Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 34 of 141
Found at i:11319505 original size:15 final size:15
Alignment explanation
Indices: 11319485--11319517 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11319475 TTTTTAATTG
11319485 ATTGTGTTCTTTTCA
1 ATTGTGTTCTTTTCA
*
11319500 ATTGTGTTCTTTTTA
1 ATTGTGTTCTTTTCA
11319515 ATT
1 ATT
11319518 TCCTCTCCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.09, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGTGTTCTTTTCA
Found at i:11324610 original size:5 final size:6
Alignment explanation
Indices: 11324559--11324615 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
11324549 ACCAACTTAG
* * * *
11324559 TTTATC TTTATT TTTCTT TTTATT TCTATT TGTAGTGT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT
11324609 TTTATT T
1 TTTATT T
11324616 GAATTCCAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
6 37 0.86
7 2 0.05
8 4 0.09
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:11324648 original size:3 final size:3
Alignment explanation
Indices: 11324640--11324694 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
11324630 TTTTTAATCC
11324640 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11324688 TAT TAT T
1 TAT TAT T
11324695 TCTTNNNNNN
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11329064 original size:34 final size:33
Alignment explanation
Indices: 11329015--11329086 Score: 108
Period size: 34 Copynumber: 2.2 Consensus size: 33
11329005 AGATCCGATC
* * *
11329015 TCAAAAAAAAAAGAAGCAAAAGCAAAATCAAGA
1 TCAAAAAAAAAAGAAGAAAAAGAAAAATCAAAA
11329048 TCAAAACAAAAAAGAAGAAAAAGAAAAATCAAAA
1 TCAAAA-AAAAAAGAAGAAAAAGAAAAATCAAAA
11329082 TCAAA
1 TCAAA
11329087 GTCAAAATGA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 6 0.17
34 29 0.83
ACGTcount: A:0.72, C:0.11, G:0.10, T:0.07
Consensus pattern (33 bp):
TCAAAAAAAAAAGAAGAAAAAGAAAAATCAAAA
Found at i:11329081 original size:40 final size:38
Alignment explanation
Indices: 11329016--11329093 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 38
11329006 GATCCGATCT
* *
11329016 CAAAAAAAAAAGAAGCAAAAGCAAAATC-AAGATCAAAA
1 CAAAAAAAAAAAAAGAAAAAGCAAAATCAAAG-TCAAAA
*
11329054 CAAAAAAGAAGAAAAAGAAAAATCAAAATCAAAGTCAAAA
1 CAAAAAA-AA-AAAAAGAAAAAGCAAAATCAAAGTCAAAA
11329094 TGAAAATGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
38 7 0.21
39 2 0.06
40 22 0.65
41 3 0.09
ACGTcount: A:0.72, C:0.12, G:0.10, T:0.06
Consensus pattern (38 bp):
CAAAAAAAAAAAAAGAAAAAGCAAAATCAAAGTCAAAA
Found at i:11329931 original size:14 final size:15
Alignment explanation
Indices: 11329914--11329949 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
11329904 CAAAAAAGAG
11329914 AAAATGGAAAAA-TA
1 AAAATGGAAAAAGTA
11329928 AAAAT-GAAAAAGTA
1 AAAATGGAAAAAGTA
11329942 AAAATGGA
1 AAAATGGA
11329950 GAGGTTGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 6 0.30
14 12 0.60
15 2 0.10
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (15 bp):
AAAATGGAAAAAGTA
Found at i:11331334 original size:44 final size:44
Alignment explanation
Indices: 11331269--11331682 Score: 183
Period size: 44 Copynumber: 9.0 Consensus size: 44
11331259 AGTGGGGTAG
* * *
11331269 ATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAA
1 ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAA
* * * * *
11331313 ATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAATGGAGCGA
1 ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAA
** *
11331357 ATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCA
1 ATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--GCA--A
* * * *
11331410 GATTGAAGCCAGAAATGTTATCTCCCTGAGATTACAGTGGAGTAG
1 -ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAA
* * * * *
11331455 ATTAAAGCCAAAAATCTTATCTCCTTGAGATTACAGCT-GAGCAG
1 ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAG-TGGAGCAA
* * * ***
11331499 ATTGAAGCTAGTAATCCTATCTCCCTGAGGTTACAGTGGAGTGG
1 ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAA
