATATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
* *
13287831 GTAGGTATGGTATTTCAGTAACGAAAACCATACTGAGTTGTGAAAA
1 GTAGGTATGATATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
13287877 GTAGGTAT-AGTATTTCAGTAAAGAAAACCATACTGAGTT
1 GTAGGTATGA-TATTTCAGTAAAGAAAACCATACTGAGTT
13287916 ATAGCATTGT
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
46 121 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (46 bp):
GTAGGTATGATATTTCAGTAAAGAAAACCATACTGAGTTGTGAAAA
Found at i:13291719 original size:5 final size:5
Alignment explanation
Indices: 13291709--13291762 Score: 108
Period size: 5 Copynumber: 10.8 Consensus size: 5
13291699 AAGTTAATTA
13291709 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
13291759 TATA
1 TATA
13291763 AAAGAAACAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 49 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:13296624 original size:23 final size:23
Alignment explanation
Indices: 13296598--13296650 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
13296588 TATGGAAGGG
*
13296598 TTCTTTCATTATGGTATTAATTT
1 TTCTTTCATTATGCTATTAATTT
*
13296621 TTCTTTCATTTTGCTATTAATTT
1 TTCTTTCATTATGCTATTAATTT
13296644 TTCTTTC
1 TTCTTTC
13296651 CTCCATCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.17, C:0.13, G:0.06, T:0.64
Consensus pattern (23 bp):
TTCTTTCATTATGCTATTAATTT
Found at i:13302819 original size:27 final size:28
Alignment explanation
Indices: 13302789--13302841 Score: 99
Period size: 27 Copynumber: 1.9 Consensus size: 28
13302779 CAAATGGGTC
13302789 GGGGAATCAGCACTTAGCAA-CCCCTCG
1 GGGGAATCAGCACTTAGCAATCCCCTCG
13302816 GGGGAATCAGCACTTAGCAATCCCCT
1 GGGGAATCAGCACTTAGCAATCCCCT
13302842 TTCACATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.80
28 5 0.20
ACGTcount: A:0.26, C:0.32, G:0.25, T:0.17
Consensus pattern (28 bp):
GGGGAATCAGCACTTAGCAATCCCCTCG
Found at i:13302896 original size:103 final size:102
Alignment explanation
Indices: 13302653--13303019 Score: 504
Period size: 103 Copynumber: 3.6 Consensus size: 102
13302643 AACCGTTGTT
* * * * *
13302653 GGTGGATTCCGCACTTAGC-ACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCTTGGGGG
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACATAGCAACCCCTCGGGGG
* * * *
13302717 AATCAGCACTTAGCAACCCCCTTCACATTTCAGATGC
66 AATCAGCACTTAGCAACCCCTTTCACATTTAAAATAC
* ** * *
13302754 GATGGAATCAGCACTTAGCAACCACCAAATGGGTCGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 GGTGGAATCAGCACTTAGCAACCACC-AATGAATAGGGGAATCAGCACATAGCAACCCCTCGGGG
13302819 GAATCAGCACTTAGCAATCCCCTTTCACATTTAAAATAC
65 GAATCAGCACTTAGCAA-CCCCTTTCACATTTAAAATAC
* * *
13302858 GGTGGAATCAGCACTTAGCAACCACCAAT-AGGTAGGGGAATCAGCACTTAGCAACCCCTCGGAG
1 GGTGGAATCAGCACTTAGCAACCACCAATGA-ATAGGGGAATCAGCACATAGCAACCCCTCGGGG
*
13302922 GAATCAGCACTTAGCAACCCCCTTCCACATTTAAAATAC
65 GAATCAGCACTTAGCAA-CCCCTTTCACATTTAAAATAC
* *
13302961 GGTGGAATCAGCACTTAGAAACCACCAATGAATAGGGGAATCAGCACATAACAACCCCT
1 GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACATAGCAACCCCT
13303020 TTATATGCAA
Statistics
Matches: 239, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
101 16 0.07
102 6 0.03
103 174 0.73
104 43 0.18
ACGTcount: A:0.32, C:0.29, G:0.20, T:0.19
Consensus pattern (102 bp):
GGTGGAATCAGCACTTAGCAACCACCAATGAATAGGGGAATCAGCACATAGCAACCCCTCGGGGG
AATCAGCACTTAGCAACCCCTTTCACATTTAAAATAC
Found at i:13302924 original size:27 final size:30
Alignment explanation
Indices: 13302861--13302942 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 30
13302851 AAAATACGGT
13302861 GGAATCAGCACTTAGCAACCACCAATAGGTAGG
1 GGAATCAGCACTTAGCAACC-CC-ATAGGTA-G
*
13302894 GGAATCAGCACTTAGCAACCCC-TCGG-A-
1 GGAATCAGCACTTAGCAACCCCATAGGTAG
13302921 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
13302943 CTTCCACATT
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 22 0.46
29 1 0.02
30 3 0.06
32 2 0.04
33 20 0.42
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.15
Consensus pattern (30 bp):
GGAATCAGCACTTAGCAACCCCATAGGTAG
Found at i:13303380 original size:30 final size:29
Alignment explanation
Indices: 13303346--13303410 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
13303336 TAGTCCACCA
13303346 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
13303376 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
13303406 CCCAA
1 CCCAA
13303411 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:13303384 original size:31 final size:30
Alignment explanation
Indices: 13303353--13303410 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13303343 CCACCCAACT
13303353 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
13303383 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
13303411 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:13308556 original size:1 final size:1
Alignment explanation
Indices: 13308550--13308574 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
13308540 GAAGCTTTAC
13308550 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
13308575 CCTCCCTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:13311403 original size:17 final size:18
Alignment explanation
Indices: 13311381--13311414 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13311371 TAAATTTTAC
13311381 TATTAAACTTTG-AATTT
1 TATTAAACTTTGTAATTT
*
13311398 TATTAAATTTTGTAATT
1 TATTAAACTTTGTAATT
13311415 AAATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (18 bp):
TATTAAACTTTGTAATTT
Found at i:13311403 original size:30 final size:31
Alignment explanation
Indices: 13311369--13311440 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
13311359 CTATTTAGTG
13311369 ATTAAATTTTACT-ATTAAACTTTGAA-TTTT-
1 ATTAAATTTTACTAATTAAA-TTT-AATTTTTA
*
13311399 ATTAAATTTT-GTAATTAAATTTAATTTTTA
1 ATTAAATTTTACTAATTAAATTTAATTTTTA
13311429 ATTAAATTTTAC
1 ATTAAATTTTAC
13311441 CACTCAATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 2 0.06
29 8 0.22
30 26 0.72
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.54
Consensus pattern (31 bp):
ATTAAATTTTACTAATTAAATTTAATTTTTA
Found at i:13311439 original size:18 final size:18
Alignment explanation
Indices: 13311403--13311437 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
13311393 AATTTTATTA
13311403 AATTTTGTAATTAAATTT
1 AATTTTGTAATTAAATTT
13311421 AATTTT-TAATTAAATTT
1 AATTTTGTAATTAAATTT
13311438 TACCACTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (18 bp):
