Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 43 of 187
Found at i:13135448 original size:49 final size:49
Alignment explanation
Indices: 13135393--13135497 Score: 138
Period size: 49 Copynumber: 2.1 Consensus size: 49
13135383 TCATGTGTTA
* * ** * *
13135393 TAATTTTATACAGTGTTGAGTTTTTGATTCATGATATTGAACTCAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAAATT
* *
13135442 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAATTTAAATT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAAATT
13135491 TAATTTT
1 TAATTTT
13135498 TTTTCTTAAG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTCAAATT
Found at i:13137991 original size:7 final size:7
Alignment explanation
Indices: 13137923--13138000 Score: 60
Period size: 7 Copynumber: 11.7 Consensus size: 7
13137913 ATTTTATTAG
13137923 ATTATAT
1 ATTATAT
13137930 ATTAT-T
1 ATTATAT
13137936 ATTA-A-
1 ATTATAT
13137941 ATTATAT
1 ATTATAT
13137948 -TTA-AT
1 ATTATAT
*
13137953 AATA-ATT
1 ATTATA-T
* *
13137960 ATTCTAA
1 ATTATAT
13137967 ATTATAT
1 ATTATAT
*
13137974 TTTATAGT
1 ATTATA-T
13137982 ATTATAT
1 ATTATAT
13137989 ATTATAT
1 ATTATAT
13137996 ATTAT
1 ATTAT
13138001 GATTGTAAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
5 6 0.11
6 12 0.21
7 31 0.55
8 7 0.12
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (7 bp):
ATTATAT
Found at i:13138283 original size:44 final size:46
Alignment explanation
Indices: 13138233--13138321 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
13138223 CCTCTATTCT
* *
13138233 ATTCAACCAAACACAAGAA-TA-TCATTACGTCTCTATTCCATTAC
1 ATTCAACCAAACAAAAGAATTACTCATTACGACTCTATTCCATTAC
* *
13138277 ATTCAACCAAACAAAAGAATTACTTATTACGACTCTATTTCATTA
1 ATTCAACCAAACAAAAGAATTACTCATTACGACTCTATTCCATTA
13138322 TGCTTCTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.46
45 2 0.05
46 19 0.49
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.31
Consensus pattern (46 bp):
ATTCAACCAAACAAAAGAATTACTCATTACGACTCTATTCCATTAC
Found at i:13138329 original size:16 final size:16
Alignment explanation
Indices: 13138310--13138354 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
13138300 TTATTACGAC
* *
13138310 TCTATTTCATTATGCT
1 TCTATTCCATTACGCT
13138326 TCTATTCCATTACGCT
1 TCTATTCCATTACGCT
13138342 TCTATTCCATTAC
1 TCTATTCCATTAC
13138355 AGCGAACCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.20, C:0.27, G:0.04, T:0.49
Consensus pattern (16 bp):
TCTATTCCATTACGCT
Found at i:13149228 original size:47 final size:47
Alignment explanation
Indices: 13149159--13149253 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
13149149 AATCTTTGTC
13149159 TCCGTGTTTAAGTAAATAAGGCTAGCGGTGGTCTTTCTGAACACCTT
1 TCCGTGTTTAAGTAAATAAGGCTAGCGGTGGTCTTTCTGAACACCTT
13149206 TCCGTGTTTAAGTAAATAAGGCTAGCGGTGGTCTTTCTGAACACCTT
1 TCCGTGTTTAAGTAAATAAGGCTAGCGGTGGTCTTTCTGAACACCTT
13149253 T
1 T
13149254 ACGTTTTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (47 bp):
TCCGTGTTTAAGTAAATAAGGCTAGCGGTGGTCTTTCTGAACACCTT
Found at i:13149834 original size:5 final size:5
Alignment explanation
Indices: 13149824--13149850 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
13149814 CATTTGCTTC
13149824 TGATA TGATA TGATA TGATA TGATA TG
1 TGATA TGATA TGATA TGATA TGATA TG
13149851 TGGTGATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (5 bp):
TGATA
Found at i:13153141 original size:2 final size:2
Alignment explanation
Indices: 13153136--13153160 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13153126 TGCTAAACTA
13153136 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13153161 GTTTTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13153635 original size:18 final size:18
Alignment explanation
Indices: 13153599--13153636 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
13153589 GAATTTTTAA
*
13153599 TTAACTTTTTTTAAATTT
1 TTAACTTTTTATAAATTT
*
13153617 TTAA-TTTTTATAAAGTT
1 TTAACTTTTTATAAATTT
13153634 TTA
1 TTA
13153637 CAAAGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TTAACTTTTTATAAATTT
Found at i:13153780 original size:14 final size:14
Alignment explanation
Indices: 13153763--13153793 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13153753 TGGACATGAA
13153763 TTTTTTAAATATTT
1 TTTTTTAAATATTT
*
13153777 TTTTTTGAATATTT
1 TTTTTTAAATATTT
13153791 TTT
1 TTT
13153794 ACTGGTTTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTTTAAATATTT
Found at i:13163013 original size:26 final size:26
Alignment explanation
Indices: 13162983--13163035 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
13162973 GCTTTAACTC
13162983 TATCTATA-ATTAAATATGCAGGGATA
1 TATCTATATA-TAAATATGCAGGGATA
*
13163009 TATCTATATATAAATGTGCAGGGATA
1 TATCTATATATAAATATGCAGGGATA
13163035 T
1 T
13163036 GTTAAATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.36
Consensus pattern (26 bp):
TATCTATATATAAATATGCAGGGATA
Found at i:13166469 original size:2 final size:2
Alignment explanation
Indices: 13166462--13166486 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13166452 AGAAATGGCA
13166462 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13166487 CTTTCCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13177458 original size:22 final size:22
Alignment explanation
Indices: 13177406--13177470 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
13177396 TATTTGGGAA
* * *
13177406 TTGGTATGAAACGGTAAGGGAT
1 TTGGTACGAAATGGTAATGGAT
**
13177428 TTGAAACGAAATGGTAATGGAT
1 TTGGTACGAAATGGTAATGGAT
*
13177450 TTGGTACGAAAATGGAAATGG
1 TTGGTACG-AAATGGTAATGG
13177471 TTCAAAAAGG
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 23 0.68
23 11 0.32
ACGTcount: A:0.37, C:0.05, G:0.32, T:0.26
Consensus pattern (22 bp):
TTGGTACGAAATGGTAATGGAT
Found at i:13179216 original size:16 final size:16
Alignment explanation
Indices: 13179195--13179238 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
13179185 TTTTTAATTT
13179195 TTTTTAAAATTTATAA
1 TTTTTAAAATTTATAA
**
13179211 TTTTTAAAAAATATAA
1 TTTTTAAAATTTATAA
* *
13179227 ATTTTGAAATTT
1 TTTTTAAAATTT
13179239 TTATAAATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TTTTTAAAATTTATAA
Found at i:13179258 original size:19 final size:20
Alignment explanation
Indices: 13179227--13179278 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
13179217 AAAAATATAA
*
13179227 ATTTTGAAATTTTTATAAA-T
1 ATTTTG-AATTTTTAAAAATT
13179247 ATTTTGAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
*
13179266 ATTTTAAATTTTT
1 ATTTTGAATTTTT
13179279 TTTATAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 8 0.29
19 10 0.36
20 10 0.36
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:13191262 original size:7 final size:7
Alignment explanation
Indices: 13191250--13191276 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
13191240 GATTAAATTG
13191250 ATATAAT
1 ATATAAT
13191257 ATATAAT
1 ATATAAT
13191264 ATATAAT
1 ATATAAT
13191271 ATATAA
1 ATATAA
13191277 AAATTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
ATATAAT
Found at i:13198638 original size:2 final size:2
Alignment explanation
Indices: 13198633--13198663 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
13198623 AAATGAAAGA
13198633 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
13198664 TTTGAATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13199015 original size:64 final size:64
Alignment explanation
Indices: 13198914--13199041 Score: 220
Period size: 64 Copynumber: 2.0 Consensus size: 64
13198904 TCCAATTTCA
*
13198914 ATTTGGATTGAAGTCATGGAAATACATTGGTTGAAAATTATATTAAGGAGAATTAGAATTTTAG
1 ATTTGGATTGAAGTCATGGAAATACATTGGTTGAAAATTATATTAACGAGAATTAGAATTTTAG
* **
13198978 ATTTGGATTGAAGTTATGGAAATAGGTTGGTTGAAAATTATATTAACGAGAATTAGAATTTTAG
1 ATTTGGATTGAAGTCATGGAAATACATTGGTTGAAAATTATATTAACGAGAATTAGAATTTTAG
13199042 CCACAATTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (64 bp):
ATTTGGATTGAAGTCATGGAAATACATTGGTTGAAAATTATATTAACGAGAATTAGAATTTTAG
Found at i:13209818 original size:149 final size:151
Alignment explanation
Indices: 13209530--13209835 Score: 424
Period size: 149 Copynumber: 2.0 Consensus size: 151
13209520 GAAAAGTTTT
* *
13209530 GATTTTTTTTAAAAAAAAATAGAAAGTTTAGATTTTAAAAATAAAAATATATTTTTTTAGTCATT
1 GATTTTTTTT-AAAAAAAAGAGAAAATTTAGATTTTAAAAATAAAAATATATTTTTTTAGTCATT
*
13209595 TCAAAGGAAAGTTTAAAATTTTAAAATAGAATTTTTATTTTTTGTAACTATTTCGAAATAAAAAT
65 TCAAAGGAAAGTTTAAAATTTTAAAATAGAATTTTTATTTTTTGTAACTATTTCGAAATAAAAAC
13209660 TTTGATTTTTAAGAAAAATAGC
130 TTTGATTTTTAAGAAAAATAGC
* * *
13209682 GATTTTTTTT-AAAAAAGGAGAAAATTTAGATTTTTAAAATAAAAATCTA-TTTTTTAGTCATTT
1 GATTTTTTTTAAAAAAAAGAGAAAATTTAGATTTTAAAAATAAAAATATATTTTTTTAGTCATTT
** *
13209745 TTAAGGAAAAGTTTAAATTTTTTAAAATA-AAGTTTTTA-TTTTT-TAACTATTTCGAAATAAAA
66 CAAAGG-AAAGTTTAAA-ATTTTAAAATAGAA-TTTTTATTTTTTGTAACTATTTCGAAATAAAA
* * * *
13209807 GCTTTGGTTTTTAAGAAAAGTAGT
128 ACTTTGATTTTTAAGAAAAATAGC
13209831 GATTT
1 GATTT
13209836 AAAAAAAAAT
Statistics
Matches: 138, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
149 61 0.44
150 51 0.37
151 16 0.12
152 10 0.07
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.44
Consensus pattern (151 bp):
GATTTTTTTTAAAAAAAAGAGAAAATTTAGATTTTAAAAATAAAAATATATTTTTTTAGTCATTT
CAAAGGAAAGTTTAAAATTTTAAAATAGAATTTTTATTTTTTGTAACTATTTCGAAATAAAAACT
TTGATTTTTAAGAAAAATAGC
Found at i:13213747 original size:22 final size:22
Alignment explanation
Indices: 13213719--13213763 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
13213709 AATATTATTG
13213719 AGTCTATTTTCTCAAAGAAGAA
1 AGTCTATTTTCTCAAAGAAGAA
13213741 AGTCTATTTTCTCAAAGAAGAA
1 AGTCTATTTTCTCAAAGAAGAA
13213763 A
1 A
13213764 TGGTGTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (22 bp):
AGTCTATTTTCTCAAAGAAGAA
Found at i:13216119 original size:2 final size:2
Alignment explanation
Indices: 13216114--13216156 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
13216104 ATCTAAGTAG
13216114 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13216156 A
1 A
13216157 AGTAAACTTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13219250 original size:21 final size:21
Alignment explanation
Indices: 13219219--13219267 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
13219209 TTAAGTCATA
13219219 AGGAGATTGTTAGCTTGTTAGT
1 AGGAG-TTGTTAGCTTGTTAGT
13219241 AGGAGTTGTTAGCTTGTTAGT
1 AGGAGTTGTTAGCTTGTTAGT
*
13219262 AAGAGT
1 AGGAGT
13219268 AGGAAGCTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.24, C:0.04, G:0.33, T:0.39
Consensus pattern (21 bp):
AGGAGTTGTTAGCTTGTTAGT
Found at i:13219275 original size:21 final size:21
Alignment explanation
Indices: 13219230--13219275 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
13219220 GGAGATTGTT
* * **
13219230 AGCTTGTTAGTAGGAGTTGTT
1 AGCTTGTTAGTAAGAGTAGGA
13219251 AGCTTGTTAGTAAGAGTAGGA
1 AGCTTGTTAGTAAGAGTAGGA
13219272 AGCT
1 AGCT
13219276 AGGAGTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.07, G:0.33, T:0.35
Consensus pattern (21 bp):
AGCTTGTTAGTAAGAGTAGGA
Found at i:13219286 original size:35 final size:35
Alignment explanation
Indices: 13219240--13219325 Score: 140
Period size: 35 Copynumber: 2.5 Consensus size: 35
13219230 AGCTTGTTAG
*
13219240 TAGGAGTTGTTAGCTTGTTAGTAAGAGTAGGAAGC
1 TAGGAGTTGTTAGCTTGTTAGTAAGAGTAAGAAGC
13219275 TAGGAGTTGTTAGCTTGTTAGTAAGAGTAAGAAGC
1 TAGGAGTTGTTAGCTTGTTAGTAAGAGTAAGAAGC
13219310 TA--AGTTTGTTAGCTTG
1 TAGGAG-TTGTTAGCTTG
13219326 AGTCATGTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
33 2 0.04
34 11 0.22
35 36 0.73
ACGTcount: A:0.28, C:0.06, G:0.31, T:0.35
Consensus pattern (35 bp):
TAGGAGTTGTTAGCTTGTTAGTAAGAGTAAGAAGC
Found at i:13221052 original size:22 final size:22
Alignment explanation
Indices: 13221026--13221068 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
13221016 CAACAAAAAC
13221026 CAAGAATAATCAACACACTATG
1 CAAGAATAATCAACACACTATG