** * * *
11331543 ATT-AAAATA-AAGGATCTTATCTCTCTGAAGTTATAGTAGAGTAGATCGCATCA
1 ATTGAAGCTAGAA--ATCTTATCTCCCTG-AG--AT--TACAGTGGA--GCA--A
* * * * * *
11331596 GATTGAAGCCAGAAATCTTATCTCCTTGAGATTATAGCGGAGGAG
1 -ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAA
* * * *
11331641 ATTGAAGCCAGTAATCATATTTCCCTGAGATTACAGTGGAGC
1 ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGC
11331683 GGATTAGAAT
Statistics
Matches: 273, Mismatches: 65, Indels: 64
0.68 0.16 0.16
Matches are distributed among these distances:
42 2 0.01
43 10 0.04
44 177 0.65
45 3 0.01
47 6 0.02
49 17 0.06
51 6 0.02
53 3 0.01
54 38 0.14
55 7 0.03
56 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.28
Consensus pattern (44 bp):
ATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAA
Found at i:11331571 original size:186 final size:186
Alignment explanation
Indices: 11331257--11331682 Score: 663
Period size: 186 Copynumber: 2.3 Consensus size: 186
11331247 GATTTAAGCC
*
11331257 ACAGTGGGGTAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCT
1 ACAGTGGAGTAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCT
*
11331322 AGTAATCCTATCTCCCTGAGATTATAATGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAG
66 AGTAATCCTATCTCCCTGAGATTACAATGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAG
*
11331387 TTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATGTTATCTCCCTGAGATT
131 TTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
* * * *
11331443 ACAGTGGAGTAGATTAAAGCCAAAAATCTTATCTCCTTGAGATTACAGCTGAGCAGATTGAAGCT
1 ACAGTGGAGTAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCT
* * * *
11331508 AGTAATCCTATCTCCCTGAGGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAG
66 AGTAATCCTATCTCCCTGAGATTACAATGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAG
* *
11331573 TTATAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCTTGAGATT
131 TTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
* * * ** * * *
11331629 ATAGCGGAGGAGATTGAAGCCAGTAATCATATTTCCCTGAGATTACAGTGGAGC
1 ACAGTGGAGTAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCGGAGC
11331683 GGATTAGAAT
Statistics
Matches: 216, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
186 216 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (186 bp):
ACAGTGGAGTAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGCT
AGTAATCCTATCTCCCTGAGATTACAATGGAGCGAATTAAAATAAAGGATCTTATCTCTCTGAAG
TTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATT
Found at i:11331646 original size:142 final size:142
Alignment explanation
Indices: 11331453--11331738 Score: 464
Period size: 142 Copynumber: 2.0 Consensus size: 142
11331443 ACAGTGGAGT
* * *
11331453 AGATTAAAGCCAAAAATCTTATCTCCTTGAGATTACAGCTGAGCAGATTGAAGCTAGTAATCCTA
1 AGATTAAAGCCAAAAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCATA
* * *
11331518 TCTCCCTGAGGTTACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAGA
66 TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
11331583 GTAGATCGCATC
131 GTAGATCGCATC
* * * *
11331595 AGATTGAAGCCAGAAATCTTATCTCCTTGAGATTATAGCGGAGGAGATTGAAGCCAGTAATCATA
1 AGATTAAAGCCAAAAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCATA
* *
11331660 TTTCCCTGAGATTACAGTGGAGCGGATTAGAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
66 TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
11331725 GTAGATCGCATC
131 GTAGATCGCATC
11331737 AG
1 AG
11331739 GTCTTATCTC
Statistics
Matches: 132, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
142 132 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (142 bp):
AGATTAAAGCCAAAAATCTTATCTCCTTGAGATTACAGCGGAGCAGATTGAAGCCAGTAATCATA
TCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGA
GTAGATCGCATC
Found at i:11331918 original size:99 final size:100
Alignment explanation
Indices: 11331793--11332413 Score: 917
Period size: 100 Copynumber: 6.2 Consensus size: 100
11331783 AGATCTTATT
* *
11331793 TTCCCAGGCGGTGCAGTGGAATAGATTAATGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