AATTTTGTAATTAAATTT
Found at i:13312230 original size:6 final size:6
Alignment explanation
Indices: 13312219--13312255 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
13312209 TTTAAAAATT
13312219 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA A
13312256 AAAAAAACTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
ATATTA
Found at i:13312671 original size:70 final size:71
Alignment explanation
Indices: 13312597--13312738 Score: 234
Period size: 71 Copynumber: 2.0 Consensus size: 71
13312587 TTATTTTAGA
13312597 TACTAAAAATAAAAAAAATT-ATAATTT-AAGCACTCACATCACGTTAGATAGTTAAATTATTTT
1 TACTAAAAAT-AAAAAAATTCATAATTTAAAGCACTCACATCACGTTAGATAGTTAAATTATTTT
13312660 CGTCACT
65 CGTCACT
* * *
13312667 TACTAAAAATAAAAAAATTCATAATTTAAAGCACTTACGTCACGTTAGATAGTTAAATTATTTTT
1 TACTAAAAATAAAAAAATTCATAATTTAAAGCACTCACATCACGTTAGATAGTTAAATTATTTTC
13312732 GTCACT
66 GTCACT
13312738 T
1 T
13312739 CCTTCAAATT
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
69 9 0.13
70 17 0.25
71 41 0.61
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (71 bp):
TACTAAAAATAAAAAAATTCATAATTTAAAGCACTCACATCACGTTAGATAGTTAAATTATTTTC
GTCACT
Found at i:13315470 original size:22 final size:24
Alignment explanation
Indices: 13315426--13315470 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
13315416 TAATCACACC
13315426 AATTTTTAACATTAAAAATGAATAT
1 AATTTTTAACA-TAAAAATGAATAT
13315451 AATTTTTAACA-AAAAA-GAAT
1 AATTTTTAACATAAAAATGAAT
13315471 TATTTGTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 5 0.25
25 11 0.55
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (24 bp):
AATTTTTAACATAAAAATGAATAT
Found at i:13316198 original size:4 final size:4
Alignment explanation
Indices: 13316189--13316215 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
13316179 CCCTTCTTTG
13316189 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
13316216 TTGGTGTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:13329353 original size:4 final size:4
Alignment explanation
Indices: 13329344--13329370 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
13329334 CCCTTCTTTG
13329344 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
13329371 TTGGTGTTCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:13332474 original size:21 final size:21
Alignment explanation
Indices: 13332450--13332510 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
13332440 AAATATGGAC
*
13332450 AAATTGAAATTGTATAAATTA
1 AAATTGAAATTGTAAAAATTA
* *
13332471 AAATTGAGATTGTAAAAATTG
1 AAATTGAAATTGTAAAAATTA
13332492 AAATTGAAATTGTAAAAAT
1 AAATTGAAATTGTAAAAAT
13332511 AAACAGAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.34
Consensus pattern (21 bp):
AAATTGAAATTGTAAAAATTA
Found at i:13336144 original size:15 final size:15
Alignment explanation
Indices: 13336124--13336163 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
13336114 AACCTCTATG
13336124 TTGAGAACAATTATA
1 TTGAGAACAATTATA
13336139 TTGAGAACAATTATA
1 TTGAGAACAATTATA
13336154 TTGAGAACAA
1 TTGAGAACAA
13336164 CTCGTGTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (15 bp):
TTGAGAACAATTATA
Found at i:13336947 original size:17 final size:17
Alignment explanation
Indices: 13336921--13336962 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
13336911 TTTCCATATT
13336921 TTAAATAAAAACATAAAA
1 TTAAA-AAAAACATAAAA
*
13336939 TTAAAAAAAATATAAAA
1 TTAAAAAAAACATAAAA
13336956 TATAAAA
1 T-TAAAA
13336963 TTATGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
TTAAAAAAAACATAAAA
Found at i:13336960 original size:24 final size:25
Alignment explanation
Indices: 13336923--13336980 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
13336913 TCCATATTTT
13336923 AAATA-AAAACATAAAATTA-AAAA
1 AAATATAAAACATAAAATTAGAAAA
*
13336946 AAATATAAAATATAAAATTATGAAAA
1 AAATATAAAACATAAAATTA-GAAAA
13336972 AAA-ATAAAA
1 AAATATAAAA
13336981 AAATATTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 5 0.16
24 13 0.42
25 6 0.19
26 7 0.23
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.21
Consensus pattern (25 bp):
AAATATAAAACATAAAATTAGAAAA
Found at i:13336982 original size:27 final size:27
Alignment explanation
Indices: 13336934--13337003 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 27
13336924 AATAAAAACA
*
13336934 TAAAATT-AAAAAAAAT-ATAAAATA-
1 TAAAATTGAAAAAAAATAAAAAAATAT
13336958 TAAAATTATGAAAAAAAATAAAAAAATATT
1 TAAAA-T-TGAAAAAAAATAAAAAAATA-T
13336988 TAAAATTGAAAAAAAA
1 TAAAATTGAAAAAAAA
13337004 CATTTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
24 5 0.13
25 1 0.03
26 1 0.03
27 9 0.23
28 17 0.44
29 1 0.03
30 5 0.13
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (27 bp):
TAAAATTGAAAAAAAATAAAAAAATAT
Found at i:13337021 original size:21 final size:21
Alignment explanation
Indices: 13336975--13337023 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
13336965 ATGAAAAAAA
*
13336975 ATAAAAAAATATTTAAAATTG
1 ATAAAAAAACATTTAAAATTG
*
13336996 A-AAAAAAACATTTTAAATAT-
1 ATAAAAAAACATTTAAAAT-TG
13337016 ATAAAAAA
1 ATAAAAAA
13337024 TCAAAATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (21 bp):
ATAAAAAAACATTTAAAATTG
Found at i:13337236 original size:22 final size:22
Alignment explanation
Indices: 13337211--13337258 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
13337201 TTTTTATATA
*
13337211 ATATTTTGATTTTTTAAAATTT
1 ATATTTTGATATTTTAAAATTT
* *
13337233 ATATTTTTATATTTTAGAATTT
1 ATATTTTGATATTTTAAAATTT
13337255 -TATT
1 ATATT
13337259 AAAAAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
ATATTTTGATATTTTAAAATTT
Found at i:13338187 original size:19 final size:17
Alignment explanation
Indices: 13338157--13338199 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
13338147 AATTTTAATT
13338157 AAAAAATAAAAAATTAGA
1 AAAAAATAAAAAATT-GA
*
13338175 AAAAAATATAAAAATTGT
1 AAAAAATA-AAAAATTGA
13338193 AAAAAAT
1 AAAAAAT
13338200 TTTAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 16 0.70
19 7 0.30
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAAAATAAAAAATTGA
Found at i:13338206 original size:29 final size:29
Alignment explanation
Indices: 13338163--13338322 Score: 89
Period size: 30 Copynumber: 5.5 Consensus size: 29
13338153 AATTAAAAAA
*
13338163 TAAAAAATTAGAAAAAAATATAAAAATTG
1 TAAAAAATTATAAAAAAATATAAAAATTG
* * * *
13338192 TAAAAAATTTTAAAAAAGT-TGTAAAATTT
1 TAAAAAATTATAAAAAAATAT-AAAAATTG