13221048 CAAGAATAATCAACACACTAT
1 CAAGAATAATCAACACACTAT
13221069 ACATACAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.23, G:0.07, T:0.19
Consensus pattern (22 bp):
CAAGAATAATCAACACACTATG
Found at i:13222168 original size:31 final size:31
Alignment explanation
Indices: 13222106--13222174 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
13222096 TCTTTGCAAT
*
13222106 TTTTTTTTTAAAAATTATGATAATTTTAAAA
1 TTTTTTTATAAAAATTATGATAATTTTAAAA
* * *
13222137 TTTTTTTATAAATATTTTGA-ATTTTTGAAAA
1 TTTTTTTATAAAAATTATGATAATTTT-AAAA
*
13222168 TTATTTT
1 TTTTTTT
13222175 GATTTTTTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 5 0.16
31 27 0.84
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.59
Consensus pattern (31 bp):
TTTTTTTATAAAAATTATGATAATTTTAAAA
Found at i:13222182 original size:20 final size:20
Alignment explanation
Indices: 13222136--13222182 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
13222126 TAATTTTAAA
*
13222136 ATTTTTTTATAAATATTTTG
1 ATTTTTTGATAAATATTTTG
*
13222156 AATTTTTGA-AAATTATTTTG
1 ATTTTTTGATAAA-TATTTTG
13222176 ATTTTTT
1 ATTTTTT
13222183 TGTTGAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (20 bp):
ATTTTTTGATAAATATTTTG
Found at i:13223375 original size:3 final size:3
Alignment explanation
Indices: 13223367--13223405 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
13223357 GGAGCCAAAG
13223367 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
13223406 AGCTTGATAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:13237418 original size:44 final size:43
Alignment explanation
Indices: 13237368--13237816 Score: 168
Period size: 44 Copynumber: 10.2 Consensus size: 43
13237358 GCAGAGAAGG
*
13237368 TTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGA-CGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* ** *
13237412 TCGAAGACGGCGAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGA
1 TTGAAGACGTAG-ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* ** * * * * *
13237456 TTTAAGCCACCAAG-CCTTGTCTCCCTGAGCAGTAGCGGAGAAGA
1 TTGAAG--ACGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
** *
13237500 TTGAAGATTATAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGA-CGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * * * *
13237544 TCGAAGACGGCAAATCTTATCTTTCC-AAG-A-TAGTGGGAAGCATA
1 TTGAAGAC-GTAGATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* ** * * * ** *
13237588 TTTAAGCCACCAAG-CCTTGTCTCCCTGAGCAGTAGTGGAAAAGG
1 TTGAAG--ACGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
** *
13237632 TTGAAGATTATAGATCTCATCTCCCTAAGCAGTAGTGGAGCAGA
1 TTGAAGA-CGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * *
13237676 TCGAAGACGGT-GAATCTTATCTTTCC-AAG-A-TAGTGGGAAGTAGA
1 TTGAAGAC-GTAG-ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGA
* ** * * * * * *
13237720 TTTAAGCCACCAAG-CCTTATCTCCTTGAGCAGTAGCGGAGAAGG
1 TTGAAG--ACGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* *
13237764 TTGAAGATTGTAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
1 TTGAAGA-CGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
13237808 TCGAAGACG
1 TTGAAGACG
13237817 ACAAATATTA
Statistics
Matches: 282, Mismatches: 88, Indels: 71
0.64 0.20 0.16
Matches are distributed among these distances:
42 15 0.05
43 27 0.10
44 203 0.72
45 19 0.07
46 18 0.06
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (43 bp):
TTGAAGACGTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
Found at i:13237484 original size:132 final size:132
Alignment explanation
Indices: 13237247--13237897 Score: 1034
Period size: 132 Copynumber: 4.9 Consensus size: 132
13237237 GGTAACCAGC
* * *
13237247 AGATCTTATCTCTCTAAGCAGTAGTGGAGCAGATCAAAGACCGCGAATCTTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
* * * * *
13237312 GAGGGAAACAAATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCAGAGAAGGTTGAAGATT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATT
*
13237377 GT
131 AT
13237379 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
*
13237444 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGATTGAAGATT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATT
13237509 AT
131 AT
* *
13237511 AGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
* * *
13237576 GTGGGAAGCATATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGTGGAAAAGGTTGAAGATT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATT
13237641 AT
131 AT
* *
13237643 AGATCTCATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
* * *
13237708 GTGGGAAGTAGATTTAAGCCACCAAGCCTTATCTCCTTGAGCAGTAGCGGAGAAGGTTGAAGATT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATT
*
13237773 GT
131 AT
* * * *
13237775 AGATCTTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGACAAATATTATCTTTCCAAGATA
1 AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
* * *
13237840 GTGGGAAGCAGATTAAAGCCACCAAACCTTGTCTCCCTG-GACAGCAGCGGAGAAGGTT
66 GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAG-CAGTAGCGGAGAAGGTT
13237898 AAAGCCGATA
Statistics
Matches: 481, Mismatches: 37, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
131 1 0.00
132 480 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (132 bp):
AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATA
GTGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATT
AT
Found at i:13242525 original size:9 final size:9
Alignment explanation
Indices: 13242511--13242541 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
13242501 GTTAAACGAA
13242511 TCGAGTTAT
1 TCGAGTTAT
*
13242520 TCGAGTTAA
1 TCGAGTTAT
13242529 TCGAGTTAT
1 TCGAGTTAT
13242538 TCGA
1 TCGA
13242542 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:13250173 original size:16 final size:16
Alignment explanation
Indices: 13250154--13250215 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
13250144 ATTACCTAAA
13250154 AATATATTTATTTAAT
1 AATATATTTATTTAAT
*
13250170 AATA-ATTAAATTT-AT
1 AATATATT-TATTTAAT
*
13250185 AATATATTTAATTTTAT
1 AATATATTT-ATTTAAT
*
13250202 -ATAAATTTATTTAA
1 AATATATTTATTTAA
13250216 ATATTTTGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
15 14 0.37
16 22 0.58
17 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATATATTTATTTAAT
Found at i:13250200 original size:17 final size:17
Alignment explanation
Indices: 13250154--13250202 Score: 59
Period size: 15 Copynumber: 3.1 Consensus size: 17
13250144 ATTACCTAAA
*
13250154 AATATATTT-ATTTAAT
1 AATATATTTAATTTTAT
*
13250170 AATA-A-TTAAATTTAT
1 AATATATTTAATTTTAT
13250185 AATATATTTAATTTTAT
1 AATATATTTAATTTTAT
13250202 A
1 A
13250203 TAAATTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 2 0.07
15 10 0.37
16 5 0.19
17 10 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATATATTTAATTTTAT
Found at i:13250214 original size:31 final size:30
Alignment explanation
Indices: 13250153--13250219 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 30
13250143 CATTACCTAA
13250153 AAATATATTTATTTAATAATAATTAAATTT
1 AAATATATTTATTTAATAATAATTAAATTT
* *
13250183 ATAATATATTTAATTTTAT-ATAAATT-TATTT
1 A-AATATATTT-ATTTAATAAT-AATTAAATTT
13250214 AAATAT
1 AAATAT
13250220 TTTGATTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
30 6 0.19
31 16 0.50
32 10 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (30 bp):
AAATATATTTATTTAATAATAATTAAATTT
Found at i:13254872 original size:22 final size:22
Alignment explanation
Indices: 13254809--13254874 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
13254799 TATTGTTCAA
* *
13254809 ACATGAGAGCTTAGTACGTGAA
1 ACATGAGAGCTTAGTACGTTAG
13254831 ACATGAGAGCTTAGTACGTTAG
1 ACATGAGAGCTTAGTACGTTAG
*
13254853 CCATGAGAGCTTAGTACGTTAG
1 ACATGAGAGCTTAGTACGTTAG
13254875 GCATTCCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (22 bp):
ACATGAGAGCTTAGTACGTTAG
Found at i:13263320 original size:142 final size:142
Alignment explanation
Indices: 13263064--13263344 Score: 508
Period size: 142 Copynumber: 2.0 Consensus size: 142
13263054 TCAAGCATCA
13263064 AACTTATATATATACATAAGCATATTAGTTCAAACCTTAACCATACATACCTAATTAATCTCAAT
1 AACTTATATATATACATAAGCATATTAGTTCAAACCTTAACCATACATACCTAATTAATCTCAAT
* *
13263129 ACTATTTCCATGCTATATCAAAAATAATCTCACCATATTTGACCACATTTATACTATTTACCAAC
66 ACTATTTCCATGCTATATCAAAAATAATCTCACCACATTTGACCACATTTATACCATTTACCAAC
13263194 TGATTTGTTACC
131 TGATTTGTTACC
* *
13263206 AACTTATATATATACATGAGCATATTTGTTCAAACCTTAACCATACATACCTAATTAATCTCAAT
1 AACTTATATATATACATAAGCATATTAGTTCAAACCTTAACCATACATACCTAATTAATCTCAAT
* *
13263271 ACTATTTCCATGCTATATTAAAAATAATCTCAGCACATTTGACCACATTTATACCATTTACCAAC
66 ACTATTTCCATGCTATATCAAAAATAATCTCACCACATTTGACCACATTTATACCATTTACCAAC
13263336 TGATTTGTT
131 TGATTTGTT
13263345 TTCATACCAA
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
142 133 1.00
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.36
Consensus pattern (142 bp):
AACTTATATATATACATAAGCATATTAGTTCAAACCTTAACCATACATACCTAATTAATCTCAAT
ACTATTTCCATGCTATATCAAAAATAATCTCACCACATTTGACCACATTTATACCATTTACCAAC
TGATTTGTTACC
Found at i:13275334 original size:28 final size:29
Alignment explanation
Indices: 13275303--13275367 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
13275293 AAATTATTAA
*
13275303 ATATATATAAAAAA-ATATGAAAATATGT
1 ATATATATAAAAAATATATGAAAATAGGT
* * * *
13275331 ATATACA-AAAAAATTTATGTATATAGGT
1 ATATATATAAAAAATATATGAAAATAGGT
13275359 ATATATATA
1 ATATATATA
13275368 TGTACGTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
27 6 0.21
28 22 0.76
29 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.35
Consensus pattern (29 bp):
ATATATATAAAAAATATATGAAAATAGGT
Found at i:13275712 original size:25 final size:28
Alignment explanation
Indices: 13275667--13275721 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
13275657 TTAAGAACAC
*
13275667 ATATATATTATATAAAGAAAT-ATGTAT
1 ATATATACTATATAAAGAAATCATGTAT
13275694 ATATATACTATAT-AA-AAATGCATGTAT
1 ATATATACTATATAAAGAAAT-CATGTAT
13275721 A
1 A
13275722 AGTTTAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 4 0.16
26 2 0.08
27 19 0.76
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (28 bp):
ATATATACTATATAAAGAAATCATGTAT
Found at i:13276402 original size:10 final size:11
Alignment explanation
Indices: 13276377--13276412 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
13276367 TATTTTAGGT
* *
13276377 AAAATAAAATG
1 AAAAAAAAAAG
13276388 AAAAAAAAAAG
1 AAAAAAAAAAG
13276399 AAAAAAAAAAG
1 AAAAAAAAAAG
13276410 AAA
1 AAA
13276413 TATGCAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.08, T:0.06
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:13284730 original size:15 final size:15
Alignment explanation
Indices: 13284710--13284743 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13284700 ATTTATTTTG
* *
13284710 TTATTTTTGCTCGTA
1 TTATTTTTACTCGCA
13284725 TTATTTTTACTCGCA
1 TTATTTTTACTCGCA
13284740 TTAT
1 TTAT
13284744 CATAATTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.59
Consensus pattern (15 bp):
TTATTTTTACTCGCA
Found at i:13288592 original size:15 final size:14
Alignment explanation
Indices: 13288554--13288596 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
13288544 CACTTCACTT
* *
13288554 GAAAAAAAACAAAC
1 GAAAAAAAAGAAAA
13288568 GAAAAAAAAGGAAAA
1 GAAAAAAAA-GAAAA
13288583 GAAAAAAAAGAAAA
1 GAAAAAAAAGAAAA
13288597 ATGAGAGGCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.81, C:0.05, G:0.14, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAGAAAA
Found at i:13288597 original size:15 final size:15
Alignment explanation
Indices: 13288554--13288597 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
13288544 CACTTCACTT
* *
13288554 GAAAAAAAA-CAAAC
1 GAAAAAAAAGAAAAA
*
13288568 GAAAAAAAAGGAAAA
1 GAAAAAAAAGAAAAA
13288583 GAAAAAAAAGAAAAA
1 GAAAAAAAAGAAAAA