1 TTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
*
11331858 GTTAAAAGGATTAAAGCTACAGCAGCGAATCTTAC
66 GTTAAAAAGATTAAAGCTACAGCAGCGAATCTTAC
* *
11331893 -CCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGGCATTGCA
1 TTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
11331957 GTTAAAAAGATTAAAGCTACAGCAGCGAATCTTAC
66 GTTAAAAAGATTAAAGCTACAGCAGCGAATCTTAC
* *
11331992 TTCCCTGGCGGTGCAGTGGAACAGA-TAAAGCCACAACGGTGAATCTTGCTTCCCTGACATTGCA
1 TTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
* * * *
11332056 GTTAAAAAGATTAAAGGTACAACATCAAATCTTAC
66 GTTAAAAAGATTAAAGCTACAGCAGCGAATCTTAC
* * * *
11332091 TTCCCAGGCGATGCAGTGGAACAGAATAAAGCCACAACGGTGAATCTTACCTCCTTGACATTGCA
1 TTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
11332156 GTTAAAAAGATTAAAGCTACAGCAGCGAATCTTAC
66 GTTAAAAAGATTAAAGCTACAGCAGCGAATCTTAC
* * * ** * * **
11332191 TTCCCTGGCAGTGCAGTGGAATAGATTAAAGCCACTTCAGTGAATCTTGCTTCCCCAACATTGCA
1 TTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
*
11332256 GTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
66 GTTAAAAAGATTAAAGCTACAGCAGCGAATCTTAC
* * * *
11332291 -TCTCCAGGCGATGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGC
1 TTC-CCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGC
11332355 AGTTAAAAAGATTAAAGCTACCA-CAGCGAATCTTAC
65 AGTTAAAAAGATTAAAGCTA-CAGCAGCGAATCTTAC
* *
11332391 TTCTCAAGCGGTGCAGTGGAACA
1 TTCCCAGGCGGTGCAGTGGAACA
11332414 ACAAATCTTG
Statistics
Matches: 470, Mismatches: 46, Indels: 10
0.89 0.09 0.02
Matches are distributed among these distances:
99 187 0.40
100 279 0.59
101 4 0.01
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (100 bp):
TTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCA
GTTAAAAAGATTAAAGCTACAGCAGCGAATCTTAC
Found at i:11332407 original size:50 final size:50
Alignment explanation
Indices: 11331815--11332393 Score: 432
Period size: 50 Copynumber: 11.6 Consensus size: 50
11331805 GCAGTGGAAT
* * * * * * * *
11331815 AGATTAATGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTTAAAA
* * * ** ** *
11331865 GGATTAAAGCTACAGCAGCGAATCTTAC-CCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTTAAAA
* * * * * *
11331914 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGGCATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTTAAAA
* * ** ** *
11331964 AGATTAAAGCTACAGCAGCGAATCTTACTTCCCTGGCGGTGCAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTTAAAA
* * * * * *
11332014 AGA-TAAAGCCACAACGGTGAATCTTGCTTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTTAAAA
* * * ** *
11332063 AGATTAAAGGTACAACATCAAATCTTACTTCCCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGC-ATTGCAGTTAAAA
* * * * * ** *
11332113 AGAATAAAGCCACAACGGTGAATCTTACCTCCTTGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTTAAAA
* * * ** *
11332163 AGATTAAAGCTACAGCAGCGAATCTTACTTCCCTGGCAGTGCAGTGGAAT
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTTAAAA
* ** * * *
11332213 AGATTAAAGCCACTTCAGTGAATCTTGCTTCCCCA-ACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTT-CCCAGGCATTGCAGTTAAAA
** *
11332263 AGATTAAAGCTACAACAGCGAATCTTAC-TCTCCAGGCGA-TGCAGTGGAAC
1 AGATTAAAGCTACAACAGCGAATCTTACTTC-CCAGGC-ATTGCAGTTAAAA
* * * * * * *
11332313 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTTAAAA
*
11332363 AGATTAAAGCTACCACAGCGAATCTTACTTC
1 AGATTAAAGCTACAACAGCGAATCTTACTTC
11332394 TCAAGCGGTG
Statistics
Matches: 395, Mismatches: 124, Indels: 20
0.73 0.23 0.04
Matches are distributed among these distances:
48 1 0.00
49 79 0.20
50 308 0.78
51 7 0.02
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (50 bp):
AGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCATTGCAGTTAAAA
Found at i:11333825 original size:5 final size:6
Alignment explanation
Indices: 11333774--11333830 Score: 51
Period size: 6 Copynumber: 9.2 Consensus size: 6
11333764 ACCAACTTAG
* * * * *
11333774 TTTATC TTTAAT TTTCTT TTTATT TCTATT TGTAGTGT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT
11333824 TTTATT T
1 TTTATT T
11333831 GAATTCCAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
6 35 0.85
7 2 0.05
8 4 0.10
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.74
Consensus pattern (6 bp):
TTTATT
Found at i:11333864 original size:3 final size:3
Alignment explanation
Indices: 11333856--11333909 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
11333846 TTTTAATCCC
11333856 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11333904 ATT ATT
1 ATT ATT
11333910 TCTTTAAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11333936 original size:21 final size:21
Alignment explanation
Indices: 11333907--11333954 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 21
11333897 TATTATTATT
* *
11333907 ATTTCTTTAAATTTATCATAC
1 ATTTTTTTAAATCTATCATAC
* * *
11333928 ATTTTTTTATATCTATTATAT
1 ATTTTTTTAAATCTATCATAC
11333949 ATTTTT
1 ATTTTT
11333955 ATCTTCAAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTTTAAATCTATCATAC
Found at i:11334187 original size:59 final size:58
Alignment explanation
Indices: 11334113--11334228 Score: 223
Period size: 59 Copynumber: 2.0 Consensus size: 58
11334103 ATATAAATTT
11334113 ATATACTTTTCAAGGTTGTTATTATTTTATTTCAAGTTTATTTTGAGTTCATGCGTGG
1 ATATACTTTTCAAGGTTGTTATTATTTTATTTCAAGTTTATTTTGAGTTCATGCGTGG
11334171 ATATACTTTTTCAAGGTTGTTATTATTTTATTTCAAGTTTATTTTGAGTTCATGCGTG
1 ATATAC-TTTTCAAGGTTGTTATTATTTTATTTCAAGTTTATTTTGAGTTCATGCGTG
11334229 CAATTTATTT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 6 0.11
59 51 0.89
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (58 bp):
ATATACTTTTCAAGGTTGTTATTATTTTATTTCAAGTTTATTTTGAGTTCATGCGTGG
Found at i:11341173 original size:20 final size:18
Alignment explanation
Indices: 11341148--11341195 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
11341138 TTTTTTTTGC
11341148 AAAATCAAAGGTTTCTTTAA
1 AAAATCAAAGGTTTC-TT-A
**
11341168 AAAATCACAATTTTTCTTA
1 AAAATCA-AAGGTTTCTTA
11341187 AAAATCAAA
1 AAAATCAAA
11341196 ACTTTATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 2 0.08
19 8 0.32
20 9 0.36
21 6 0.24
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.33
Consensus pattern (18 bp):
AAAATCAAAGGTTTCTTA
Found at i:11341392 original size:21 final size:20
Alignment explanation
Indices: 11341368--11341412 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
11341358 AATAGTTGAA
**
11341368 AAAAATTCAAAACTTTGTTTT
1 AAAAATT-AAAACTTTCCTTT
*
11341389 AAAAATTTAAACTTTCCTTT
1 AAAAATTAAAACTTTCCTTT
11341409 AAAA
1 AAAA
11341413 TGACTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (20 bp):
AAAAATTAAAACTTTCCTTT
Found at i:11341401 original size:150 final size:147
Alignment explanation
Indices: 11341177--11341460 Score: 437
Period size: 148 Copynumber: 1.9 Consensus size: 147
11341167 AAAAATCACA
*
11341177 ATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAACTTTGTTTTAAAA
1 ATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAAATCAAAACTTTGTTTTAAAA
*
11341242 AAATTAAACTTTTTTCCATTAAAATGACT-AAAAAACATATTTTTATTTTAAAAATTTAAAATTT
66 AAATTAAAC---TTTCCATTAAAATGACTAAAAAAACATATTTTTATTTTAAAAATCTAAAATTT
11341306 CTCTTTTAAAAATAAATATT
128 CTCTTTTAAAAATAAATATT
* *
11341326 ATTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTTGAAAAAAATTCAAAACTTTGTTTT-A
1 ATTTTTCTTAAAAATCAAAAC-TTTATTTCGAAATAGTTGAAAAAAA-TCAAAACTTTGTTTTAA
* * * *
11341390 AAAATTTAAACTTTCCTTTAAAATGACTAAAAAAACATATTTTTATTTTAAAAATCTAAACTTTT
64 AAAAATTAAACTTTCCATTAAAATGACTAAAAAAACATATTTTTATTTTAAAAATCTAAAATTTC
11341455 TCTTTT
129 TCTTTT
11341461 TTAAAAAAAA
Statistics
Matches: 124, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
147 16 0.13
148 39 0.31
149 20 0.16
150 34 0.27
151 15 0.12
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (147 bp):
ATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAAATCAAAACTTTGTTTTAAAA
AAATTAAACTTTCCATTAAAATGACTAAAAAAACATATTTTTATTTTAAAAATCTAAAATTTCTC
TTTTAAAAATAAATATT
Found at i:11341482 original size:150 final size:147