* * *
13338221 TATAAAAATTGTAAAAGAATAT-AAAA-TA
1 TA-AAAAATTATAAAAAAATATAAAAATTG
* *
13338249 TATAAAATTATAAAAAAA-ATTATAAAATTT
1 TAAAAAATTATAAAAAAATA-TA-AAAATTG
* * * *
13338279 TATAAAGTCATAAGAAAATTATACAAAA-TG
1 TAAAAAATTATAA-AAAAATATA-AAAATTG
13338309 TAAAGAAA-TATAAA
1 TAAA-AAATTATAAA
13338323 TTTCGTAATT
Statistics
Matches: 100, Mismatches: 21, Indels: 20
0.71 0.15 0.14
Matches are distributed among these distances:
26 1 0.01
27 14 0.14
28 4 0.04
29 33 0.33
30 34 0.34
31 13 0.13
32 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.30
Consensus pattern (29 bp):
TAAAAAATTATAAAAAAATATAAAAATTG
Found at i:13338243 original size:19 final size:18
Alignment explanation
Indices: 13338156--13338246 Score: 85
Period size: 19 Copynumber: 4.8 Consensus size: 18
13338146 AAATTTTAAT
13338156 TAAAAAATA-AAAAATTAG
1 TAAAAAATATAAAAATT-G
*
13338174 AAAAAAATATAAAAATTG
1 TAAAAAATATAAAAATTG
*
13338192 TAAAAAATTTTAAAAAAGTTG
1 TAAAAAA-TAT-AAAAA-TTG
**
13338213 TAAAATTTTATAAAAATTG
1 TAAAA-AATATAAAAATTG
13338232 TAAAAGAATATAAAA
1 TAAAA-AATATAAAA
13338247 TATATAAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
18 15 0.25
19 24 0.41
20 10 0.17
21 10 0.17
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.29
Consensus pattern (18 bp):
TAAAAAATATAAAAATTG
Found at i:13338265 original size:19 final size:19
Alignment explanation
Indices: 13338162--13338277 Score: 56
Period size: 19 Copynumber: 6.0 Consensus size: 19
13338152 TAATTAAAAA
* * *
13338162 ATAAAAAATTAGAAAAAAAT
1 ATAAAAAA-TATATAAAATT
* * *
13338182 ATAAAAATTGTAAAAAATT
1 ATAAAAAATATATAAAATT
* *
13338201 TTAAAAAAGT-TGTAAAATT
1 ATAAAAAA-TATATAAAATT
* * **
13338220 TTATAAAAAT-TGTAAAAGA
1 ATA-AAAAATATATAAAATT
*
13338239 ATATAAAATATATAAAATT
1 ATAAAAAATATATAAAATT
*
13338258 ATAAAAAAAATTATAAAATT
1 ATAAAAAATA-TATAAAATT
13338278 TTATAAAGTC
Statistics
Matches: 75, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
18 5 0.07
19 48 0.64
20 22 0.29
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
ATAAAAAATATATAAAATT
Found at i:13338275 original size:10 final size:10
Alignment explanation
Indices: 13338162--13338275 Score: 69
Period size: 10 Copynumber: 11.6 Consensus size: 10
13338152 TAATTAAAAA
13338162 ATAAAAAATT
1 ATAAAAAATT
* *
13338172 AGAAAAAAAT
1 ATAAAAAATT
13338182 AT-AAAAATT
1 ATAAAAAATT
*
13338191 GTAAAAAATT
1 ATAAAAAATT
*
13338201 TTAAAAAAGTT
1 ATAAAAAA-TT
* **
13338212 GTAAAATTTT
1 ATAAAAAATT
13338222 AT-AAAAATT
1 ATAAAAAATT
*
13338231 GTAAAAGAA-T
1 ATAAAA-AATT
13338241 AT--AAAA-T
1 ATAAAAAATT
*
13338248 ATATAAAATT
1 ATAAAAAATT
13338258 ATAAAAAAAATT
1 AT--AAAAAATT
13338270 ATAAAA
1 ATAAAA
13338276 TTTTATAAAG
Statistics
Matches: 80, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
7 5 0.06
8 2 0.03
9 17 0.21
10 38 0.47
11 9 0.11
12 9 0.11
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:13340385 original size:32 final size:32
Alignment explanation
Indices: 13340344--13340408 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
13340334 ATTGAAAATT
*
13340344 TCACAATCTCAAATTGATATCGGATTACTTAG
1 TCACAATCTCAAATTGATATCGAATTACTTAG
13340376 TCACAATCTCAAATTGATATCGAATTACTTAG
1 TCACAATCTCAAATTGATATCGAATTACTTAG
13340408 T
1 T
13340409 ACTTACACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.35
Consensus pattern (32 bp):
TCACAATCTCAAATTGATATCGAATTACTTAG
Found at i:13350118 original size:21 final size:22
Alignment explanation
Indices: 13350083--13350125 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
13350073 GGAACATCTG
13350083 ACTGATATATTTTACTGATTTT
1 ACTGATATATTTTACTGATTTT
*
13350105 ACTGAT-TTTTTTACTGATTTT
1 ACTGATATATTTTACTGATTTT
13350126 TTTTAAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.23, C:0.09, G:0.09, T:0.58
Consensus pattern (22 bp):
ACTGATATATTTTACTGATTTT
Found at i:13350130 original size:13 final size:12
Alignment explanation
Indices: 13350101--13350128 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13350091 ATTTTACTGA
13350101 TTTTACTGATTT
1 TTTTACTGATTT
13350113 TTTTACTGATTT
1 TTTTACTGATTT
13350125 TTTT
1 TTTT
13350129 TAAAACTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (12 bp):
TTTTACTGATTT
Found at i:13352623 original size:44 final size:44
Alignment explanation
Indices: 13352574--13352714 Score: 153
Period size: 44 Copynumber: 3.1 Consensus size: 44
13352564 AATATTAATT
13352574 ATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGA
1 ATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGA
* * * * **
13352618 ATTTTATGAAATTATATATCATT-AT-TAA-ATTATATTTAATATTAATT
1 A-TTT-T-AAATTATATA-AATTCATATAAGA--AAATTTATTATCAAGA
13352665 ATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGA
1 ATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGA
13352709 ATTTTA
1 ATTTTA
13352715 TGAAATTATA
Statistics
Matches: 76, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
43 3 0.04
44 30 0.39
45 8 0.11
46 8 0.11
47 24 0.32
48 3 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (44 bp):
ATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGA
Found at i:13352743 original size:44 final size:45
Alignment explanation
Indices: 13352604--13352743 Score: 139
Period size: 44 Copynumber: 3.1 Consensus size: 45
13352594 ATATAAGAAA
13352604 ATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 ATTTATTATCAAGAATTTTATGAAATTATATA--ATTATTAAATTAT
* * ** *
13352651 ATTTAATATTAATTA-TTT-T-AAATTATATAAATTCATATAAGA--AA
1 ATTTATTATCAAGAATTTTATGAAATTATAT-AATT-AT-TAA-ATTAT
13352695 ATTTATTATCAAGAATTTTATGAAATTATAT-ATTATTAAATTAT
1 ATTTATTATCAAGAATTTTATGAAATTATATAATTATTAAATTAT
13352739 ATTTA
1 ATTTA
13352744 ATAATAATTA
Statistics
Matches: 74, Mismatches: 10, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
44 31 0.42
45 11 0.15
46 5 0.07
47 20 0.27
ACGTcount: A:0.45, C:0.03, G:0.04, T:0.49
Consensus pattern (45 bp):
ATTTATTATCAAGAATTTTATGAAATTATATAATTATTAAATTAT
Found at i:13352805 original size:91 final size:91
Alignment explanation
Indices: 13352549--13352790 Score: 420
Period size: 91 Copynumber: 2.7 Consensus size: 91
13352539 AATTTGGGCC
13352549 ATTACAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATC
1 ATTA-AATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATC
13352614 AAGAATTTTATGAAATTATATATCATT
65 AAGAATTTTATGAAATTATATATCATT
13352641 ATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCA
1 ATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCA
13352706 AGAATTTTATGAAA-T-TATAT-ATT
66 AGAATTTTATGAAATTATATATCATT
* *
13352729 ATTAAATTATATTTAATAATAATTATTATT-AATTATACAAATTCATATAAGAAAATTTATTA
1 ATTAAATTATATTTAATATTAATTATT-TTAAATTATATAAATTCATATAAGAAAATTTATTA
13352791 GTAATAATTA
Statistics
Matches: 147, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
88 60 0.41
89 7 0.05
90 1 0.01
91 75 0.51
92 4 0.03
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
ATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCA
AGAATTTTATGAAATTATATATCATT
Found at i:13353757 original size:3 final size:3
Alignment explanation
Indices: 13353749--13353784 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
13353739 ACAAATTTCA
13353749 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
13353785 ACTCTTTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:13356033 original size:19 final size:20
Alignment explanation
Indices: 13355993--13356036 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
13355983 GTCTCTCTAG
* *
13355993 GCATT-CATTTCATGCATTT
1 GCATTACATTGCATGCATAT
13356012 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
13356031 GCATTA
1 GCATTA
13356037 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:13358115 original size:18 final size:18
Alignment explanation
Indices: 13358088--13358138 Score: 79
Period size: 17 Copynumber: 2.9 Consensus size: 18
13358078 TCAGACTAAA
13358088 AAAAAC-ACAAAAAAAAC
1 AAAAACAACAAAAAAAAC
13358105 AAAAACAACAAAAAAAAC
1 AAAAACAACAAAAAAAAC
*
13358123 AAAAA-AATAAAAAAAA
1 AAAAACAACAAAAAAAA
13358139 TCGAAGTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 16 0.50
18 16 0.50
ACGTcount: A:0.86, C:0.12, G:0.00, T:0.02
Consensus pattern (18 bp):
AAAAACAACAAAAAAAAC
Found at i:13358139 original size:9 final size:9
Alignment explanation
Indices: 13358086--13358138 Score: 72
Period size: 9 Copynumber: 5.8 Consensus size: 9
13358076 GTTCAGACTA
13358086 AAAAAAACAC
1 AAAAAAA-AC
13358096 AAAAAAAAC
1 AAAAAAAAC
*
13358105 AAAAACAAC
1 AAAAAAAAC
13358114 AAAAAAAAC
1 AAAAAAAAC
13358123 AAAAAAATA-
1 AAAAAAA-AC
13358132 AAAAAAA
1 AAAAAAA
13358139 TCGAAGTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
9 32 0.80
10 8 0.20
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:13358162 original size:10 final size:9
Alignment explanation
Indices: 13358147--13358189 Score: 52
Period size: 10 Copynumber: 4.6 Consensus size: 9
13358137 AATCGAAGTC
13358147 AAAAAAAAGG
1 AAAAAAAA-G
13358157 AAAAAAAAG
1 AAAAAAAAG
13358166 AAAAAAGAA-
1 AAAAAA-AAG
13358175 AAATAAAAAG
1 AAA-AAAAAG
13358185 AAAAA
1 AAAAA
13358190 GGAGAGGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
9 14 0.47
10 16 0.53
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:13360516 original size:175 final size:173
Alignment explanation
Indices: 13360225--13361299 Score: 1705
Period size: 175 Copynumber: 6.2 Consensus size: 173
13360215 GTTCATTATA
* *
13360225 CAGGTCTTATTTCCCTGAGATTACGGTGGAACAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
** *
13360290 ATTACAGCGGAGCAGATTGAATATGGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
13360355 ACCAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
131 A--AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
*
13360400 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
** * *
13360465 ATTACAGCGGAGCAGATTGAATATAGTAATCCCATCTCCCTGAGATTACAGTTGAGCGGATT---
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
*
13360527 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAC
131 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
*
13360570 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
13360635 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT---
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
* *
13360697 AAAGGATCTTATCTCTCTGAAGTTACAGTAAAGCAGATCGCAC
131 AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
* *
13360740 CAGGTCTTATTTCCCTTAGATTACAGTGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
* * *
13360805 ATTACAGCGGAGCAGATTGAAGCTAGTAATTCTATCTCCCTGATATTACAGTGGAGTGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
* *
13360870 ACTAAGAATCTTATCTCTCTGAAGTTACAGTAGAGTCGATCGCAC
131 A--AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
*
13360915 CAGGTCTTATTTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
*
13360980 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AA
* * *
13361045 ATAAAGGATCTTATCTATCTAAAGTTACAGTAGAGTAGATCGCAT
130 A-AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
13361090 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
*
13361155 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AA
* * ***
13361220 ATAAAGGATCTTATCTCTTTGAAGTTACAGTATAGTAGATCGTGT
130 A-AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
* * *
13361265 CAGATCTTATCTT-CCTGAGATTACAGCGGAGCAGA
1 CAGGTCTTAT-TTCCCTGAGATTACAGTGGAACAGA
13361300 TTGAAGCTAG
Statistics
Matches: 848, Mismatches: 44, Indels: 16
0.93 0.05 0.02
Matches are distributed among these distances:
170 327 0.39
172 1 0.00
173 1 0.00
175 513 0.60
176 5 0.01
177 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (173 bp):
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
AAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAC
Found at i:13360883 original size:345 final size:344
Alignment explanation
Indices: 13360225--13361299 Score: 1676
Period size: 345 Copynumber: 3.1 Consensus size: 344
13360215 GTTCATTATA
* *
13360225 CAGGTCTTATTTCCCTGAGATTACGGTGGAACAGACCGAAGAATTGCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
** *
13360290 ATTACAGCGGAGCAGATTGAATATGGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT---
13360355 ACCAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGA
128 A--AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGA
*
13360420 TTACAGTGGAACAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
191 TTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
** * *
13360485 ATATAGTAATCCCATCTCCCTGAGATTACAGTTGAGCGGATT---A-AAGGATCTTATCTCTCTG
256 AGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAGGATCTTATCTCTCTG
13360546 AAGTTACAGTAGAGCAGATCGCAC
321 AAGTTACAGTAGAGCAGATCGCAC
*
13360570 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
13360635 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
* * *