13288598 TGAGAGGCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.82, C:0.05, G:0.14, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAGAAAAA
Found at i:13289541 original size:50 final size:50
Alignment explanation
Indices: 13289487--13290378 Score: 508
Period size: 50 Copynumber: 17.9 Consensus size: 50
13289477 ACCCCTGAGG
* * *
13289487 TTGCAATTAAAAAGATTGAAGCCACAATGGCGAATCTTCCTTCCCTGATA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* ** * * * * * * *
13289537 TTGCAATTTAGCAGATTAAAGCTACGACAGCAAATCTTGCTTCCCTGGCA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* *
13289587 TTGCAATTAAAAAGATTGTAGCCACAACGGCGAATCTTACTTCCCTGGCA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* * ** ** * * * *
13289637 ATGCAGTGGATCAGATTGAAGCTACAACGGTGAATCTT-GTT-CCTCAACA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCT-GACA
* * ** * *
13289686 TTGCAATTAAAAAGATTGAAGCCACCACGACGAATCCCATTTCCCTGGCA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* * * ** * * * * * *
13289736 GTAC-AGTAGAGCAGATTAAAGCAACGACGGTGAATCTTGCTTCCCTGATA
1 TTGCAATTA-AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* ** * * * * * * *
13289786 TTGCAATTTAGTAGATTAAAGCTACGATGGTGAATCTTGCTTCCCTAACA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* * *
13289836 TTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCTCTGGCGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGAC-A
* ** ** * * * * *
13289887 -TGCAGTGGATCAGATTGAAGCTACAATGGTGAATCTT-GTTCCCCGACA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* * *
13289935 TTGCAATTAAAAATATTGAAGCCACAACGGCAAATCTCACTTCCCT-AGCA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA-CA
* * * ** * * * * ** *
13289985 GTAC-AGTAGAGCAGATTAAAGCTACGACAGCGAATCTTGTTTCCCTGATA
1 TTGCAATTA-AAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* * * * ** *
13290035 TTGCAATTTAAAATATTGAAGCCGCAACGACGAATCTTACTTCATTGGCA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* * ** * * * * *
13290085 GTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTT-GTTCCCCGACA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* *
13290134 TTGCAATTAAAAAGATTGAAGCCACGACGGCGAATCTTACTTCCCT-AGCG
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGA-CA
* * ** ** * * * * *
13290184 GTGCAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* * * * *
13290234 TTGC-ATTTAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCCTTGGCG
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* * ** ** * * * * * *
13290283 GTGCAGTGGAGCAGATTAAAGCTACGACAGCGAATCTTGCTTCCCCGACA
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
* *
13290333 TTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCT
1 TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCT
13290379 TGCAGTGCTG
Statistics
Matches: 599, Mismatches: 227, Indels: 32
0.70 0.26 0.04
Matches are distributed among these distances:
48 4 0.01
49 140 0.23
50 445 0.74
51 10 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (50 bp):
TTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGACA
Found at i:13289730 original size:99 final size:100
Alignment explanation
Indices: 13289487--13289779 Score: 277
Period size: 99 Copynumber: 2.9 Consensus size: 100
13289477 ACCCCTGAGG
* * * ** * * * **
13289487 TTGCAATTAAAAAGATTGAAGCCACAATGGCGAATCTTC-CTTCCCTGATATTGCAATTTAGCAG
1 TTGCAATTAAAAAGATTGAAGCCACAACGACGAATC-CCACTTCCCTGGCAATACAGTAGAGCAG
* * * ** **
13289551 ATTAAAGCTACGACAGCAAATCTTGCTTCC-CTGGCA
65 ATTAAAGCAACAACGGTGAATCTTGCTTCCTC-AACA
* * ** * * *
13289587 TTGCAATTAAAAAGATTGTAGCCACAACGGCGAATCTTACTTCCCTGGCAATGCAGTGGATCAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGACGAATCCCACTTCCCTGGCAATACAGTAGAGCAGA
* *
13289652 TTGAAGCTACAACGGTGAATCTTG-TTCCTCAACA
66 TTAAAGCAACAACGGTGAATCTTGCTTCCTCAACA
* * *
13289686 TTGCAATTAAAAAGATTGAAGCCACCACGACGAATCCCATTTCCCTGGCAGTACAGTAGAGCAGA
1 TTGCAATTAAAAAGATTGAAGCCACAACGACGAATCCCACTTCCCTGGCAATACAGTAGAGCAGA
*
13289751 TTAAAGCAACGACGGTGAATCTTGCTTCC
66 TTAAAGCAACAACGGTGAATCTTGCTTCC
13289780 CTGATATTGC
Statistics
Matches: 160, Mismatches: 30, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
99 83 0.52
100 77 0.48
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (100 bp):
TTGCAATTAAAAAGATTGAAGCCACAACGACGAATCCCACTTCCCTGGCAATACAGTAGAGCAGA
TTAAAGCAACAACGGTGAATCTTGCTTCCTCAACA
Found at i:13289956 original size:249 final size:249
Alignment explanation
Indices: 13289516--13290044 Score: 824
Period size: 249 Copynumber: 2.1 Consensus size: 249
13289506 AGCCACAATG
*
13289516 GCGAATCTTCCTTCCCTGATATTGCAATTTAGCAGATTAAAGCTACGACAGCAAATCTTGCTTCC
1 GCGAATCTTGCTTCCCTGATATTGCAATTTAGCAGATTAAAGCTACGACAGCAAATCTTGCTTCC
** *
13289581 CTGGCATTGCAATTAAAAAGATTGTAGCCACAACGGCGAATCTTACTTCCCTGGCAATGCAGTGG
66 CTAACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAATGCAGTGG
*
13289646 ATCAGATTGAAGCTACAACGGTGAATCTTGTTCCTCAACATTGCAATTAAAAAGATTGAAGCCAC
131 ATCAGATTGAAGCTACAACGGTGAATCTTGTTCCCCAACATTGCAATTAAAAAGATTGAAGCCAC
* * * * *
13289711 CACGACGAATCCCATTTCCCTGGCAGTACAGTAGAGCAGATTAAAGCAACGACG
196 AACGACAAATCCCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGCAACGACA
* * ** **
13289765 GTGAATCTTGCTTCCCTGATATTGCAATTTAGTAGATTAAAGCTACGATGGTGAATCTTGCTTCC
1 GCGAATCTTGCTTCCCTGATATTGCAATTTAGCAGATTAAAGCTACGACAGCAAATCTTGCTTCC
* * *
13289830 CTAACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCTCTGGCGATGCAGTGG
66 CTAACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAATGCAGTGG
* * *
13289895 ATCAGATTGAAGCTACAATGGTGAATCTTGTTCCCCGACATTGCAATTAAAAATATTGAAGCCAC
131 ATCAGATTGAAGCTACAACGGTGAATCTTGTTCCCCAACATTGCAATTAAAAAGATTGAAGCCAC
* * *
13289960 AACGGCAAATCTCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGCTACGACA
196 AACGACAAATCCCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGCAACGACA
*
13290014 GCGAATCTTGTTTCCCTGATATTGCAATTTA
1 GCGAATCTTGCTTCCCTGATATTGCAATTTA
13290045 AAATATTGAA
Statistics
Matches: 253, Mismatches: 27, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
249 253 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.27
Consensus pattern (249 bp):
GCGAATCTTGCTTCCCTGATATTGCAATTTAGCAGATTAAAGCTACGACAGCAAATCTTGCTTCC
CTAACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAATGCAGTGG
ATCAGATTGAAGCTACAACGGTGAATCTTGTTCCCCAACATTGCAATTAAAAAGATTGAAGCCAC
AACGACAAATCCCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGCAACGACA
Found at i:13289963 original size:99 final size:100
Alignment explanation
Indices: 13289798--13290454 Score: 802
Period size: 99 Copynumber: 6.6 Consensus size: 100
13289788 GCAATTTAGT
* **
13289798 AGATTAAAGCTACGATGGTGAATCTTGCTTCCCTAACATTGCAATTAAAAAGATTGAAGCCGCAA
1 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
* *
13289863 CGGCGAATCTTACTTCTCTGGC-GATGCAGTGGATC
66 CGGCGAATCTTACTTCCCTGGCAG-TGCAGTGGAGC
* * * * *
13289898 AGATTGAAGCTACAATGGTGAATCTTG-TTCCCCGACATTGCAATTAAAAATATTGAAGCCACAA
1 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
* * * * *
13289962 CGGCAAATCTCACTTCCCTAGCAGTACAGTAGAGC
66 CGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGC
* * * * * * *
13289997 AGATTAAAGCTACGACAGCGAATCTTGTTTCCCTGATATTGCAATTTAAAATATTGAAGCCGCAA
1 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
* ** *
13290062 CGACGAATCTTACTTCATTGGCAGTGCAGTGGAAC
66 CGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGC
* * ** * *
13290097 AGATTGAAGCTACAACGACGAATCTTG-TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACGA
1 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
* *
13290161 CGGCGAATCTTACTTCCCTAGCGGTGCAGTGGAGC
66 CGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGC
* *
13290196 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGC-ATTTAAAAGATTGAAGCCGCAA
1 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
* *
13290260 CGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAGC
66 CGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGC
* *
13290295 AGATTAAAGCTACGACAGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
1 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
* * * *
13290360 CGACGAATCTTACTTCCCTTGCAGTGCTGTGGAAC
66 CGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGC
* * * ** * *
13290395 AGATTGAAGCTACAACGGTGAATC-TGGTTCCCCGGTATTACAGTTTAAAAAGATTGAAGC
1 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCA-ATTAAAAAGATTGAAGC
13290455 TATACTCACA
Statistics
Matches: 476, Mismatches: 76, Indels: 10
0.85 0.14 0.02
Matches are distributed among these distances:
99 269 0.57
100 207 0.43
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (100 bp):
AGATTAAAGCTACGACGGTGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAA
CGGCGAATCTTACTTCCCTGGCAGTGCAGTGGAGC
Found at i:13289980 original size:199 final size:199
Alignment explanation
Indices: 13289798--13290454 Score: 883
Period size: 199 Copynumber: 3.3 Consensus size: 199
13289788 GCAATTTAGT
* * *
13289798 AGATTAAAGCTACGATGGTGAATCTTGCTTCCCTAACATTGCAATTAAAAAGATTGAAGCCGCAA
1 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTTAAAAGATTGAAGCCGCAA
* * *
13289863 CGGCGAATCTTACTTCTCTGGCGATGCAGTGGATCAGATTGAAGCTACAATGGTGAATCTTGTTC
66 CGGCGAATCTTACTTCTCTGGCGATGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGTTC
* * * *
13289928 CCCGACATTGCAATTAAAAATATTGAAGCCACAACGGCAAATCTCACTTCCCTAGCAGTACAGTA
131 CCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCAGTGCAGTA
13289993 GAGC
196 GAGC
* * * * *
13289997 AGATTAAAGCTACGACAGCGAATCTTGTTTCCCTGATATTGCAATTTAAAATATTGAAGCCGCAA
1 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTTAAAAGATTGAAGCCGCAA
* *
13290062 CGACGAATCTTACTTCAT-TGGC-AGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGT
66 CGGCGAATCTTACTTC-TCTGGCGA-TGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGT
* *
13290125 TCCCCGACATTGCAATTAAAAAGATTGAAGCCACGACGGCGAATCTTACTTCCCTAGCGGTGCAG
129 TCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCAGTGCAG
*
13290190 TGGAGC
194 TAGAGC
13290196 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGC-ATTTAAAAGATTGAAGCCGCAA
1 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTTAAAAGATTGAAGCCGCAA
* * * * *
13290260 CGGCGAATCTTACTTC-CTTGGCGGTGCAGTGGAGCAGATTAAAGCTACGACAGCGAATCTTGCT
66 CGGCGAATCTTACTTCTC-TGGCGATGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTG-T
* * * *
13290324 TCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTCCCTTGCAGTGCTG
129 TCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCAGTGCAG
* *
13290389 TGGAAC
194 TAGAGC
* * * * ** * *
13290395 AGATTGAAGCTACAACGGTGAATC-TGGTTCCCCGGTATTACAGTTTAAAAAGATTGAAGC
1 AGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTT-AAAAGATTGAAGC
13290455 TATACTCACA
Statistics
Matches: 403, Mismatches: 47, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
198 86 0.21
199 303 0.75
200 14 0.03
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (199 bp):
AGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGCAATTTAAAAGATTGAAGCCGCAA
CGGCGAATCTTACTTCTCTGGCGATGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTTGTTC
CCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTAGCAGTGCAGTA
GAGC
Found at i:13290103 original size:249 final size:249
Alignment explanation
Indices: 13289516--13290122 Score: 730
Period size: 249 Copynumber: 2.4 Consensus size: 249
13289506 AGCCACAATG
* ** * * * *
13289516 GCGAATCTTCCTTCCCTGATATTGCAATTTAGCAGATTAAAGCTACGAC-AGCAAATCTTGCTTC
1 GCGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTAAAGCCACAACGA-CGAATCTTACTTC
* ** * * *
13289580 CCTGGCATTGCAATTAAAAAGATTGTAGCCACAACGGCGAATCTTACTTCCCTGGCAATGCAGTG
65 ACTAACAGTGCAATGAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAATGCAGTG
*
13289645 GATCAGATTGAAGCTACAACGGTGAATCTTGTTCCTCAACATTGCAATTAAAAAGATTGAAGCCA
130 GATCAGATTGAAGCTACAACGGTGAATCTTGTTCCCCAACATTGCAATTAAAAAGATTGAAGCCA
* * * * *
13289710 CCACGACGAATCCCATTTCCCTGGCAGTACAGTAGAGCAGATTAAAGCAACGACG