Alignment explanation
Indices: 11341166--11341482 Score: 433
Period size: 150 Copynumber: 2.1 Consensus size: 147
11341156 AGGTTTCTTT
* *
11341166 AAAAAATCACAATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAAAACT
1 AAAAAATCAAAATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAAATCAAAACT
11341231 TTGTTTTAAAAAAATTAAACTTTTTTCCATTAAAATGACTAAAAAACATATTTTTATTTTAAAAA
66 TTGTTTTAAAAAAATTAAAC--TTTTCCATTAAAATGACTAAAAAACATATTTTTATTTTAAAAA
*
11341296 TTTAAAATTTCTCTTTTAA
129 TCTAAAATTTCTCTTTTAA
** * *
11341315 AAATAAAT-ATTATTTTTCTTAAAGATCAAAACTTTTATTTTGAAATAGTTGAAAAAAATTCAAA
1 AAA-AAATCAAAATTTTTCTTAAAAATCAAAAC-TTTATTTCGAAATAGTTGAAAAAAA-TCAAA
* *
11341379 ACTTTGTTTT-AAAAATTTAAAC-TTTCCTTTAAAATGACTAAAAAAACATATTTTTATTTTAAA
63 ACTTTGTTTTAAAAAAATTAAACTTTTCCATTAAAATGACT-AAAAAACATATTTTTATTTTAAA
* *
11341442 AATCTAAACTTTTTCTTTTTTAA
127 AATCTAAA--ATTTCTCTTTTAA
*
11341465 AAAAAATCAAAACTTTTC
1 AAAAAATCAAAATTTTTC
11341483 CCAAGATCAA
Statistics
Matches: 148, Mismatches: 13, Indels: 13
0.85 0.07 0.07
Matches are distributed among these distances:
147 16 0.11
148 30 0.20
149 28 0.19
150 59 0.40
151 15 0.10
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (147 bp):
AAAAAATCAAAATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAAATCAAAACT
TTGTTTTAAAAAAATTAAACTTTTCCATTAAAATGACTAAAAAACATATTTTTATTTTAAAAATC
TAAAATTTCTCTTTTAA
Found at i:11342332 original size:42 final size:42
Alignment explanation
Indices: 11342285--11342547 Score: 364
Period size: 42 Copynumber: 6.3 Consensus size: 42
11342275 CTTCATATAG
* * *
11342285 AATGCAATGAAAAGTAAATGGATCTCTACACCTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* ** * *
11342327 AATGCAAGGAAAAGTAAACAGACCTCCATACCTAGGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * **
11342369 GATGCAATGAAAAGTAAATGGACCTCCACATCTGGGTATCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* *
11342411 AATGCAATGAGAAGTAAATGGACCTCCACACCTGGGCCTTTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
* * *
11342453 AATGTAATGAAAAGTAAATGGACCTCCACACGTGAGCCTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
*
11342495 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCTTCTA
1 AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
11342537 AATGCAATGAA
1 AATGCAATGAA
11342548 TGCTTTCCTT
Statistics
Matches: 189, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 189 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (42 bp):
AATGCAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTA
Found at i:11342959 original size:11 final size:12
Alignment explanation
Indices: 11342932--11342969 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
11342922 TTCTTACTCA
*
11342932 TTCTTATTTCCT
1 TTCTTATTTGCT
*
11342944 TTCTTTTTTG-T
1 TTCTTATTTGCT
11342955 TTCTTATTTGCT
1 TTCTTATTTGCT
11342967 TTC
1 TTC
11342970 CCTATTTCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.05, C:0.18, G:0.05, T:0.71
Consensus pattern (12 bp):
TTCTTATTTGCT
Found at i:11356428 original size:21 final size:21
Alignment explanation
Indices: 11356404--11356504 Score: 65
Period size: 18 Copynumber: 5.2 Consensus size: 21
11356394 AAATTCAGTA
11356404 TAAATTCAATCAATTTACCAC
1 TAAATTCAATCAATTTACCAC
* * **
11356425 TAAA-CCAA--AATTCAGTA-
1 TAAATTCAATCAATTTACCAC
11356442 TAAATTCAATCAATTTACCAC
1 TAAATTCAATCAATTTACCAC
* * **
11356463 TAAA-CCAA--AATTCAGTA-
1 TAAATTCAATCAATTTACCAC
*
11356480 TAAATTCAATCAATTTGCCAC
1 TAAATTCAATCAATTTACCAC
11356501 TAAA
1 TAAA
11356505 CTTGCCCCCA
Statistics
Matches: 55, Mismatches: 17, Indels: 16
0.62 0.19 0.18
Matches are distributed among these distances:
17 8 0.15
18 18 0.33
20 17 0.31
21 12 0.22
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.30
Consensus pattern (21 bp):
TAAATTCAATCAATTTACCAC
Found at i:11356428 original size:38 final size:38
Alignment explanation
Indices: 11356386--11356505 Score: 231
Period size: 38 Copynumber: 3.2 Consensus size: 38
11356376 TTAAACGAAC
11356386 CTAAACCAAAATTCAGTATAAATTCAATCAATTTACCA