13360700 GGATCTTATCTCTCTGAAGTTACAGTAAAGCAGATCGCACCAGGTCTTATTTCCCTTAGATTACA
131 GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACA
*
13360765 GTGGAACAGACTGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTA
196 GTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTA
* * * *
13360830 GTAATTCTATCTCCCTGATATTACAGTGGAGTGGATTAAAACTAAGAATCTTATCTCTCTGAAGT
261 GTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA-TAAGGATCTTATCTCTCTGAAGT
13360895 TACAGTAGAGTC-GATCGCAC
325 TACAGTAGAG-CAGATCGCAC
*
13360915 CAGGTCTTATTTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
1 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
*
13360980 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGATTAAA
66 ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGA-T---
* * *
13361045 ATAAAGGATCTTATCTATCTAAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATTTCCCTGAGA
127 -TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGA
13361110 TTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
191 TTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGA
* *
13361175 AGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTTT
256 AGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT-AAGGATCTTATCTCTCT
* * ***
13361240 GAAGTTACAGTATAGTAGATCGTGT
320 GAAGTTACAGTAGAGCAGATCGCAC
* * *
13361265 CAGATCTTATCTT-CCTGAGATTACAGCGGAGCAGA
1 CAGGTCTTAT-TTCCCTGAGATTACAGTGGAACAGA
13361300 TTGAAGCTAG
Statistics
Matches: 672, Mismatches: 44, Indels: 23
0.91 0.06 0.03
Matches are distributed among these distances:
340 157 0.23
342 1 0.00
343 1 0.00
345 282 0.42
346 2 0.00
349 1 0.00
350 226 0.34
351 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (344 bp):
CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAG
ATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAA
GGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATTACA
GTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTA
GTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAGGATCTTATCTCTCTGAAGTT
ACAGTAGAGCAGATCGCAC
Found at i:13361292 original size:129 final size:129
Alignment explanation
Indices: 13361135--13361576 Score: 680
Period size: 129 Copynumber: 3.5 Consensus size: 129
13361125 CCGAAGAATT
13361135 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
* *
13361200 TTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTTTGAAGTTACAGTATAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTATAGTAGATCGTG
*
13361264 TCAGATCTTATCTTCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
*
13361329 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTG
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTATAGTAGATCGTG
13361393 TCAGATCTTATCTCCCTGAGATTACA----A-CAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
**
13361453 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGT-GTAGATCGCA
66 TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA-TAGTAGATCGTG
* * * * * * * * * * *
13361517 TCAGGTTTTACCTCCCTGTGGTTACAGTGGAGTACATAGAAGCCAGTAATTCTATCTCCC
1 TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCC
13361577 CGACATTGCG
Statistics
Matches: 289, Mismatches: 18, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
124 114 0.39
125 1 0.00
128 1 0.00
129 173 0.60
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (129 bp):
TCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGA
TTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTATAGTAGATCGTG
Found at i:13361364 original size:44 final size:43
Alignment explanation
Indices: 13360225--13361503 Score: 495
Period size: 44 Copynumber: 29.7 Consensus size: 43
13360215 GTTCATTATA
* * * **
13360225 CAGG-TCTTATTTCCCTGAGATTACGGTGGAACAGACCGAAGAATT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA-T
* *
13360270 GCA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAAT
1 -CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * *
13360312 -ATGGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAC
1 CA-GG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * * *** *
13360357 CAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGCAC
1 C-AGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT
* * **
13360400 CAGG-TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA-T
* *
13360445 GCA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATAT
1 -CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAAT
* ** * *
13360489 -AGTAATCCCATCTCCCTGAGATTACAGTTGAGCGGATT--AA-
1 CAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * *** *
13360529 -AGGATCTTATCTCTCTGA-AGTTACAGTAGAGCAGA-TCGCAC
1 CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT
* * *
13360570 CAGG-TCTTATTTCCCTGAGATTACAGTGGAACAGACTGAAGAATTT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--T
* * *
13360616 CA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * *
13360657 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT--AA-
1 C-AG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* ** *** *
13360699 -AGGATCTTATCTCTCTGA-AGTTACAGTAAAGCAGA-TCGCAC
1 CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT
* * * *
13360740 CAGG-TCTTATTTCCCTTAGATTACAGTGGAACAGACTGAAGAATTT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--T
* * *
13360786 CA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * **
13360827 CTAGTAAT-TCTATCTCCCTGATATTACAGTGGAGTGGATTAAAACT
1 C-AG-GATCT-TATCTCCCTGAGATTACAGTGGAGCAGATTAAAA-T
* * * * *** *
13360873 AAGAATCTTATCTCTCTGA-AGTTACAGTAGAGTC-GA-TCGCAC
1 CAGGATCTTATCTCCCTGAGA-TTACAGTGGAG-CAGATTAAAAT
* ** **
13360915 CAGG-TCTTATTTCCCTGAGATTACAGTGGAATAGACCGAAGAATTT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--T
* * *
13360961 CA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * * *
13361002 CTAGTAATCCTATCTCCTTGAGATTACAGTGGAGCGGATTAAAAT
1 C-AG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* ** * * * ***
13361047 AAAGGATCTTATCTATCT-AAAGTTACAGTAGAGTAGA-TCGCAT
1 -CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT
* * **
13361090 CAGG-TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--T
* * *
13361136 CA-GATCTTATCTCCCTGAGATTACAGCGGAGCAGATT-GAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* *
13361177 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
1 C-AG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* ** ** * ****
13361222 AAAGGATCTTATCTCTTTGA-AGTTACAGTATAGTAGA-TCGTGT