195 CAACGACAAATCCCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGCAACGACA
* ** * * * ** * *
13289765 GTGAATCTTGCTTCCCTGATATTGCAATTTAGTAGATTAAAGCTACGATGGTGAATCTTGCTTCC
1 GCGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTAAAGCCACAACGACGAATCTTACTTCA
* * * * *
13289830 CTAACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCTCTGGCGATGCAGTGG
66 CTAACAGTGCAATGAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAATGCAGTGG
* * *
13289895 ATCAGATTGAAGCTACAATGGTGAATCTTGTTCCCCGACATTGCAATTAAAAATATTGAAGCCAC
131 ATCAGATTGAAGCTACAACGGTGAATCTTGTTCCCCAACATTGCAATTAAAAAGATTGAAGCCAC
* * *
13289960 AACGGCAAATCTCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGCTACGACA
196 AACGACAAATCCCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGCAACGACA
* * * *
13290014 GCGAATCTTGTTTCCCTGATATTGCAATTTAAAATATTGAAGCCGCAACGACGAATCTTACTTCA
1 GCGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTAAAGCCACAACGACGAATCTTACTTCA
* ** * * * * *
13290079 TTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTT
66 CTAACAGTGCAATGAAAAAGATTGAAGCCACAACGGCGAATCTT
13290123 GTTCCCCGAC
Statistics
Matches: 307, Mismatches: 50, Indels: 2
0.86 0.14 0.01
Matches are distributed among these distances:
249 307 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (249 bp):
GCGAATCTTGCTTCCCTGATATTGCAATTTAAAAGATTAAAGCCACAACGACGAATCTTACTTCA
CTAACAGTGCAATGAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGCAATGCAGTGG
ATCAGATTGAAGCTACAACGGTGAATCTTGTTCCCCAACATTGCAATTAAAAAGATTGAAGCCAC
AACGACAAATCCCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGCAACGACA
Found at i:13290297 original size:298 final size:298
Alignment explanation
Indices: 13289817--13290454 Score: 902
Period size: 298 Copynumber: 2.1 Consensus size: 298
13289807 CTACGATGGT
** * *
13289817 GAATCTTGCTTCCCTAACATTGCAATTAAAAAGATTGAAGCCGCAACGGCGAATCTTACTTCTCT
1 GAATCTTG-TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCT
* * * *
13289882 GGCGATGCAGTGGATCAGATTGAAGCTACAATGGTGAATCTTGTTCCCCGACATTGCAATTAAAA
65 AGCGATGCAGTGGAGCAGATTAAAGCTACAACGGTGAATCTTGTTCCCCGACATTGCAATTAAAA
*
13289947 ATATTGAAGCCACAACGGCAAATCTCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGCTACGA
130 AGATTGAAGCCACAACGGCAAATCTCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGCTACGA
* * * * *
13290012 CAGCGAATCTTGTTTCCCTGATATTGCAATTTAAAATATTGAAGCCGCAACGACGAATCTTACTT
195 CAGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTT
13290077 -CATTGGCAGTGCAGTGGAACAGATTGAAGCTACAACGAC
260 CCATT-GCAGTGCAGTGGAACAGATTGAAGCTACAACGAC
*
13290116 GAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACGACGGCGAATCTTACTTCCCTA
1 GAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTA
* * * *
13290181 GCGGTGCAGTGGAGCAGATTAAAGCTACGACGGTGAATCTTGCTTCCCTGACATTGC-ATTTAAA
66 GCGATGCAGTGGAGCAGATTAAAGCTACAACGGTGAATCTTG-TTCCCCGACATTGCAATTAAAA
* * * * * * * *
13290245 AGATTGAAGCCGCAACGGCGAATCTTACTTCCTTGGCGGTGCAGTGGAGCAGATTAAAGCTACGA
130 AGATTGAAGCCACAACGGCAAATCTCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGCTACGA
13290310 CAGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTT
195 CAGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTT
* * **
13290375 CCCTTGCAGTGCTGTGGAACAGATTGAAGCTACAACGGT
260 CCATTGCAGTGCAGTGGAACAGATTGAAGCTACAACGAC
* ** * *
13290414 GAATCTGGTTCCCCGGTATTACAGTTTAAAAAGATTGAAGC
1 GAATCTTGTTCCCCGACATTGCA-ATTAAAAAGATTGAAGC
13290455 TATACTCACA
Statistics
Matches: 300, Mismatches: 36, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
298 260 0.87
299 40 0.13
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.25
Consensus pattern (298 bp):
GAATCTTGTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCTA
GCGATGCAGTGGAGCAGATTAAAGCTACAACGGTGAATCTTGTTCCCCGACATTGCAATTAAAAA
GATTGAAGCCACAACGGCAAATCTCACTTCCCTAGCAGTACAGTAGAGCAGATTAAAGCTACGAC
AGCGAATCTTGCTTCCCCGACATTGCAATTAAAAAGATTGAAGCCGCAACGACGAATCTTACTTC
CATTGCAGTGCAGTGGAACAGATTGAAGCTACAACGAC
Found at i:13290602 original size:44 final size:42
Alignment explanation
Indices: 13290460--13291235 Score: 332
Period size: 44 Copynumber: 18.0 Consensus size: 42
13290450 GAAGCTATAC
* * ***
13290460 TCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCA
1 TCACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAA
* ** * *
13290503 TCA-AGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGACGAAAGA
1 TCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAA-A
* * * *
13290545 -AACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAA
1 TCA-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAA
* * * ***
13290588 CCACATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCA
1 TCACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAA
* *** * *
13290631 TCA-AGTCTTATCTCCCT-AAACAGTAGTGGAGCAGACGAAAGA
1 TCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAA-A
* * *
13290673 -AACCAATCCTATCTCCCTGAAGTTGCAGGTGGAGCGGATTAAAA
1 TCA-CAATCTTATCTCCCTGAAGTTGCA-GTGGAGCAGA-TAAAA
* * * * * ***
13290717 CCACAGATTTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA
1 TCACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAA
* ** * *
13290760 TCA-AGTCTTATCTCCCT-AAGCAGTAGTGGAGCAGACGAATGAA
1 TCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAA--AA
* *
13290803 AC-CAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA
1 TCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAA
* * * * * ***
13290845 CCACAGATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATCGCA
1 TCACA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAA
* *
13290888 TC-CAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAAAA
1 TCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAA
** *
13290929 GAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA
1 -TCA-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAA
* ** * * * *
13290974 -AACCAGATCTTATCTCTTTGAAGTTACAGTAGAGCAGATCACA
1 TCA-CA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAA
13291017 TC-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGCA-AAAA
1 TCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATAAAA
* * * * *
13291058 --A-AATCCTATCTCCTTGAAGTTACAGTGTAGCGGATTAAAA
1 TCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAAA
* * * * *
13291098 TAATGAATCTTATAC-CTCTAAAGTTGCAGTAGG-TC-GAATTAAATCTTA
1 TCA-CAATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAG-A-TAAA----A
* * * *
13291146 TTATATCAAACCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGAT
1 -T-CA-C-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-T-AA-AA
*
13291195 TCA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAA
1 TCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TAAA
13291236 GATACCAATC
Statistics
Matches: 538, Mismatches: 144, Indels: 103
0.69 0.18 0.13
Matches are distributed among these distances:
38 1 0.00
39 27 0.05
40 44 0.08
41 91 0.17
42 15 0.03
43 68 0.13
44 219 0.41
45 37 0.07
47 1 0.00
48 2 0.00
49 1 0.00
50 4 0.01
51 24 0.04
52 3 0.01
53 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (42 bp):
TCACAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAAAA
Found at i:13290777 original size:129 final size:128
Alignment explanation
Indices: 13290461--13291097 Score: 955
Period size: 129 Copynumber: 5.0 Consensus size: 128
13290451 AAGCTATACT
13290461 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAG
1 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAG
*
13290526 TAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAAC
66 TAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
* *
13290589 CACATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAACAG
1 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAG
13290654 TAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGGTGGAGCGGATTAAAAC
66 TAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCA-GTGGAGCGGATTAAAAC
* *
13290718 CACAGATTTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAG
1 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAG
* *
13290783 TAGTGGAGCAGACGAATGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAC
66 TAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
* * * **
13290846 CACAGATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATCGCATCCAGTCTTATCTCCCTGAAGTT
1 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT-AAGCA
* * *
13290911 GCAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAA-
65 GTAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
* * * *
13290974 AACCAGATCTTATCTCTTTGAAGTTACAGTAGAGCAGATCACATCCAA-TCTTATCTCCCTGAAG
1 CA-CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCAT-CAAGTCTTATCTCCCT-AAG
** * * * *
13291038 TTGCAGTGGAGCAG-C-AAA-AAA--AATCCTATCTCCTTGAAGTTACAGTGTAGCGGATTAAAA
63 CAGTAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
13291098 TAATGAATCT
Statistics
Matches: 475, Mismatches: 30, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
124 35 0.07
126 3 0.01
127 3 0.01
128 180 0.38
129 252 0.53
130 2 0.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (128 bp):
CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAG
TAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAC
Found at i:13290964 original size:257 final size:255
Alignment explanation
Indices: 13290461--13291097 Score: 953
Period size: 257 Copynumber: 2.5 Consensus size: 255
13290451 AAGCTATACT
*
13290461 CACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAG
1 CACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAG
*
13290526 TAGTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCA
66 TAGTGGAGCAGACG-AAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCA
* *
13290591 CATATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAACAGTA
130 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAACAGCA
* *
13290656 GTGGAGCAGACGAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGGTGGAGCGGATTAAAA
195 GTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGGTGGAGCAGATTAAAA
*
13290717 CCACAGATTTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
1 -CACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCA
*
13290782 GTAGTGGAGCAGACGAATGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC
65 GTAGTGGAGCAGACGAA-GAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC
* * * ***
13290847 ACAGATCTTATCTCTCTGAAGTTGTAGTAGAGTAGATCGCATCCAGTCTTATCTCCCTGAAGTTG
129 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCT-AAACAG
13290912 CAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCA-GTGGAGCAGATTAAAA
193 CAGTGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGGTGGAGCAGATTAAAA
* * *
13290974 AACCAGATCTTATCTCTTTGAAGTTACAGTAGAGCAGATCACATCCAA-TCTTATCTCCCTGAAG
1 CA-CAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAT-CAAGTCTTATCTCCCT-AAG
** * * * * *
13291038 TTGCAGTGGAGCAG-C-AA-AAA-AAATCCTATCTCCTTGAAGTTACAGTGTAGCGGATTAAAA
63 CAGTAGTGGAGCAGACGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
13291098 TAATGAATCT
Statistics
Matches: 349, Mismatches: 26, Indels: 14
0.90 0.07 0.04
Matches are distributed among these distances:
253 35 0.10
254 3 0.01
256 5 0.01
257 242 0.69
258 64 0.18
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.25
Consensus pattern (255 bp):
CACAGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAGCAG
TAGTGGAGCAGACGAAGAAACCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCAC
AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCAAGTCTTATCTCCCTAAACAGCAG
TGGAGCAGACAAAAGAAACCAATCCTATCTCCCTGAAGTTGCAGGTGGAGCAGATTAAAA
Found at i:13291029 original size:85 final size:84
Alignment explanation
Indices: 13290463--13291083 Score: 337
Period size: 85 Copynumber: 7.3 Consensus size: 84
13290453 GCTATACTCA
* * ** **
13290463 CAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCAT-CAAGTCTTATCTCCCT-AAGCAG