1 CTAAACCAAAATTCAGTATAAATTCAATCAATTTACCA
11356424 CTAAACCAAAATTCAGTATAAATTCAATCAATTTACCA
1 CTAAACCAAAATTCAGTATAAATTCAATCAATTTACCA
*
11356462 CTAAACCAAAATTCAGTATAAATTCAATCAATTTGCCA
1 CTAAACCAAAATTCAGTATAAATTCAATCAATTTACCA
11356500 CTAAAC
1 CTAAAC
11356506 TTGCCCCCAA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
38 81 1.00
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (38 bp):
CTAAACCAAAATTCAGTATAAATTCAATCAATTTACCA
Found at i:11374607 original size:20 final size:21
Alignment explanation
Indices: 11374569--11374607 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
11374559 CAACAAATCA
*
11374569 ATTTTACTTGCACACCTAACC
1 ATTTTACTTCCACACCTAACC
*
11374590 ATTTTA-TTCCACATCTAA
1 ATTTTACTTCCACACCTAA
11374608 ACTACTATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.38
Consensus pattern (21 bp):
ATTTTACTTCCACACCTAACC
Found at i:11374814 original size:11 final size:11
Alignment explanation
Indices: 11374798--11374827 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11374788 CAACTCATAT
11374798 ATATCATTCCC
1 ATATCATTCCC
*
11374809 ATATCATTTCC
1 ATATCATTCCC
11374820 ATATCATT
1 ATATCATT
11374828 ATTTTAGCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (11 bp):
ATATCATTCCC
Found at i:11379556 original size:43 final size:43
Alignment explanation
Indices: 11379459--11379769 Score: 283
Period size: 43 Copynumber: 7.3 Consensus size: 43
11379449 TTATTTTTAT
* * ***** *
11379459 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCG-TTACAAAAA
1 AAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTTTTTCCAC
* * * *
11379501 AAATGCCGCTAAAAGTCAGGGTCTTTAGCGACG-TTTTTCCTAC
1 AAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTTTTTCC-AC
*
11379544 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCAC
1 AAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTTTTTCCAC
* * *
11379587 AAACGCCGCT-AAAGATCATGTTCCTTAGCGGGGTTTTTTCCAC
1 AAACGCCGCTAAAAG-TCATGTTCTTTAGCGGCGCTTTTTCCAC
* *
11379630 AAACGCCGCT-AAAGATCATGTTCTTTAGCAGCGCTTTTTTCAC
1 AAACGCCGCTAAAAG-TCATGTTCTTTAGCGGCGCTTTTTCCAC
* * * * *
11379673 AAATGCCACT-AAAGATCATGTTCTTTAACGGCGCTTCTTCCGC
1 AAACGCCGCTAAAAG-TCATGTTCTTTAGCGGCGCTTTTTCCAC
* * * *
11379716 AAACGCCACTAAAGGTCATGTTCTTTTAGCAGCG-TTTTTACAC
1 AAACGCCGCTAAAAGTCATGTTC-TTTAGCGGCGCTTTTTCCAC
*
11379759 AAATGCCGCTA
1 AAACGCCGCTA
11379770 TTTGTTAGGT
Statistics
Matches: 222, Mismatches: 42, Indels: 9
0.81 0.15 0.03
Matches are distributed among these distances:
42 32 0.14
43 172 0.77
44 18 0.08
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (43 bp):
AAACGCCGCTAAAAGTCATGTTCTTTAGCGGCGCTTTTTCCAC
Found at i:11379635 original size:86 final size:84
Alignment explanation
Indices: 11379459--11379769 Score: 354
Period size: 86 Copynumber: 3.6 Consensus size: 84
11379449 TTATTTTTAT
* *** * * * *
11379459 AAACGCCACTAAAGGTCATGTTCTTTAGCGGCGTTACAAAAAAAATGCCGCTAAA-AGTCAGGGT
1 AAACGCCACTAAAGGTCATGTTCTTTAGCAGCGTTTTTACACAAATGCCGCTAAAGA-TCATGTT
*
11379523 CTTTAGCGACGTTTTTCCTAC
65 CTTTAGCGGCGTTTTTCC-AC
* * * *
11379544 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGATCATGTT
1 AAACGCCACTAAAGGTCATGTTCTTTAGCAGCG-TTTTTACACAAATGCCGCTAAAGATCATGTT
* *
11379609 CCTTAGCGGGGTTTTTTCCAC
65 CTTTAGCGGCG-TTTTTCCAC
* * * *
11379630 AAACGCCGCTAAAGATCATGTTCTTTAGCAGCGCTTTTTTCACAAATGCCACTAAAGATCATGTT
1 AAACGCCACTAAAGGTCATGTTCTTTAGCAGCG-TTTTTACACAAATGCCGCTAAAGATCATGTT
* * *
11379695 CTTTAACGGCGCTTCTTCCGC
65 CTTTAGCGGCG-TTTTTCCAC
11379716 AAACGCCACTAAAGGTCATGTTCTTTTAGCAGCGTTTTTACACAAATGCCGCTA
1 AAACGCCACTAAAGGTCATGTTC-TTTAGCAGCGTTTTTACACAAATGCCGCTA
11379770 TTTGTTAGGT
Statistics
Matches: 194, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
85 32 0.16
86 144 0.74
87 18 0.09
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (84 bp):
AAACGCCACTAAAGGTCATGTTCTTTAGCAGCGTTTTTACACAAATGCCGCTAAAGATCATGTTC
TTTAGCGGCGTTTTTCCAC
Found at i:11385695 original size:9 final size:9
Alignment explanation
Indices: 11385681--11385814 Score: 106