1 -CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT
* * * *
13361265 CA-GATCTTATCTTCCTGAGATTACAGCGGAGCAGATT-GAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * *
13361306 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
1 C-AG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * * * ****
13361351 AAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGTGT
1 -CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAT
* *
13361394 CA-GATCTTATCTCCCTGAGATTACA----A-CAGATT-GAAG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* * *
13361430 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
1 C-AG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
* *
13361475 AAAGGATCTTATCTCTCTGA-AGTTACAGT
1 -CAGGATCTTATCTCCCTGAGA-TTACAGT
13361504 AGTGTAGATC
Statistics
Matches: 901, Mismatches: 229, Indels: 208
0.67 0.17 0.16
Matches are distributed among these distances:
36 5 0.01
37 3 0.00
38 4 0.00
39 71 0.08
40 7 0.01
41 167 0.19
42 33 0.04
43 34 0.04
44 362 0.40
45 32 0.04
46 182 0.20
47 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT
Found at i:13362051 original size:24 final size:24
Alignment explanation
Indices: 13362021--13362067 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
13362011 ACATAACCCA
13362021 AACAAACTAAACCCAATCAGCCCC
1 AACAAACTAAACCCAATCAGCCCC
*
13362045 AACAAACTAAACCCAATTAGCCC
1 AACAAACTAAACCCAATCAGCCC
13362068 ATTTACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.38, G:0.04, T:0.11
Consensus pattern (24 bp):
AACAAACTAAACCCAATCAGCCCC
Found at i:13369889 original size:44 final size:44
Alignment explanation
Indices: 13369830--13369919 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
13369820 AGTTGAACAA
* * * *
13369830 AATAAAAGTTTTGATAGTTTTACATTTAAAAATAATTATAATTT
1 AATAAAAGTTGTGATAATTATACATTTAAAAATAATTAGAATTT
* *
13369874 AATAGAAGTTGTGATAATTATACATTTAAAAATAGTTAGAATTT
1 AATAAAAGTTGTGATAATTATACATTTAAAAATAATTAGAATTT
13369918 AA
1 AA
13369920 ATTTAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.47, C:0.02, G:0.10, T:0.41
Consensus pattern (44 bp):
AATAAAAGTTGTGATAATTATACATTTAAAAATAATTAGAATTT
Found at i:13370270 original size:28 final size:28
Alignment explanation
Indices: 13370201--13370269 Score: 102
Period size: 28 Copynumber: 2.4 Consensus size: 28
13370191 AATAAACACC
13370201 AAAAATTTATTTTAAAAATAAAAAATAA
1 AAAAATTTATTTTAAAAATAAAAAATAA
** *
13370229 AAAAAAGTATTTTAAAATTAAAAAATAA
1 AAAAATTTATTTTAAAAATAAAAAATAA
13370257 AAAATATTTATTT
1 AAAA-ATTTATTT
13370270 ATTATATTCG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
28 29 0.83
29 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (28 bp):
AAAAATTTATTTTAAAAATAAAAAATAA
Found at i:13372035 original size:26 final size:26
Alignment explanation
Indices: 13372004--13372053 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
13371994 AAACATAATT
13372004 TCAAATGAGAGACTTTTGAGTTTTCA
1 TCAAATGAGAGACTTTTGAGTTTTCA
* *
13372030 TCAAATGAGGGATTTTTGAGTTTT
1 TCAAATGAGAGACTTTTGAGTTTT
13372054 AGGTGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.08, G:0.22, T:0.42
Consensus pattern (26 bp):
TCAAATGAGAGACTTTTGAGTTTTCA
Found at i:13387530 original size:18 final size:20
Alignment explanation
Indices: 13387497--13387533 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
13387487 TAGAAAAATC
13387497 TTATTATGTATAAATTATAA
1 TTATTATGTATAAATTATAA
13387517 TTATTA-GT-TAAATTATA
1 TTATTATGTATAAATTATA
13387534 GTTTCCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 2 0.12
20 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
TTATTATGTATAAATTATAA
Found at i:13388027 original size:17 final size:17
Alignment explanation
Indices: 13388005--13388037 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13387995 AGTTTTGCTC
13388005 TAGT-AAATATCAAATAA
1 TAGTAAAAT-TCAAATAA
13388022 TAGTAAAATTCAAATA
1 TAGTAAAATTCAAATA
13388038 TATCAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (17 bp):
TAGTAAAATTCAAATAA
Found at i:13390915 original size:45 final size:45
Alignment explanation
Indices: 13390865--13391071 Score: 142
Period size: 44 Copynumber: 4.7 Consensus size: 45
13390855 GGAATACTGG
* *
13390865 CTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTTGTCAT
1 CTTCAATCTACTCCACTGTAGCCTCAGGGAGGTAAAATTTGTCAT
* * * * ** **
13390910 CTTCAATCTGCTCCACTACT-GCCT-AGGGAGATAGAATTACT-GG
1 CTTCAATCTACTCCACT-GTAGCCTCAGGGAGGTAAAATTTGTCAT
* * *
13390953 CTTCAATGTACTCCACTGTAGCC-CTAGGGAGGTAAAATCTGCCAT
1 CTTCAATCTACTCCACTGTAGCCTC-AGGGAGGTAAAATTTGTCAT
* * * * * *
13390998 CTTCGATCTACTCCACTACT-GCCT-AGGGAGATAAGATCTGTAAT
1 CTTCAATCTACTCCACT-GTAGCCTCAGGGAGGTAAAATTTGTCAT
*
13391042 CTTCAATCTATTCCACTGCT-GCC-CAGGGAG
1 CTTCAATCTACTCCACTG-TAGCCTCAGGGAG
13391072 ATAGACCAGA
Statistics
Matches: 122, Mismatches: 31, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
42 1 0.01
43 18 0.15
44 65 0.53
45 36 0.30
46 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGTAGCCTCAGGGAGGTAAAATTTGTCAT
Found at i:13390980 original size:44 final size:43
Alignment explanation
Indices: 13390848--13390983 Score: 123
Period size: 44 Copynumber: 3.1 Consensus size: 43
13390838 ACAACTTCAA
*
13390848 GGAGATAGGAA-TACTGGCTTCAATGTACTCCACTGTAACCTCAG
1 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGTAGCCT-AG
* * ** ** * * *
13390892 GGAGGTAAAATTTGTCATCTTCAATCTGCTCCACTACT-GCCTAG
1 GGAGATAGAATTACT-GGCTTCAATGTACTCCACT-GTAGCCTAG
13390936 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAGCCCTAG
1 GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAG-CCTAG
13390980 GGAG
1 GGAG
13390984 GTAAAATCTG
Statistics
Matches: 68, Mismatches: 19, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
42 1 0.01
43 18 0.26
44 30 0.44
45 18 0.26
46 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (43 bp):
GGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAGCCTAG
Found at i:13390999 original size:88 final size:88
Alignment explanation
Indices: 13390848--13391030 Score: 289
Period size: 88 Copynumber: 2.1 Consensus size: 88
13390838 ACAACTTCAA
* *
13390848 GGAGATAGGAATACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTTGTCATCTT
1 GGAGATAGGAATACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTT
*
13390913 CAATCTGCTCCACTACTGCCTAG
66 CAATCTACTCCACTACTGCCTAG
*
13390936 GGAGATA-GAATTACTGGCTTCAATGTACTCCACTGTAGCC-CTAGGGAGGTAAAATCTGCCATC