1 CAGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCAAATCCAA-TCTTATCTCCCTGAAGTTG
* *
13290526 TAGTGGAGCAGACGAAAGAAAC
65 CAGTGGAGCAGA-TAAA-AAAC
* * * * * * * *
13290548 CA-ATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAACCACATATCTTATCTCTCTGAAGT
1 CAGATCTTATCTCCCTGAAGTTACAGTAGAGCAGA-TCAAATC-CA-ATCTTATCTCCCTGAAGT
* *** *
13290612 TGCAGTAGAGCAGAT-CGCATC
63 TGCAGTGGAGCAGATAAAAAAC
* * *
13290633 AAG-TCTTATCTCCCT-AA---ACAGTAGTGGAGCAGA-CGAAAGAAACCAATCCTATCTCCCTG
1 CAGATCTTATCTCCCTGAAGTTACAGTA---GAGCAGATC---A-AATCCAATCTTATCTCCCTG
* * *
13290692 AAGTTGCAGGTGGAGCGGATTAAAACC
59 AAGTTGCA-GTGGAGCAGATAAAAAAC
* * ** **
13290719 ACAGATTTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCAT-CAAGTCTTATCTCCCT-AAGCA
1 -CAGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCAAATCCAA-TCTTATCTCCCTGAAGTT
* * *
13290782 GTAGTGGAGCAGACGAATGAAAC
64 GCAGTGGAGCAGA-TAA-AAAAC
* * * * * *
13290805 CA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCACAGATCTTATCTCTCTGAAGT
1 CAGATCTTATCTCCCTGAAGTTACAGTAGAGCAGA-TCAAATC-CA-ATCTTATCTCCCTGAAGT
* * * *** *
13290869 TGTAGTAGAGTAGAT-CGCATC
63 TGCAGTGGAGCAGATAAAAAAC
* * * *
13290890 CAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CAAAAGAAACCAATCCTATCTCCCTGAAG
1 CAGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATC---A-AATCCAATCTTATCTCCCTGAAG
13290953 TTGCAGTGGAGCAGATTAAAAAAC
62 TTGCAGTGGAGCAGA-TAAAAAAC
** *
13290977 CAGATCTTATCTCTTTGAAGTTACAGTAGAGCAGATCACATCCAATCTTATCTCCCTGAAGTTGC
1 CAGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCAAATCCAATCTTATCTCCCTGAAGTTGC
*
13291042 AGTGGAGCAG-CAAAAAA-
66 AGTGGAGCAGATAAAAAAC
* *
13291059 -A-ATCCTATCTCCTTGAAGTTACAGT
1 CAGATCTTATCTCCCTGAAGTTACAGT
13291084 GTAGCGGATT
Statistics
Matches: 408, Mismatches: 89, Indels: 83
0.70 0.15 0.14
Matches are distributed among these distances:
80 22 0.05
81 5 0.01
83 6 0.01
84 91 0.22
85 139 0.34
86 25 0.06
87 36 0.09
88 67 0.16
89 10 0.02
90 1 0.00
92 6 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (84 bp):
CAGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCAAATCCAATCTTATCTCCCTGAAGTTGC
AGTGGAGCAGATAAAAAAC
Found at i:13291924 original size:17 final size:17
Alignment explanation
Indices: 13291891--13291948 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 17
13291881 ATTCTCTCCA
**
13291891 TTTTTCTTTT-TGATAT
1 TTTTTCTTTTATCTTAT
13291907 TTTTTCTATTTAT-TTAT
1 TTTTTCT-TTTATCTTAT
* *
13291924 TTTCTCTTTTTTCTTA-
1 TTTTTCTTTTATCTTAT
13291940 TTTTTCTTT
1 TTTTTCTTT
13291949 CAAATCCATT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
16 19 0.54
17 15 0.43
18 1 0.03
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTTATCTTAT
Found at i:13292703 original size:2 final size:2
Alignment explanation
Indices: 13292696--13292733 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
13292686 TATTTAAAGT
13292696 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13292734 TATTTACCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:13292737 original size:10 final size:11
Alignment explanation
Indices: 13292695--13292737 Score: 65
Period size: 10 Copynumber: 4.2 Consensus size: 11
13292685 TTATTTAAAG
13292695 TTATATATATA
1 TTATATATATA
13292706 -TATATATATA
1 TTATATATATA
13292716 -TATATATATA
1 TTATATATATA
13292726 TTATATAT-TA
1 TTATATATATA
13292736 TT
1 TT
13292738 TACCTAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 24 0.77
11 7 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTATATATATA
Found at i:13293299 original size:18 final size:19
Alignment explanation
Indices: 13293264--13293300 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13293254 TTTATTATCA
*
13293264 TTATTTTTTTACTTTATGT
1 TTATTTATTTACTTTATGT
13293283 TTATTTATTTA-TTTATGT
1 TTATTTATTTACTTTATGT
13293301 GCATTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.19, C:0.03, G:0.05, T:0.73
Consensus pattern (19 bp):
TTATTTATTTACTTTATGT
Found at i:13293354 original size:20 final size:20
Alignment explanation
Indices: 13293331--13293386 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 20
13293321 GTTTTAGTTT
13293331 TTATTTTATTTATTTACTTG
1 TTATTTTATTTATTTACTTG
* * * *
13293351 TTATTGTATATAATTGATTTG
1 TTATTTTAT-TTATTTACTTG
*
13293372 TT-TTTTATATATTTA
1 TTATTTTATTTATTTA
13293387 TTTTTGTTAT
Statistics
Matches: 27, Mismatches: 8, Indels: 3
0.71 0.21 0.08
Matches are distributed among these distances:
19 4 0.15
20 13 0.48
21 10 0.37
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.66
Consensus pattern (20 bp):
TTATTTTATTTATTTACTTG
Found at i:13294410 original size:18 final size:18
Alignment explanation
Indices: 13294377--13294414 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
13294367 TAAAAAGTAA
*
13294377 TTTTTAAATTATCAAATAT
1 TTTTTAAACTATCAAA-AT
13294396 TTTTTAAACTA-CAAAAT
1 TTTTTAAACTATCAAAAT
13294413 TT
1 TT
13294415 ATATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 4 0.22
19 10 0.56
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTTAAACTATCAAAAT
Found at i:13296003 original size:25 final size:26
Alignment explanation
Indices: 13295955--13296003 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
13295945 TTAATTTGAA
*
13295955 TATTTCATTTTTTTAAAAAGATAATT
1 TATTTCATATTTTTAAAAAGATAATT
13295981 TATTTCA-ATTTTTAATAAA-ATAA
1 TATTTCATATTTTTAA-AAAGATAA
13296004 AATCAACTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (26 bp):
TATTTCATATTTTTAAAAAGATAATT
Found at i:13302731 original size:17 final size:17
Alignment explanation
Indices: 13302709--13302741 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
13302699 AATTTAGTAT
13302709 TGTTTTAGTTAATTTTC
1 TGTTTTAGTTAATTTTC
*
13302726 TGTTTTAGTTCATTTT
1 TGTTTTAGTTAATTTT
13302742 TAGTTAAAGT
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:0.15, C:0.06, G:0.12, T:0.67
Consensus pattern (17 bp):
TGTTTTAGTTAATTTTC
Found at i:13305195 original size:240 final size:235
Alignment explanation
Indices: 13304755--13305230 Score: 762
Period size: 233 Copynumber: 2.0 Consensus size: 235
13304745 CATTAGTTTA
13304755 ACAGTTGGTTGTGTTTCAATAATAATTGATTTAAAATTTTGAAAATAAAAAATTATGGCAAATTA
1 ACAGTTGGTTGTGTTTCAATAATAATTGATTTAAAATTTTGAAAATAAAAAATTATGGCAAATTA
*
13304820 CACCGTTAGTCATTCTAAATAAGGGTCATTCCTCCCTTTTTTTTTGTTAATTTGGTTACCCTAAA
66 CACCGTTAGTCATTCTAAATAAAGGTCATTCCTCCCTTTTTTTTTGTTAATTTGGTTACCCTAAA
*
13304885 AAAGTTGATCAAATTGGTCACTCTACCATTAAATGGTAACAAAAGATTAACGATGCATTTGTACA
131 AAAATTGATCAAATTGGTCACTCTACCATTAAATGGTAACAAAAGATTAACGATGCATTTGTACA
*
13304950 AAAAAA-ATGGGGTGATCAAAG-AGTAACGACCTTTATTT
196 AAAAAATATGGGGTGATCAAAGTAGTAACAACCTTTATTT
* * *
13304988 ACAGTTGGTTTTGTTTCAATAATAATTTATTTAAAATTTTGACAATAAAAAATTATGGCAAATTA
1 ACAGTTGGTTGTGTTTCAATAATAATTGATTTAAAATTTTGAAAATAAAAAATTATGGCAAATTA
13305053 CACCGTTAGTCATTCTAAATAAAGGTCATTCCTATTTTGATCACC-TTTTTTTT-TTAATTTGGT
66 CACCGTTAGTCATTCTAAATAAAGGTCATTCC--------TC-CCTTTTTTTTTGTTAATTTGGT
*
13305116 TACCCTAAAAAAATTGATCAAATTGGTCACTCTACCATTAAATGGTAACAAAATATTAACGATGC
122 TACCCTAAAAAAATTGATCAAATTGGTCACTCTACCATTAAATGGTAACAAAAGATTAACGATGC
* *
13305181 ATTTTTACAAAAAAATTTGGGGTGATCAAAGTAGTAACAACCTTTATTT
187 ATTTGTACAAAAAAATATGGGGTGATCAAAGTAGTAACAACCTTTATTT
13305230 A
1 A
13305231 GAGTGATTGA
Statistics
Matches: 223, Mismatches: 9, Indels: 13
0.91 0.04 0.05
Matches are distributed among these distances:
233 93 0.42
240 87 0.39
241 24 0.11
242 19 0.09
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (235 bp):
ACAGTTGGTTGTGTTTCAATAATAATTGATTTAAAATTTTGAAAATAAAAAATTATGGCAAATTA
CACCGTTAGTCATTCTAAATAAAGGTCATTCCTCCCTTTTTTTTTGTTAATTTGGTTACCCTAAA
AAAATTGATCAAATTGGTCACTCTACCATTAAATGGTAACAAAAGATTAACGATGCATTTGTACA
AAAAAATATGGGGTGATCAAAGTAGTAACAACCTTTATTT
Found at i:13305634 original size:14 final size:14
Alignment explanation
Indices: 13305611--13305641 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
13305601 TAATAATAAA
13305611 AATGGACATTTCTC
1 AATGGACATTTCTC
*
13305625 AATGGTCATTTCTC
1 AATGGACATTTCTC
13305639 AAT
1 AAT
13305642 TTGGATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (14 bp):
AATGGACATTTCTC
Found at i:13307189 original size:26 final size:26
Alignment explanation
Indices: 13307153--13307203 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
13307143 TGAAAGAAAT
13307153 AGAAATCGAAAAAAAAACAAAAAAAA
1 AGAAATCGAAAAAAAAACAAAAAAAA
*
13307179 AGAAATCGAAAAAAATACAAAAAAA
1 AGAAATCGAAAAAAAAACAAAAAAA
13307204 TTAGAGGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.78, C:0.08, G:0.08, T:0.06
Consensus pattern (26 bp):
AGAAATCGAAAAAAAAACAAAAAAAA
Found at i:13309374 original size:19 final size:19
Alignment explanation
Indices: 13309329--13309368 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
13309319 AGTTTATATT
* *
13309329 TTCATTTCACATTTTCATA
1 TTCAATTCACATTTTCAAA
13309348 TTCAATTCACATTTTCAAA
1 TTCAATTCACATTTTCAAA
13309367 TT
1 TT
13309369 ATATTCCACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.20, G:0.00, T:0.50
Consensus pattern (19 bp):
TTCAATTCACATTTTCAAA
Found at i:13309612 original size:45 final size:45
Alignment explanation
Indices: 13309556--13309746 Score: 267
Period size: 45 Copynumber: 4.2 Consensus size: 45
13309546 AACAGTAGGT
* * ** * *
13309556 GTAACAATAACGGTAACAGTATTATACACATAAAGTGCCGAATCG
1 GTAACAGTAACGGTAACAATATTCGACACACAAAGTGCCGAATCA
* * **
13309601 GTAACAGTAACGGTAGCAGTATTCGACACACAAAGTGTTGAATCA
1 GTAACAGTAACGGTAACAATATTCGACACACAAAGTGCCGAATCA
*
13309646 GTAACAGTAACGGTAACAATATTCGACACACAAAGTGTCGAATCA
1 GTAACAGTAACGGTAACAATATTCGACACACAAAGTGCCGAATCA
13309691 GTAACAGTAACGGTAACAATATTCGACACACAAAGTGCCGAATC-
1 GTAACAGTAACGGTAACAATATTCGACACACAAAGTGCCGAATCA
13309735 GATAACAGTAAC
1 G-TAACAGTAAC
13309747 AATTGTCGGC
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
44 1 0.01
45 132 0.99
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.20
Consensus pattern (45 bp):
GTAACAGTAACGGTAACAATATTCGACACACAAAGTGCCGAATCA
Found at i:13310017 original size:40 final size:40
Alignment explanation
Indices: 13309949--13310030 Score: 103
Period size: 40 Copynumber: 2.0 Consensus size: 40
13309939 AATTCATTAC
* * * *
13309949 TTCAGTAATTTCACAGTTCAATGTAGTACACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
*
13309989 TTCAGTAACTTCACAATTCAACT-CAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAA-TGCAGTACACAAAACAATA
13310029 TT
1 TT
13310031 ACGTATTCCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.40, C:0.21, G:0.07, T:0.32
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACACAAAACAATA
Found at i:13314321 original size:20 final size:20
Alignment explanation
Indices: 13314296--13314351 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
13314286 GATTAGTACC
13314296 ATTATTATTATAAAATCGAT
1 ATTATTATTATAAAATCGAT
* * *
13314316 ATTATTATGATAAAGTTGAT
1 ATTATTATTATAAAATCGAT
*
13314336 ATTATTACTATAAAAT
1 ATTATTATTATAAAAT
13314352 TGGTATTCTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (20 bp):
ATTATTATTATAAAATCGAT
Found at i:13314358 original size:20 final size:19
Alignment explanation
Indices: 13314296--13314358 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
13314286 GATTAGTACC
*
13314296 ATTATTATTATAAAATCGAT
1 ATTATTA-TATAAAATTGAT
*
13314316 ATTATTATGATAAAGTTGAT
1 ATTATTAT-ATAAAATTGAT
*
13314336 ATTATTACTATAAAATTGGT
1 ATTATTA-TATAAAATTGAT
13314356 ATT
1 ATT
13314359 CTCATTACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 1 0.03
20 35 0.95
21 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.46
Consensus pattern (19 bp):
ATTATTATATAAAATTGAT
Found at i:13315891 original size:16 final size:16
Alignment explanation
Indices: 13315853--13315892 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 16
13315843 ATACTTTCAT
13315853 TAAATATATTAAAAAAA
1 TAAATAT-TTAAAAAAA
13315870 T--A-ATTTAAAAAAA
1 TAAATATTTAAAAAAA
13315883 TAAATATTTA
1 TAAATATTTA
13315893 TGACAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 7