Period size: 9 Copynumber: 15.4 Consensus size: 9
11385671 CATCATATAT
11385681 TTATGTAAG
1 TTATGTAAG
11385690 TTATGTAAG
1 TTATGTAAG
11385699 TTATGT-A-
1 TTATGTAAG
* *
11385706 TTAAGTAAA
1 TTATGTAAG
11385715 TTATGTAAG
1 TTATGTAAG
11385724 TTATGT-A-
1 TTATGTAAG
11385731 TTATGTAAG
1 TTATGTAAG
11385740 TTATGTAAG
1 TTATGTAAG
*
11385749 TTTTTGT--G
1 -TTATGTAAG
11385757 TTTATGT-A-
1 -TTATGTAAG
*
11385765 TTATGTAAC
1 TTATGTAAG
* *
11385774 TTATTTAAT
1 TTATGTAAG
*
11385783 TTATGTAGG
1 TTATGTAAG
11385792 TTATGTATTA-
1 TTATGTA--AG
11385802 TTATGTAAG
1 TTATGTAAG
11385811 TTAT
1 TTAT
11385815 TATGTAGGAT
Statistics
Matches: 103, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
7 17 0.17
8 13 0.13
9 61 0.59
10 12 0.12
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.51
Consensus pattern (9 bp):
TTATGTAAG
Found at i:11385719 original size:25 final size:25
Alignment explanation
Indices: 11385685--11385750 Score: 114
Period size: 25 Copynumber: 2.6 Consensus size: 25
11385675 ATATATTTAT
11385685 GTAAGTTATGTAAGTTATGTATTAA
1 GTAAGTTATGTAAGTTATGTATTAA
* *
11385710 GTAAATTATGTAAGTTATGTATTAT
1 GTAAGTTATGTAAGTTATGTATTAA
11385735 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
11385751 TTTGTGTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (25 bp):
GTAAGTTATGTAAGTTATGTATTAA
Found at i:11385762 original size:34 final size:34
Alignment explanation
Indices: 11385724--11385898 Score: 111
Period size: 34 Copynumber: 5.3 Consensus size: 34
11385714 ATTATGTAAG
*
11385724 TTATGTATTATGTAAGTTATGTAAGTTTTTGTGT
1 TTATGTATTATGTAACTTATGTAAGTTTTTGTGT
* * *
11385758 TTATGTATTATGTAACTTATTTAA-TTTATGTAGG
1 TTATGTATTATGTAACTTATGTAAGTTTTTGT-GT
* *
11385792 TTATG---TAT-T-A-TTATGTAAGTTATTATG-
1 TTATGTATTATGTAACTTATGTAAGTTTTTGTGT
* * * *
11385819 -TAGGATACTATGTAAGTTATGTAAGTTTTTGTTTT
1 TTATG-TATTATGTAACTTATGTAAGTTTTTG-TGT
* * *
11385854 TTGTGTATTATGTAACTTATTTAA-TTTATG-GAT
1 TTATGTATTATGTAACTTATGTAAGTTTTTGTG-T
11385887 GTTATGTATTAT
1 -TTATGTATTAT
11385899 TATGTATTAT
Statistics
Matches: 107, Mismatches: 20, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
26 3 0.03
28 8 0.07
29 5 0.05
30 4 0.04
31 4 0.04
32 1 0.01
33 20 0.19
34 44 0.41
35 16 0.15
36 2 0.02
ACGTcount: A:0.27, C:0.02, G:0.17, T:0.54
Consensus pattern (34 bp):
TTATGTATTATGTAACTTATGTAAGTTTTTGTGT
Found at i:11385808 original size:44 final size:44
Alignment explanation
Indices: 11385758--11385908 Score: 126
Period size: 44 Copynumber: 3.2 Consensus size: 44
11385748 GTTTTTGTGT
11385758 TTATGTATTATGTAACTTATTTAATTTATGTAGGTTATGTATTA
1 TTATGTATTATGTAACTTATTTAATTTATGTAGGTTATGTATTA
* * * * *
11385802 TTATGTAAGTTATTATGTAGGA-TACTATGTAAGTTATGTAAGTTTTTGT-TTT
1 TTA--T--G-TATTATGTA--ACT--TATTTAATTTATGT-AGGTTATGTATTA
* * *
11385854 TTGTGTATTATGTAACTTATTTAATTTATGGATGTTATGTATTA
1 TTATGTATTATGTAACTTATTTAATTTATGTAGGTTATGTATTA
11385898 TTATGTATTAT
1 TTATGTATTAT
11385909 TATGTAAGTT
Statistics
Matches: 81, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
43 6 0.07
44 26 0.32
45 1 0.01
46 2 0.02
47 9 0.11
48 2 0.02
49 9 0.11
50 2 0.02
51 1 0.01
52 16 0.20
53 7 0.09
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.54
Consensus pattern (44 bp):
TTATGTATTATGTAACTTATTTAATTTATGTAGGTTATGTATTA
Found at i:11385816 original size:12 final size:12
Alignment explanation
Indices: 11385799--11385838 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
11385789 AGGTTATGTA
11385799 TTATTATGTAAG
1 TTATTATGTAAG
*
11385811 TTATTATGTAGG
1 TTATTATGTAAG
* *
11385823 ATACTATGTAAG
1 TTATTATGTAAG
11385835 TTAT
1 TTAT
11385839 GTAAGTTTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.03, G:0.17, T:0.47
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:11385883 original size:96 final size:93
Alignment explanation
Indices: 11385732--11385932 Score: 303
Period size: 96 Copynumber: 2.1 Consensus size: 93
11385722 AGTTATGTAT
*
11385732 TATGTAAGTTATGTAAGTTTTTGTGTTTATGTATTATGTAACTTATTTAATTTATGTAGGTTATG