1 GGAGATAGGAA-TACTGGCTTCAATGTACTCCACTGTAACCTC-AGGGAGGTAAAATCTGCCATC
*
13390999 TTCGATCTACTCCACTACTGCCTAG
64 TTCAATCTACTCCACTACTGCCTAG
13391024 GGAGATA
1 GGAGATA
13391031 AGATCTGTAA
Statistics
Matches: 88, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
87 4 0.05
88 84 0.95
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (88 bp):
GGAGATAGGAATACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTGCCATCTT
CAATCTACTCCACTACTGCCTAG
Found at i:13391023 original size:44 final size:44
Alignment explanation
Indices: 13390890--13391074 Score: 167
Period size: 44 Copynumber: 4.2 Consensus size: 44
13390880 CTGTAACCTC
* * * *
13390890 AGGGAGGTAAAATTTGTCATCTTCAATCTGCTCCACTACTGCCT
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGCCT
* * *** * *
13390934 AGGGAGATAGAAT-TACTGGCTTCAATGTACTCCACT-GTAGCCCT
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACT-G-CCT
* *
13390978 AGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCT
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGCCT
* ** * * *
13391022 AGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGCCT
13391066 AGGGAGATA
1 AGGGAGATA
13391075 GACCAGATAT
Statistics
Matches: 110, Mismatches: 27, Indels: 8
0.76 0.19 0.06
Matches are distributed among these distances:
42 1 0.01
43 17 0.15
44 73 0.66
45 18 0.16
46 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
AGGGAGATAAAATCTGCCATCTTCAATCTACTCCACTACTGCCT
Found at i:13391070 original size:88 final size:86
Alignment explanation
Indices: 13390864--13391071 Score: 249
Period size: 88 Copynumber: 2.4 Consensus size: 86
13390854 AGGAATACTG
* * * * *
13390864 GCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATTTGTCATCTTCAATCTGCTCCACTAC
1 GCTTCAATCTACTCCACTGTAGCC-CAGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTAC
*
13390929 TGCCTAGGGAGATAGAATTACT
65 TGCCTAGGGAGATAGAATTAAT
* *
13390951 GGCTTCAATGTACTCCACTGTAGCCCTAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTA
1 -GCTTCAATCTACTCCACTGTAGCCC-AGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTA
*
13391016 CTGCCTAGGGAGATAAGATCTGTAAT
64 CTGCCTAGGGAGAT-AGA-AT-TAAT
*
13391042 -CTTCAATCTATTCCACTGCT-GCCCAGGGAG
1 GCTTCAATCTACTCCACTG-TAGCCCAGGGAG
13391072 ATAGACCAGA
Statistics
Matches: 106, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
87 1 0.01
88 77 0.73
89 23 0.22
90 2 0.02
91 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (86 bp):
GCTTCAATCTACTCCACTGTAGCCCAGGGAGGTAAAATCTGCCATCTTCAATCTACTCCACTACT
GCCTAGGGAGATAGAATTAAT
Found at i:13391266 original size:89 final size:89
Alignment explanation
Indices: 13391127--13391929 Score: 1214
Period size: 89 Copynumber: 9.0 Consensus size: 89
13391117 TCTGCTGTGC
* * * *
13391127 TTGATCTACTTCACGCCAATACATGAAGACAAGGTCTGTTCTT-TTCGATCTACTCCACCACCAG
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTT-TTCTTCGATCTACTTCGCCACCAG
* * *
13391191 TATGGGGAGACAAGATCTGGTATAT
65 TATGGGAAGACAAGATCTGTTATCT
* * * * *
13391216 TTGATCTACTTCATGCCAGTACATGAAGACAAGATCTGCTTTCTTAGATCTGCTTCGCCGCCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
**
13391281 ATGGGAAGGTAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
13391305 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
*
13391370 ATCGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* * * * * * *
13391394 TTGAACCACTTCATGCCAGTACATGAAAACAAGATTTGTTTTCTTCGATCTGCTTCACCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
*
13391459 ATGGGAAGTCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
13391483 TTGATCTACTTCACGCCAGTACATGGAA-ACAAGATTTGTTTTCTTCGATCTACTTCGCCACCAA
1 TTGATCTACTTCACGCCAGTACAT-GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAG
*
13391547 TATAGGAAGACAAGATCTGTTATCT
65 TATGGGAAGACAAGATCTGTTATCT
* *
13391572 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTCCTTCACCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
*
13391637 ATGGGAAGGCAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
*
13391661 TTGATCTACTTCATGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
13391726 ATGGGAAGACAAGATCTGTTATCT
66 ATGGGAAGACAAGATCTGTTATCT
* *
13391750 TTGATCTACTTCACGCCAGTACATGAAGATAAGATCTGTTTTCTTCGATCTACTTTGCCACCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
* * *
13391815 ATGGGAAGACAAGATATGGTATTT
66 ATGGGAAGACAAGATCTGTTATCT
* * *
13391839 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCGCCAGT
1 TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
* *
13391904 ATGGGAAGGCAAGATCTATTATCT
66 ATGGGAAGACAAGATCTGTTATCT
13391928 TT
1 TT
13391930 CAACTTGCTC
Statistics
Matches: 646, Mismatches: 65, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
88 5 0.01
89 638 0.99
90 3 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (89 bp):
TTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACCAGT
ATGGGAAGACAAGATCTGTTATCT
Found at i:13395722 original size:19 final size:19
Alignment explanation
Indices: 13395682--13395726 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
13395672 ACCGCTTTTT
* *
13395682 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
13395701 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
13395720 ATGCAAA
1 ATGCAAA
13395727 AAGAGACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:13395770 original size:13 final size:13
Alignment explanation
Indices: 13395752--13395778 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13395742 TGGTTCAATT
13395752 CTTCACTAGAAAA
1 CTTCACTAGAAAA
13395765 CTTCACTAGAAAA
1 CTTCACTAGAAAA
13395778 C
1 C
13395779 AAATCTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.26, G:0.07, T:0.22
Consensus pattern (13 bp):
CTTCACTAGAAAA
Found at i:13402654 original size:21 final size:22
Alignment explanation
Indices: 13402613--13402669 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
13402603 AAACCCAACT
*
13402613 AACCTAGCCCAATACCCTAAACC
1 AACCTAGCCCAATA-CCTAAAAC
13402636 AACCTAGCCCAAT-CCTAAAAC
1 AACCTAGCCCAATACCTAAAAC
*
13402657 TACCTGAGCCCAA
1 AACCT-AGCCCAA
13402670 ATTTTAAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 11 0.35
22 7 0.23
23 13 0.42
ACGTcount: A:0.39, C:0.40, G:0.07, T:0.14
Consensus pattern (22 bp):
AACCTAGCCCAATACCTAAAAC
Found at i:13404385 original size:18 final size:20
Alignment explanation
Indices: 13404360--13404403 Score: 58
Period size: 18 Copynumber: 2.3 Consensus size: 20
13404350 CTATTTAAAC
13404360 ATATTTTT-TCACACTT-CAT