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.50
14 2 0.10
15 2 0.10
16 5 0.25
17 1 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAATATTTAAAAAAA
Found at i:13328284 original size:3 final size:3
Alignment explanation
Indices: 13328276--13328300 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13328266 AATTTATTTT
13328276 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
13328301 TTTTTGTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:13330777 original size:21 final size:23
Alignment explanation
Indices: 13330751--13330802 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
13330741 TGTAGTTTTC
13330751 TAGGTGAAAAGA-T-GGATGTAA
1 TAGGTGAAAAGATTAGGATGTAA
* *
13330772 TAGGTG-AAAGATTAGGATTTTA
1 TAGGTGAAAAGATTAGGATGTAA
13330794 TAGGTGAAA
1 TAGGTGAAA
13330803 GGCTGATGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 5 0.19
21 7 0.27
22 12 0.46
23 2 0.08
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (23 bp):
TAGGTGAAAAGATTAGGATGTAA
Found at i:13330796 original size:22 final size:20
Alignment explanation
Indices: 13330746--13330803 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
13330736 GGGGTTGTAG
*
13330746 TTTTCTAGGTGAAAAGATGGA
1 TTTTATAGGTG-AAAGATGGA
* *
13330767 TGTAATAGGTGAAAGATTAGGA
1 TTTTATAGGTGAAAGA-T-GGA
13330789 TTTTATAGGTGAAAG
1 TTTTATAGGTGAAAG
13330804 GCTGATGGGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 5 0.17
21 9 0.30
22 16 0.53
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.33
Consensus pattern (20 bp):
TTTTATAGGTGAAAGATGGA
Found at i:13344923 original size:21 final size:21
Alignment explanation
Indices: 13344877--13344933 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
13344867 TCATGTTTAC
*
13344877 TTTCTGTTTAGCTCTCACGAG
1 TTTCTGTTTAACTCTCACGAG
* *
13344898 ATTCTGTTTAACTCAT-ATGAG
1 TTTCTGTTTAACTC-TCACGAG
*
13344919 TTTCTGTTCAACTCT
1 TTTCTGTTTAACTCT
13344934 AATTAGTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.93
22 1 0.03
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (21 bp):
TTTCTGTTTAACTCTCACGAG
Found at i:13344941 original size:21 final size:21
Alignment explanation
Indices: 13344899--13344949 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
13344889 TCTCACGAGA
*
13344899 TTCTGTTTAACTCATATGAGT
1 TTCTGTTCAACTCATATGAGT
*
13344920 TTCTGTTCAACTC-TAATTAGT
1 TTCTGTTCAACTCAT-ATGAGT
*
13344941 TTCCGTTCA
1 TTCTGTTCA
13344950 GGTTTTTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.47
Consensus pattern (21 bp):
TTCTGTTCAACTCATATGAGT
Found at i:13345003 original size:42 final size:42
Alignment explanation
Indices: 13344939--13345027 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 42
13344929 ACTCTAATTA
** * * *
13344939 GTTTCCGTTCAGGTTTTTTGAGCTTTTGTTTAACCCTTATGG
1 GTTTCCGTTCAGGTTTAATGAGCTTTCGTTCAACCCTTACGG
13344981 GTTTCCGTTCA-GTTCTAATGAGCTTTCGTTCAACCCTTACGG
1 GTTTCCGTTCAGGTT-TAATGAGCTTTCGTTCAACCCTTACGG
13345023 GTTTC
1 GTTTC
13345028 TATTTAGCAC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
41 3 0.07
42 38 0.93
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.45
Consensus pattern (42 bp):
GTTTCCGTTCAGGTTTAATGAGCTTTCGTTCAACCCTTACGG
Found at i:13347790 original size:25 final size:25
Alignment explanation
Indices: 13347762--13347845 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
13347752 CAATACCTAA
13347762 TAAACCTAAACTTAAAAATTGAGTT
1 TAAACCTAAACTTAAAAATTGAGTT
* ** *
13347787 TAAACAAGTTAAAACTTAAAAATT-CCTAA
1 TAAAC---CT-AAACTTAAAAATTGAGT-T
*
13347816 TAAACCTAAACATAAAAATTGAGTT
1 TAAACCTAAACTTAAAAATTGAGTT
13347841 TAAAC
1 TAAAC
13347846 AATTTAAAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
25 22 0.50
26 2 0.05
28 2 0.05
29 18 0.41
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (25 bp):
TAAACCTAAACTTAAAAATTGAGTT
Found at i:13347792 original size:54 final size:54
Alignment explanation
Indices: 13347718--13347855 Score: 222
Period size: 54 Copynumber: 2.5 Consensus size: 54
13347708 TCCTTTGCGT
* *
13347718 TTAAACAATTGAGATTAAACAATTTAAAACTTAACAATACCTAATAAACCTAAAC
1 TTAAA-AATTGAGTTTAAACAATTTAAAACTTAAAAATACCTAATAAACCTAAAC
* *
13347773 TTAAAAATTGAGTTTAAACAAGTTAAAACTTAAAAATTCCTAATAAACCTAAAC
1 TTAAAAATTGAGTTTAAACAATTTAAAACTTAAAAATACCTAATAAACCTAAAC
*
13347827 ATAAAAATTGAGTTTAAACAATTTAAAAC
1 TTAAAAATTGAGTTTAAACAATTTAAAAC
13347856 AATTCAGTTT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
54 72 0.94
55 5 0.06
ACGTcount: A:0.53, C:0.13, G:0.05, T:0.29
Consensus pattern (54 bp):
TTAAAAATTGAGTTTAAACAATTTAAAACTTAAAAATACCTAATAAACCTAAAC
Found at i:13347864 original size:24 final size:24
Alignment explanation
Indices: 13347832--13347879 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
13347822 TAAACATAAA
*
13347832 AATTGAGTTTAAACAATTTAAAAC
1 AATTCAGTTTAAACAATTTAAAAC
13347856 AATTCAGTTTAAACAATTTAAAAC
1 AATTCAGTTTAAACAATTTAAAAC
13347880 TTAAAAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.33
Consensus pattern (24 bp):
AATTCAGTTTAAACAATTTAAAAC
Found at i:13348396 original size:5 final size:5
Alignment explanation
Indices: 13348388--13348432 Score: 81
Period size: 5 Copynumber: 9.0 Consensus size: 5
13348378 AAATAAAAGA
*
13348388 AAATC AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT AAATT
13348433 CTAAAAAGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:13353187 original size:140 final size:141
Alignment explanation
Indices: 13352907--13353189 Score: 446
Period size: 140 Copynumber: 2.0 Consensus size: 141
13352897 GGGTTTGGTA
13352907 CCATGAACCCATACAAATTCAAGGGGAATGGCTAAAGGGCTGATCAACAGCAGAGAGCCTTTATG
1 CCATGAACCCATACAAATTCAAGGGGAATGGCTAAAGGGC--AT--A-AGCAGAGAGCCTTTATG
*
13352972 GTTGCTCAGGTCAGTCTCGTAATTGCCTGTAACTTTCAACAAAATTGCTGCAAATAACCTTCTTA
61 GTTGCTCAGGTCAGTCTCGTAATTGCCTGAAACTTTCAACAAAATTGCTGCAAATAACCTTCTTA
13353037 TTTGTGAAAATGCGTT
126 TTTGTGAAAATGCGTT
*
13353053 CCATGAA-CCAGTACAAATTTAAGGGGAATGGCTAAAGGGC-T-AGCAGAGAGCCTTTATGGTTG
1 CCATGAACCCA-TACAAATTCAAGGGGAATGGCTAAAGGGCATAAGCAGAGAGCCTTTATGGTTG
* *
13353115 CTCAGGTCAGTTTCGTAATTGCCTGAAAACTTTCAACAAAATTGCTGCAAATAAGCTTCTTATTT
65 CTCAGGTCAGTCTCGTAATTGCCTG-AAACTTTCAACAAAATTGCTGCAAATAACCTTCTTATTT
13353180 GTGAAAATGC
129 GTGAAAATGC
13353190 ACACCTTAAA
Statistics
Matches: 131, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
139 45 0.34
140 47 0.36
143 1 0.01
145 3 0.02
146 35 0.27
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (141 bp):
CCATGAACCCATACAAATTCAAGGGGAATGGCTAAAGGGCATAAGCAGAGAGCCTTTATGGTTGC
TCAGGTCAGTCTCGTAATTGCCTGAAACTTTCAACAAAATTGCTGCAAATAACCTTCTTATTTGT
GAAAATGCGTT
Found at i:13353831 original size:18 final size:16
Alignment explanation
Indices: 13353796--13353834 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
13353786 AATAAAAATA
13353796 TATTATTTTCTAATTT
1 TATTATTTTCTAATTT
*
13353812 TATTATTTTACATTATTT
1 TATTATTTT-C-TAATTT
13353830 TATTA
1 TATTA
13353835 CATTATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 1 0.05
18 10 0.50
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (16 bp):
TATTATTTTCTAATTT
Found at i:13353870 original size:156 final size:156
Alignment explanation
Indices: 13353585--13353949 Score: 601
Period size: 156 Copynumber: 2.4 Consensus size: 156
13353575 AACATGTTTG
* * * *
13353585 TATTTCAGCCCTTTATTCATATTTTTTTCTCGGATTTTATTACTTT-AA-AAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTT
* *
13353648 TCTAATTTTATTATTTTACATTATTTTAGTAGATTATGTTTGAAATGCATTCATTTAGTGTGTTT
66 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGCATTCATCTAGTGTGTTT
* *
13353713 TTTAAATAAATTTTTAAAAAAAATCCT
131 TTTAAATAAA-TTTAAAAAAAAACCCT
13353740 TATTTCGGCCCTTTGTTCGTA-TTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTT
* *
13353804 TCTAATTTTATTATTTTACATTATTTTATTACATTATGTTTGAAATGTATTCATCTAGTGTGTTT
66 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGCATTCATCTAGTGTGTTT
13353869 TTTAAATAAATTTAAAAAAAAACCCT
131 TTTAAATAAATTTAAAAAAAAACCCT
*
13353895 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGAATTTTATTACTTTCAATAAAAA
1 TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAA
13353950 AACACTAAAT
Statistics
Matches: 196, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
154 23 0.12
155 55 0.28
156 118 0.60
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.51
Consensus pattern (156 bp):
TATTTCGGCCCTTTGTTCGTATTTTTTTCCCGGATTTTATTACTTTCAATAAAAATATATTATTT
TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGCATTCATCTAGTGTGTTT
TTTAAATAAATTTAAAAAAAAACCCT
Found at i:13354092 original size:113 final size:116
Alignment explanation
Indices: 13353975--13354205 Score: 346
Period size: 116 Copynumber: 2.0 Consensus size: 116
13353965 CATTTCAAGC
13353975 ATAATGTACTAAAATAATGTAAAATTAA-AAAATTAGAAAATA-T-TAATATTTTAAAGTAATAA
1 ATAATGTACTAAAATAATGTAAAA-TAATAAAATTAGAAAATAGTATAATATTTTAAAGTAATAA
** *
13354037 AA-TCTTGAAAAAAATACGAACAAATGGCCGAAAT-AAGAATTTTTTTAATTT
65 AATTCGAGAAAAAAATACGAACAAAGGGCCGAAATAAAG-ATTTTTTTAATTT
* * *
13354088 ATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTACTAAA
1 ATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATAATATTTTAAAGTAATAAA
*
13354153 ATTCGAGAAAAAAATACGAATAAAGGGCCGAAATAAAGATTTTTTTAATTT
66 ATTCGAGAAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAATTT
13354204 AT
1 AT
13354206 TTAAAAAATA
Statistics
Matches: 106, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
112 3 0.03
113 38 0.36
114 1 0.01
115 18 0.17
116 43 0.41
117 3 0.03
ACGTcount: A:0.52, C:0.05, G:0.10, T:0.33
Consensus pattern (116 bp):
ATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATAATATTTTAAAGTAATAAA
ATTCGAGAAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAATTT
Found at i:13354415 original size:153 final size:149
Alignment explanation
Indices: 13354087--13354455 Score: 470
Period size: 153 Copynumber: 2.4 Consensus size: 149
13354077 TTTTTTAATT
* * *
13354087 TATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTACTAA
1 TATAATGTACTAAAATAATGTAAAATTA-AAAATTAGAAAATAATATA-TTTTTTAAAGTAATAA
* ** ** * *
13354152 AATTCGAGAAAAAAATACGAATAAAGGGCCGAAATAAAGATTTTTTTAATTTATTTAAAAAATAT
64 AATTCGAAAAAAAAATACGAATAAAAAGCCGAAATAAAGATTTTTTTAATTTAAATAAAAAACAC
* * *
13354217 AGTAAATTAATACATTTCAAG
129 ACTAAATGAATACATTTCAAA
* * * *
13354238 CATAATGAACTAAAATAATATAAAATTAGAAAATTTA-AAAATAATATATTTTTAAAAGTAATAA
1 TATAATGTACTAAAATAATGTAAAATTA-AAAA-TTAGAAAATAATATATTTTTTAAAGTAATAA
* *
13354302 AATTTGAAAAAAAAATACGAATAAAAAGTCGAAATAAAGATTTTTTTTTAAATTTAAATAAAAAA
64 AATTCGAAAAAAAAATACGAATAAAAAGCCGAAATAAAGA--TTTTTTT-AATTTAAATAAAAAA
13354367 CACACTAAATGAATACATTTCAAA
126 CACACTAAATGAATACATTTCAAA
*
13354391 TATAATCTACTAAAATAATGTAAAATTAAAAAATTAGAAAATAATATATATTTTTAAAGTAATAA
1 TATAATGTACTAAAATAATGTAAAATT-AAAAATTAGAAAATAATATAT-TTTTTAAAGTAATAA
13354456 TTTTTTTGTA
Statistics
Matches: 186, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
150 49 0.26
151 38 0.20
152 13 0.07
153 71 0.38
154 15 0.08
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (149 bp):
TATAATGTACTAAAATAATGTAAAATTAAAAATTAGAAAATAATATATTTTTTAAAGTAATAAAA
TTCGAAAAAAAAATACGAATAAAAAGCCGAAATAAAGATTTTTTTAATTTAAATAAAAAACACAC
TAAATGAATACATTTCAAA
Found at i:13354488 original size:14 final size:14
Alignment explanation
Indices: 13354449--13354498 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
13354439 TATTTTTAAA
*
13354449 GTAATAATTTTTTT
1 GTAATATTTTTTTT
*
13354463 GT-ATA-TTATTTT
1 GTAATATTTTTTTT
13354475 GATAAT-TTTTTTTT
1 G-TAATATTTTTTTT
13354489 GTAATATTTT
1 GTAATATTTT
13354499 AGTAAAAACC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
12 7 0.23
13 8 0.27
14 15 0.50
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (14 bp):
GTAATATTTTTTTT
Found at i:13373680 original size:36 final size:36
Alignment explanation
Indices: 13373633--13373705 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