1 ATATTTTTAT-ACACTTACAT
13404379 A-ATTTTTATACACTTACAT
1 ATATTTTTATACACTTACAT
13404398 ATATTT
1 ATATTT
13404404 ATGCATATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 12 0.55
19 6 0.27
20 4 0.18
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATTTTTATACACTTACAT
Found at i:13405035 original size:106 final size:106
Alignment explanation
Indices: 13404899--13405099 Score: 357
Period size: 106 Copynumber: 1.9 Consensus size: 106
13404889 AAAATTTTTC
13404899 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAAAAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAAAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
13404964 TTCTCGTTCGACCAAATAGCCAAATATCCTTTTTAAACTTT
66 TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
* **
13405005 TAAATAAGGCGATATTTCGCGTTTGGAAAATCGAGGAAACGTGCCCTAACGTGCTGGGTTTCGAT
1 TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAAAAAACGTGCCCTAACGTGCTGGGTTTCGAT
*
13405070 TTCTCGTTCGACTAAACAGCCAAATATCCT
66 TTCTCGTTCGACCAAACAGCCAAATATCCT
13405100 CTTAAAGCTT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
106 90 1.00
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (106 bp):
TAAATAAGGCAATATTTCGCGTTTGGAAAATCGAAAAAACGTGCCCTAACGTGCTGGGTTTCGAT
TTCTCGTTCGACCAAACAGCCAAATATCCTTTTTAAACTTT
Found at i:13416814 original size:88 final size:88
Alignment explanation
Indices: 13416510--13417233 Score: 648
Period size: 88 Copynumber: 8.5 Consensus size: 88
13416500 GAAGTCATTA
* * * * * *
13416510 AAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG-TAGCAGATC-TATCTTCCTA
1 AAGCAGATCTTATCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCA
*
13416572 TATTGGTAG-GAAGT-GATCG-AG
65 TATTGGTGGCGAAGTAGATCGAAG
* * * * *
13416593 -AGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTT--CA
1 AAGCAGATCTTATCTTCCTATATTGGTAGTGAAGTAGATCGAAG-ATGCAGATCTTGTCTTCCCA
13416655 TATTGGT---G-AGTAGATC---G
65 TATTGGTGGCGAAGTAGATCGAAG
*
13416672 AAGTAGA--TTATCTT-CTATATTGGTA--GAAG--GATCG-AGA-GCAGATCTTGTCTTCCCAT
1 AAGCAGATCTTATCTTCCTATATTGGTAGTGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCAT
13416728 ATTGGTGGCGAAGTAGATCGAAG
66 ATTGGTGGCGAAGTAGATCGAAG
* *
13416751 AAAGTAGATCTTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCA
1 -AAGCAGATCTTATCTTCCTATATTGGTAGTGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCA
13416815 TATTGGTGGCGAAGTAGATCGAAG
65 TATTGGTGGCGAAGTAGATCGAAG
* * * * * * * *
13416839 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCT
1 -AAGCAGATCTTATCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCC
* *
13416903 ATATTGGTAG-GAAGTGGATCGAAG
64 ATATTGGTGGCGAAGTAGATCGAAG
* * * * * * ** ***
13416927 ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAACAGATCTTGTCTTCATGT
1 AAGCAGATCTTATCTTCCTATATTGGTAGTGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCAT
* *
13416992 ATTGG-CGTGAAGTAGATCGAAG
66 ATTGGTGGCGAAGTAGATCGAAG
* * *
13417014 TAGCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCAT
1 AAGCAGATCTTATCTTCCTATATTGGTAGTGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCAT
* *
13417078 ATTGGTGGCAAAGTAGATCGCAG
66 ATTGGTGGCGAAGTAGATCGAAG
* * * * * *
13417101 AAAGCAGATCTTATCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCT
1 -AAGCAGATCTTATCTTCCTATATTGGTAGTGAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCC
* * *
13417165 ATATTGGTAG-GAAGTGGATCGACG
64 ATATTGGTGGCGAAGTAGATCGAAG
* * * * *
13417189 ATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGA
1 AAGCAGATCTTATCTTCCTATATTGGTAGTGAAGTAGATCGAAGA
13417234 AAGCCGATCG
Statistics
Matches: 531, Mismatches: 77, Indels: 61
0.79 0.12 0.09
Matches are distributed among these distances:
70 14 0.03
71 1 0.00
72 11 0.02
73 5 0.01
75 5 0.01
76 8 0.02
77 9 0.02
78 6 0.01
79 2 0.00
80 15 0.03
81 5 0.01
82 29 0.05
83 34 0.06
84 11 0.02
85 5 0.01
86 39 0.07
87 115 0.22
88 172 0.32
89 45 0.08
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (88 bp):
AAGCAGATCTTATCTTCCTATATTGGTAGTGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCAT
ATTGGTGGCGAAGTAGATCGAAG
Found at i:13416904 original size:132 final size:132
Alignment explanation
Indices: 13416539--13417242 Score: 877
Period size: 132 Copynumber: 5.5 Consensus size: 132
13416529 GTATTGGCGT
* * * *
13416539 GAAGTAGATCGAAG-TAGCAGATC-TATCTTCCTATATTGGTAG-GAAGT-GATCG-AG--AGCA
1 GAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCA
*** * * * * *
13416597 GATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTT-C-ATATTG
65 GATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTG
13416660 GT--
129 GTAG
* * * *
13416662 G-AGTAGATCGAAG-T--AGA--TTATCTT-CTATATTGGT--AGAAG--GATCG-AG--AGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAG
*** * * * * *
13416713 ATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTATCTTCCTATATTGG
66 ATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGG
13416778 TAG
130 TAG
13416781 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAG
*
13416846 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATATCAGATCCTATCTTCCTATATTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGT
13416911 AG
131 AG
*
13416913 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAA-CAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAG
13416977 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAG-TAGCAGATCCTATCTTCCTATATTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGT
13417041 AG
131 AG
* *
13417043 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTAGATCGCAGAAAGCAG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAG
* * *
13417108 ATCTTATCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGT
13417173 AG
131 AG
* * * *
13417175 GAAGTGGATCGACGATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCCG
1 GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAG
13417240 ATC
66 ATC
13417243 GACGATGGCA
Statistics
Matches: 532, Mismatches: 27, Indels: 35
0.90 0.05 0.06
Matches are distributed among these distances:
115 65 0.12
116 5 0.01
117 18 0.03
118 6 0.01
119 4 0.01
120 11 0.02
121 1 0.00
122 13 0.02
123 4 0.01
125 6 0.01
126 9 0.02
128 4 0.01
130 93 0.17
131 81 0.15
132 190 0.36
133 22 0.04
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (132 bp):
GAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAGAAAGCAG
ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCCTATCTTCCTATATTGGT
AG
Done.