13373623 TGTCATATGG
13373633 TTAGCATTCCCAACAAGACAGTTGAGAACGAAAAAT
1 TTAGCATTCCCAACAAGACAGTTGAGAACGAAAAAT
13373669 TTAGCATTCCCAACAAGACAGTTGAGAACGAAAAAT
1 TTAGCATTCCCAACAAGACAGTTGAGAACGAAAAAT
13373705 T
1 T
13373706 AGCTACTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (36 bp):
TTAGCATTCCCAACAAGACAGTTGAGAACGAAAAAT
Found at i:13376940 original size:104 final size:101
Alignment explanation
Indices: 13376738--13376940 Score: 253
Period size: 104 Copynumber: 2.0 Consensus size: 101
13376728 GTCTTGGAAG
* * * * **
13376738 AAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAATCGTTTCTACCAGGATGCTTTATGA
1 AAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAACGCTTCAACCAAGATGCGATATGA
* *
13376803 GAAGAATTTGTAAAATCGCGCCCACGTGGACGCGAA
66 GAAGAATTTCTAAAATCGCACCCACGTGGACGCGAA
* * * *
13376839 AAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTCAAGCAAGATGCGATC
1 AAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTAT---AAAACGCTTCAACCAAGATGCGATA
* *
13376904 TGAGAAGAATTTCTGAAATCGCACCCTCGTGGACGCG
63 TGAGAAGAATTTCTAAAATCGCACCCACGTGGACGCG
13376941 CTTTTGCTAC
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
101 35 0.41
104 50 0.59
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (101 bp):
AAATAATTTCGAGTTGACGTTTCTAAGCAAATAGTATAAAACGCTTCAACCAAGATGCGATATGA
GAAGAATTTCTAAAATCGCACCCACGTGGACGCGAA
Found at i:13377068 original size:125 final size:126
Alignment explanation
Indices: 13376839--13377078 Score: 365
Period size: 125 Copynumber: 1.9 Consensus size: 126
13376829 TGGACGCGAA
* * *
13376839 AAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAAACGCTTCAAGCAAGATGCGATC
1 AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTCAACCAAGATGCGATA
*
13376904 TGAGAAGAATTTCTGAAATCGCACCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGAAAG
65 TGAGAAGAATTTCTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGAAAG
* * * **
13376966 AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTACCAGGATGCTTTAT
1 AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAACCAAGATGCGATAT
* *
13377030 GAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
66 GAGAAGAATTTCTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGT
13377079 AGCATGTTTG
Statistics
Matches: 102, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
125 66 0.65
127 36 0.35
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (126 bp):
AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAACCAAGATGCGATAT
GAGAAGAATTTCTGAAATCGCACCCACGTGGACGCGCTTTTGCTACAGTTGGTCCTGAAAG
Found at i:13380323 original size:22 final size:22
Alignment explanation
Indices: 13380289--13380588 Score: 360
Period size: 22 Copynumber: 13.9 Consensus size: 22
13380279 TTTATGTTAA
* *
13380289 GGTTTTTAGGTTAAGGGTTTAT
1 GGTTTTTAAGTTAAGGGTTTAG
**
13380311 GGAATTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGGTTTAG
13380333 GGTTTTTAAGTTAAGGG-TTAG
1 GGTTTTTAAGTTAAGGGTTTAG
* *
13380354 GGTTTTTAGGTTAAGGGTTTAT
1 GGTTTTTAAGTTAAGGGTTTAG
**
13380376 GGAATTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGGTTTAG
13380398 GGTTTTTAAGTTAAGGG-TTAG
1 GGTTTTTAAGTTAAGGGTTTAG
* *
13380419 GGTTTTTAGGTTAAGGG-TTAA
1 GGTTTTTAAGTTAAGGGTTTAG
*
13380440 GGTTTTTAGGTTAAGGGTTTA-
1 GGTTTTTAAGTTAAGGGTTTAG
* *
13380461 CGTAATTTAAGTTAAGGGTTTAG
1 GGT-TTTTAAGTTAAGGGTTTAG
* * *
13380484 TGTTTTTAAGTTTAGTGTTTAG
1 GGTTTTTAAGTTAAGGGTTTAG
*
13380506 GGTTTTTAGGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGGTTTAG
*
13380528 GGTTTTTAGGTTAAGGG-TTAG
1 GGTTTTTAAGTTAAGGGTTTAG
* *
13380549 GGTTTTTAGGTTAA-GGTTTAA
1 GGTTTTTAAGTTAAGGGTTTAG
*
13380570 GATTTTTAAGTTAAGGGTT
1 GGTTTTTAAGTTAAGGGTT
13380589 AGGATTAGGG
Statistics
Matches: 242, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
20 2 0.01
21 95 0.39
22 143 0.59
23 2 0.01
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.45
Consensus pattern (22 bp):
GGTTTTTAAGTTAAGGGTTTAG
Found at i:13380367 original size:65 final size:65
Alignment explanation
Indices: 13380284--13380588 Score: 402
Period size: 65 Copynumber: 4.7 Consensus size: 65
13380274 AAGCCTTTAT
* *
13380284 GTTAAGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGATTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
*
13380349 GTTAGGGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGATTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
* * * * *
13380414 GTTAGGGTTTTTAGGTTAAGGG-TTAAGGTTTTTAGGTTAAGGGTTTA-CGTAATTTAAGTTAAG
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGATTTTAAGTTAAGGGTTTAGGGT-TTTTAAGTTAAG
13380477 G
65 G
* * * * * * * *
13380478 GTTTAGTGTTTTTAAGTTTAGTGTTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAG
1 G-TTAGGGTTTTTAGGTTAAGGGTTTATGGATTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG
13380543 G
65 G
*
13380544 GTTAGGGTTTTTAGGTTAA-GGTTTA-AGATTTTTAAGTTAAGGGTT
1 GTTAGGGTTTTTAGGTTAAGGGTTTATGGA-TTTTAAGTTAAGGGTT
13380589 AGGATTAGGG
Statistics
Matches: 213, Mismatches: 22, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
63 3 0.01
64 54 0.25
65 118 0.55
66 36 0.17
67 2 0.01
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (65 bp):
GTTAGGGTTTTTAGGTTAAGGGTTTATGGATTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGG
Found at i:13380384 original size:43 final size:44
Alignment explanation
Indices: 13380289--13380588 Score: 360
Period size: 43 Copynumber: 6.9 Consensus size: 44
13380279 TTTATGTTAA
* * **
13380289 GGTTTTTAGGTTAAGGGTTTATGGAATTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAG
* *
13380333 GGTTTTTAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGTTTAT
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAG
**
13380376 GGAATTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAG
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAG
* * *
13380419 GGTTTTTAGGTTAAGGG-TTAAGGTTTTTAGGTTAAGGGTTTA-
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAG
* * * * *
13380461 CGTAATTTAAGTTAAGGGTTTAGTGTTTTTAAGTTTAGTGTTTAG
1 GGT-TTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAG
* *
13380506 GGTTTTTAGGTTAAGGGTTTAGGGTTTTTAGGTTAAGGG-TTAG
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAG
* * *
13380549 GGTTTTTAGGTTAA-GGTTTAAGATTTTTAAGTTAAGGGTT
1 GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTT
13380589 AGGATTAGGG
Statistics
Matches: 217, Mismatches: 33, Indels: 13
0.83 0.13 0.05
Matches are distributed among these distances:
42 42 0.19
43 87 0.40
44 86 0.40
45 2 0.01
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.45
Consensus pattern (44 bp):
GGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAG
Found at i:13383119 original size:11 final size:12
Alignment explanation
Indices: 13383103--13383146 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
13383093 ATTAAATATT
13383103 AATTTGAGA-GA
1 AATTTGAGAGGA
13383114 AATTTG-GAAGGA
1 AATTTGAG-AGGA
13383126 AA-TTGAGAGGA
1 AATTTGAGAGGA
13383137 AATTTGAGAG
1 AATTTGAGAG
13383147 AGGATTTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 16 0.55
12 12 0.41
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (12 bp):
AATTTGAGAGGA
Found at i:13389130 original size:25 final size:24
Alignment explanation
Indices: 13389087--13389172 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 24
13389077 TAAACATGTA
* *
13389087 AACGGGAAGCTCTTTTGAGTCTTAT
1 AACGGGAAGCT-TTGTGAGTCATAT
*
13389112 AACGGGAAGCTTATGTGAGTCATGT
1 AACGGGAAGCTT-TGTGAGTCATAT
* *
13389137 AATGGGAAGCTTTGGAGAGTCAT-T
1 AACGGGAAGCTTT-GTGAGTCATAT
13389161 AATCGGGAAGCT
1 AA-CGGGAAGCT
13389173 CATGAGGAGC
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
24 5 0.10
25 47 0.90
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.29
Consensus pattern (24 bp):
AACGGGAAGCTTTGTGAGTCATAT
Found at i:13391838 original size:21 final size:21
Alignment explanation
Indices: 13391812--13391851 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13391802 TTTGACTCAA
*
13391812 TATTCTCATATATCATGTGTT
1 TATTCTCATATAACATGTGTT
*
13391833 TATTCTCTTATAACATGTG
1 TATTCTCATATAACATGTG
13391852 ACCATTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (21 bp):
TATTCTCATATAACATGTGTT
Found at i:13394189 original size:27 final size:28
Alignment explanation
Indices: 13394159--13394256 Score: 78
Period size: 27 Copynumber: 3.6 Consensus size: 28
13394149 ACCGGGACAA
13394159 TAAACACGGGGTAGTCCAC-T-GAGATAG
1 TAAACACGGGGTAGTCC-CGTCGAGATAG
* *
13394186 TAAACACAGAGTAG-CCCGTCGAGATAG
1 TAAACACGGGGTAGTCCCGTCGAGATAG
* * * * *
13394213 TAAACATGAGGTAGT-CTGTCGAAACAG
1 TAAACACGGGGTAGTCCCGTCGAGATAG
* *
13394240 TAAACACAGAGTAGTCC
1 TAAACACGGGGTAGTCC
13394257 GTTGGGACAA
Statistics
Matches: 54, Mismatches: 13, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
25 1 0.02
26 3 0.06
27 49 0.91
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.18
Consensus pattern (28 bp):
TAAACACGGGGTAGTCCCGTCGAGATAG
Found at i:13410914 original size:30 final size:31
Alignment explanation
Indices: 13410863--13410930 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
13410853 GTTATAAAAT
* * *
13410863 AATTATTAAATTATTTGAAAGTTTTTATTTA
1 AATTATTAAAATATTTAAAAGTTGTTATTTA
13410894 AATTATTAAAATA-TTAAAAGTTGTTATTTA
1 AATTATTAAAATATTTAAAAGTTGTTATTTA
*
13410924 ATTTATT
1 AATTATT
13410931 GGGATATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (31 bp):
AATTATTAAAATATTTAAAAGTTGTTATTTA
Found at i:13418827 original size:46 final size:46
Alignment explanation
Indices: 13418760--13418915 Score: 287
Period size: 46 Copynumber: 3.4 Consensus size: 46
13418750 CCTGATCAGA
13418760 ACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAGCACTTATC
1 ACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAGCACTTATC
13418806 ACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAGCACTTATC
1 ACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAGCACTTATC
*
13418852 ACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATC
1 ACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAGCACTTATC
*
13418898 ACTTTGTTAC-TGATCAGA
1 ACTTTGTCACTTGATCAGA
13418916 AATACTTAAA
Statistics
Matches: 108, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
45 8 0.07
46 100 0.93
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (46 bp):
ACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAGCACTTATC
Found at i:13419659 original size:12 final size:12
Alignment explanation
Indices: 13419642--13419667 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
13419632 GCTACAGAGC
13419642 TCAAAATTAAGA
1 TCAAAATTAAGA
13419654 TCAAAATTAAGA
1 TCAAAATTAAGA
13419666 TC
1 TC
13419668 CGTTAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.27
Consensus pattern (12 bp):
TCAAAATTAAGA
Found at i:13425190 original size:9 final size:9
Alignment explanation
Indices: 13425173--13425209 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
13425163 TAAATTTTTG
13425173 AATTCGAAT
1 AATTCGAAT
*
13425182 AACTCGAAT
1 AATTCGAAT
13425191 AATTCGAAT
1 AATTCGAAT
13425200 AATTCGAAT
1 AATTCGAAT
13425209 A
1 A
13425210 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:13425682 original size:21 final size:20
Alignment explanation
Indices: 13425636--13425683 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
13425626 CCTTTACTCC
*
13425636 CAAATAAAAAATCAAAATAT
1 CAAATAAAAAATCAAAACAT
13425656 CCAAATAAAAAATCACTAAACAT
1 -CAAATAAAAAATCA--AAACAT
13425679 -AAATA
1 CAAATA
13425684 GTAATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 19 0.79
23 5 0.21
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.19
Consensus pattern (20 bp):
CAAATAAAAAATCAAAACAT
Found at i:13432120 original size:21 final size:21
Alignment explanation
Indices: 13432069--13432121 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
13432059 GAGTTTAAAG
* **
13432069 GTTTAGTGTTTAGGGTCTTGA
1 GTTTAGGGTTTAGGGTCTCAA
* * *
13432090 GTCTAAGGTTTATGGTCTCAA
1 GTTTAGGGTTTAGGGTCTCAA
13432111 GTTTAGGGTTT
1 GTTTAGGGTTT
13432122 TAGATTTATT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.17, C:0.08, G:0.30, T:0.45
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGTCTCAA
Found at i:13432831 original size:16 final size:16
Alignment explanation
Indices: 13432810--13432841 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13432800 TATATTTATT
*
13432810 TTTTAAAATTTTTTAA
1 TTTTAAAATATTTTAA
13432826 TTTTAAAATATTTTAA
1 TTTTAAAATATTTTAA
13432842 AATATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAAAATATTTTAA
Found at i:13432887 original size:27 final size:29
Alignment explanation
Indices: 13432857--13432931 Score: 127
Period size: 27 Copynumber: 2.6 Consensus size: 29
13432847 TTTTTTTTTA
13432857 TTTTTTAATTTTAAAATATTTT-AAA-AT
1 TTTTTTAATTTTAAAATATTTTAAAATAT
13432884 TTTTTTAATTTTAAAATATTTTAAAATAT
1 TTTTTTAATTTTAAAATATTTTAAAATAT
13432913 TTTTTTAATTTTTAAAATA
1 TTTTTTAA-TTTTAAAATA
13432932 AATTTTTGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
27 22 0.49
28 3 0.07
29 10 0.22
30 10 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTTTTAATTTTAAAATATTTTAAAATAT
Found at i:13432891 original size:11 final size:10
Alignment explanation
Indices: 13432864--13432915 Score: 65
Period size: 10 Copynumber: 5.5 Consensus size: 10
13432854 TTATTTTTTA
13432864 ATTTTAAAAT
1 ATTTTAAAAT
13432874 ATTTTAAAAT
1 ATTTTAAAAT
**
13432884 -TTTT-TTA-
1 ATTTTAAAAT
13432891 ATTTTAAAAT
1 ATTTTAAAAT
13432901 ATTTTAAAAT
1 ATTTTAAAAT
13432911 ATTTT
1 ATTTT
13432916 TTTAATTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 5 0.14
9 5 0.14
10 25 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:13432937 original size:20 final size:22
Alignment explanation
Indices: 13432902--13432956 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
13432892 TTTTAAAATA
* *
13432902 TTTTAAAAT-ATTTTTTTA-AT
1 TTTTAAAATAAATTTTTGATAT
13432922 TTTTAAAATAAATTTTTGATAT
1 TTTTAAAATAAATTTTTGATAT
13432944 TTATTAAAA-AAAT
1 TT-TTAAAATAAAT
13432957 AGGCCGGGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 9 0.30
21 7 0.23
22 8 0.27
23 6 0.20
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTAAAATAAATTTTTGATAT
Found at i:13453136 original size:11 final size:11
Alignment explanation
Indices: 13453105--13453144 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13453095 TGTTATTATT
*
13453105 ATATCATTTTA
1 ATATAATTTTA
13453116 ATATGAAATTTTA
1 ATAT--AATTTTA
13453129 ATATAATTTTA
1 ATATAATTTTA
13453140 ATATA
1 ATATA
13453145 TTATTATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
ATATAATTTTA
Found at i:13455246 original size:17 final size:17
Alignment explanation
Indices: 13455214--13455248 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
13455204 ACACTTTTAA
* *
13455214 AAAAAATTATATTAATT
1 AAAAAATTAAAATAATT
13455231 AAAAAATTAAAATAATT
1 AAAAAATTAAAATAATT
13455248 A
1 A
13455249 TCAAATACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAAATTAAAATAATT
Found at i:13455436 original size:13 final size:13
Alignment explanation
Indices: 13455420--13455467 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
13455410 ATTTATTTGA
*
13455420 TTTAATTATTGTT
1 TTTAATTATTATT
* *
13455433 TTTAAATATTATA
1 TTTAATTATTATT
13455446 TTTAATATATTATT
1 TTTAAT-TATTATT
13455460 TTT-ATTAT
1 TTTAATTAT
13455468 ATTCAATAGA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 3 0.10
13 17 0.59
14 9 0.31
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (13 bp):
TTTAATTATTATT
Found at i:13455457 original size:14 final size:14
Alignment explanation
Indices: 13455419--13455470 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 14
13455409 TATTTATTTG
*
13455419 ATTTAAT-TATTGT
1 ATTTAATATATTAT
*
13455432 TTTTAA-ATATTAT
1 ATTTAATATATTAT
13455445 ATTTAATATATTAT
1 ATTTAATATATTAT
* *
13455459 TTTTATTATATT
1 ATTTAATATATT
13455471 CAATAGAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
13 15 0.47
14 17 0.53
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (14 bp):
ATTTAATATATTAT
Found at i:13461986 original size:143 final size:143
Alignment explanation
Indices: 13461726--13461996 Score: 425
Period size: 143 Copynumber: 1.9 Consensus size: 143
13461716 TTTATCTTGA
* * *
13461726 TGGTTGTCTACCATTATAATAGTTAAGTCATCCTTAGCTCCCTTTCGATGTTTGATGGTGGAGAC
1 TGGTTGTCTACCATTATAATAGCTAAGTCATCCTTAGCTCCATTTCGATGTTTAATGGTGGAGAC
* ** *
13461791 TTGATTCAAGCGTTTGATTGTCTTATGTTGTCCCACTCGAGCTTTAGGTTTATTGGTTATTAGGG
66 TTGATTCAAGCGTTTGATTATCTTATGTTACCCCACTCGAGCTTTAGGTTTATTGGCTATTAGGG
13461856 CCTTGTTTTGTAT
131 CCTTGTTTTGTAT
* * * *
13461869 TGGTTGTCTACCATTGTAATGGCTGAGTCATCCTTAGCTCCATTTTGATGTTTAATGGTGGAGAC
1 TGGTTGTCTACCATTATAATAGCTAAGTCATCCTTAGCTCCATTTCGATGTTTAATGGTGGAGAC
* *
13461934 TTGATTCAAGTGTTTGATTATCTTATGTTACCCCACTCGAGCTTTAGTTTTATTGGCTATTAG
66 TTGATTCAAGCGTTTGATTATCTTATGTTACCCCACTCGAGCTTTAGGTTTATTGGCTATTAG
13461997 AAGCATTGGC
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
143 115 1.00
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (143 bp):
TGGTTGTCTACCATTATAATAGCTAAGTCATCCTTAGCTCCATTTCGATGTTTAATGGTGGAGAC
TTGATTCAAGCGTTTGATTATCTTATGTTACCCCACTCGAGCTTTAGGTTTATTGGCTATTAGGG
CCTTGTTTTGTAT
Found at i:13466704 original size:3 final size:3
Alignment explanation
Indices: 13466686--13466756 Score: 67
Period size: 3 Copynumber: 24.7 Consensus size: 3
13466676 CATTAAATTA
* * * *
13466686 ATT ATT -TT AAT ATT ATT ATT ACT ATT A-T ATT A-C ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
13466731 GTT ATT ATT ATT ATT ATT ATT GTT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
13466757 GATTTATGTC
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 5 0.09
3 48 0.91
ACGTcount: A:0.31, C:0.03, G:0.04, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:13466833 original size:38 final size:38
Alignment explanation
Indices: 13466789--13466910 Score: 112
Period size: 38 Copynumber: 3.3 Consensus size: 38
13466779 AATTTTGTCG
**
13466789 TATATATGTACATACATACAT-TTTGTT-ATATATCTATA
1 TATATATACACATACATACATATTT-TTAATATAT-TATA
* *
13466827 TATATATACACATACGTACATATTTTTAATTTATTATA
1 TATATATACACATACATACATATTTTTAATATATTATA
* *
13466865 TATATAT--ACATACTTATATATTATTT-ATATACTT-TA
1 TATATATACACATACATACATATT-TTTAATATA-TTATA
13466901 TATATATACA
1 TATATATACA
13466911 TATATGTGTG
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
36 26 0.37
37 5 0.07
38 32 0.45
39 8 0.11
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.48
Consensus pattern (38 bp):
TATATATACACATACATACATATTTTTAATATATTATA
Found at i:13466911 original size:36 final size:36
Alignment explanation
Indices: 13466789--13466912 Score: 121
Period size: 36 Copynumber: 3.4 Consensus size: 36
13466779 AATTTTGTCG
* *
13466789 TATATATGTACATACATACAT-TTTGTT-ATATATCTA
1 TATATATATACATACGTACATATTT-TTAATATAT-TA
*
13466825 TATATATATACACATACGTACATATTTTTAATTTATTA
1 TATATATAT--ACATACGTACATATTTTTAATATATTA
* *
13466863 TATATATATACATACTTATATATTATTT-ATATACTT-
1 TATATATATACATACGTACATATT-TTTAATATA-TTA
13466899 TATATATATACATA
1 TATATATATACATA
13466913 TATGTGTGCA
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
36 39 0.51
37 5 0.07
38 24 0.32
39 8 0.11
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (36 bp):
TATATATATACATACGTACATATTTTTAATATATTA
Found at i:13467093 original size:3 final size:3
Alignment explanation
Indices: 13467085--13467115 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
13467075 CATACGTACT
13467085 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13467116 AAATATACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13467690 original size:107 final size:106
Alignment explanation
Indices: 13467504--13467826 Score: 538
Period size: 107 Copynumber: 3.0 Consensus size: 106
13467494 ATAAAAAGAA
* * *
13467504 AAGATTTTATAAATAAGGCAATATTTCGCGTTTGGAAATTCGAGAAAATGTGCCCTAACGTGCTG
1 AAGATTTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTG-CCTAACGTGCTG
*
13467569 GGTTTCGGTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
65 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
13467611 AAGATTTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCTTAACGTGCTG
1 AAGATTTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCC-TAACGTGCTG
*
13467676 AGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
65 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
*
13467718 AAGATTTTCTAAATAAGGCAATAATTTGCGTTTGGAAATTCGAGAAAACGTGTCCTAACGTGCTG
1 AAGATTTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTG-CCTAACGTGCTG
* * *
13467783 GGTTTCGATTTCTTGTTCGACTAAATAGCCAAATATCCTCTT
65 GGTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
13467825 AA
1 AA
13467827 AACTTCAAAG
Statistics
Matches: 204, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
106 2 0.01
107 200 0.98
108 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (106 bp):
AAGATTTTCTAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCTAACGTGCTGG
GTTTCGATTTCTCGTTCGACCAAATAGCCAAATATCCTTTT
Found at i:13471926 original size:19 final size:19
Alignment explanation
Indices: 13471864--13471937 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
13471854 AAAAATATAA
*
13471864 ATTTTGGAATTTTTATAAAT
1 ATTTT-GAATTTTTAAAAAT
*
13471884 ATTTTGAATTTTAAAAAAT
1 ATTTTGAATTTTTAAAAAT
*
13471903 ATTTTGATTTTTTTAAAAATT
1 ATTTTGA-ATTTTTAAAAA-T
*
13471924 TTTTTGAAATTTTT
1 ATTTTG-AATTTTT
13471938 TTGTAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
19 19 0.42
20 14 0.31
21 11 0.24
22 1 0.02
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAAAT
Found at i:13471948 original size:12 final size:11
Alignment explanation
Indices: 13471909--13471948 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
13471899 AAATATTTTG
*
13471909 ATTTTTTTAAAA
1 ATTTTTTT-GAA
13471921 ATTTTTTTGAA
1 ATTTTTTTGAA
*
13471932 ATTTTTTTGTA
1 ATTTTTTTGAA
13471943 ATTTTT
1 ATTTTT
13471949 ATTGGGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.68
Consensus pattern (11 bp):
ATTTTTTTGAA
Found at i:13473903 original size:25 final size:25
Alignment explanation
Indices: 13473875--13473993 Score: 82
Period size: 25 Copynumber: 4.8 Consensus size: 25
13473865 CACTCTCTCA
*
13473875 AGCCATATAATGGGAAGCTCATGTG
1 AGCCATATAATGGGAAGCTCATATG
* * * * **
13473900 AGCCATGTAATAGGAGGCTTATCCG
1 AGCCATATAATGGGAAGCTCATATG
* * * *
13473925 GGCCTTATAACGGGAAGCTCATAAG
1 AGCCATATAATGGGAAGCTCATATG
*
13473950 AGCC--ATAATCAGGAAGCTCATATG
1 AGCCATATAAT-GGGAAGCTCATATG
*
13473974 AGCCA-ATAACTGGGTAGCTC
1 AGCCATATAA-TGGGAAGCTC
13473994 CGAAGAGCCA
Statistics
Matches: 70, Mismatches: 21, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
23 4 0.06
24 16 0.23
25 49 0.70
26 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (25 bp):
AGCCATATAATGGGAAGCTCATATG
Found at i:13473964 original size:24 final size:24
Alignment explanation
Indices: 13473937--13474018 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
13473927 CCTTATAACG
13473937 GGAAGCTCATAAGAGCCATAATCA
1 GGAAGCTCATAAGAGCCATAATCA
* *
13473961 GGAAGCTCATATGAGCCAATAA-CTG
1 GGAAGCTCATAAGAGCC-ATAATC-A
* **
13473986 GGTAGCTCCGAAGAGCCATGAATCA
1 GGAAGCTCATAAGAGCCAT-AATCA
13474011 GGAAGCTC
1 GGAAGCTC
13474019 CGATAGTCGT
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
24 19 0.41
25 26 0.57
26 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:13475629 original size:8 final size:8
Alignment explanation
Indices: 13475616--13475643 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
13475606 GGGATTTATT
13475616 TGTGAAAA
1 TGTGAAAA
13475624 TGTGAAAA
1 TGTGAAAA
13475632 TGTGAAAA
1 TGTGAAAA
13475640 TGTG
1 TGTG
13475644 TGATTAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.29, T:0.29
Consensus pattern (8 bp):
TGTGAAAA
Done.