1 TATGTAAGTTATGTAAGTTTTTGTGTTTATGTATTATGTAACTTATTTAATTTATGGAGGTTATG
*
11385797 TATTATTATGTAAGTTATTATGTAGGATAC
66 TATTATTATGT-A-TTATTATGTAAGATAC
* * *
11385827 TATGTAAGTTATGTAAGTTTTTGTTTTTTGTGTATTATGTAACTTATTTAATTTATGGATGTTAT
1 TATGTAAGTTATGTAAGTTTTTG-TGTTTATGTATTATGTAACTTATTTAATTTATGGAGGTTAT
* *
11385892 GTATTATTATGTATTATTATGTAAGTTAT
65 GTATTATTATGTATTATTATGTAAGATAC
*
11385921 TATGTAGGTTAT
1 TATGTAAGTTAT
11385933 TATGTAAGTC
Statistics
Matches: 97, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
94 24 0.25
95 24 0.25
96 49 0.51
ACGTcount: A:0.27, C:0.01, G:0.17, T:0.54
Consensus pattern (93 bp):
TATGTAAGTTATGTAAGTTTTTGTGTTTATGTATTATGTAACTTATTTAATTTATGGAGGTTATG
TATTATTATGTATTATTATGTAAGATAC
Found at i:11385903 original size:10 final size:11
Alignment explanation
Indices: 11385888--11385949 Score: 74
Period size: 12 Copynumber: 5.5 Consensus size: 11
11385878 TTTATGGATG
11385888 TTATGTA-TTA
1 TTATGTAGTTA
11385898 TTATGTA-TTA
1 TTATGTAGTTA
11385908 TTATGTAAGTTA
1 TTATGT-AGTTA
11385920 TTATGTAGGTTA
1 TTATGTA-GTTA
*
11385932 TTATGTAAGTCA
1 TTATGT-AGTTA
11385944 TTATGT
1 TTATGT
11385950 TGGTTATGTA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
10 16 0.34
11 2 0.04
12 28 0.60
13 1 0.02
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (11 bp):
TTATGTAGTTA
Found at i:11385922 original size:12 final size:12
Alignment explanation
Indices: 11385895--11385949 Score: 78
Period size: 12 Copynumber: 4.8 Consensus size: 12
11385885 ATGTTATGTA
11385895 TTATTATGT-A-
1 TTATTATGTAAG
11385905 TTATTATGTAAG
1 TTATTATGTAAG
*
11385917 TTATTATGTAGG
1 TTATTATGTAAG
11385929 TTATTATGTAAG
1 TTATTATGTAAG
*
11385941 TCATTATGT
1 TTATTATGT
11385950 TGGTTATGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
10 9 0.22
11 1 0.03
12 30 0.75
ACGTcount: A:0.29, C:0.02, G:0.16, T:0.53
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:11385937 original size:24 final size:24
Alignment explanation
Indices: 11385888--11385956 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
11385878 TTTATGGATG
11385888 TTATGT-A-TTATTATGTA--TTA
1 TTATGTAAGTTATTATGTAGGTTA
11385908 TTATGTAAGTTATTATGTAGGTTA
1 TTATGTAAGTTATTATGTAGGTTA
* *
11385932 TTATGTAAGTCATTATGTTGGTTA
1 TTATGTAAGTTATTATGTAGGTTA
11385956 T
1 T
11385957 GTAAGTTGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.14
21 1 0.02
22 10 0.23
24 26 0.60
ACGTcount: A:0.28, C:0.01, G:0.17, T:0.54
Consensus pattern (24 bp):
TTATGTAAGTTATTATGTAGGTTA
Found at i:11385958 original size:21 final size:22
Alignment explanation
Indices: 11385908--11385962 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
11385898 TTATGTATTA
*
11385908 TTATGTAAGTTATTATGTAGGTT
1 TTATGTAAGTCATTATGTAGG-T
*
11385931 ATTATGTAAGTCATTATGTTGG-
1 -TTATGTAAGTCATTATGTAGGT
11385953 TTATGTAAGT
1 TTATGTAAGT
11385963 TGTGATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
TTATGTAAGTCATTATGTAGGT
Found at i:11386142 original size:19 final size:18
Alignment explanation
Indices: 11386092--11386145 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 18
11386082 TCAATTTTTA
*
11386092 AAAATATATATAAATTTT
1 AAAATATATATAAATATT
*
11386110 AAAA-ATAT-T-TATATT
1 AAAATATATATAAATATT
11386125 AAAACTATATATAAATATT
1 AAAA-TATATATAAATATT
11386144 AA
1 AA
11386146 TAAGTTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 8 0.28
16 1 0.03
17 8 0.28
18 5 0.17
19 7 0.24
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATATATAAATATT
Found at i:11386972 original size:32 final size:31
Alignment explanation
Indices: 11386910--11386972 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 31
11386900 CATTAACCAA
* *
11386910 ATACCAAATTAAAACAGTCCCAACTACAAAT
1 ATACCAAATTAAAACAGTCCAAAATACAAAT
11386941 ATACCAAATATAAAAACAGTCCAAAAT-CAAAT
1 ATACCAAAT-T-AAAACAGTCCAAAATACAAAT
11386973 GTAAATTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 9 0.32
32 6 0.21
33 13 0.46
ACGTcount: A:0.56, C:0.22, G:0.03, T:0.19
Consensus pattern (31 bp):
ATACCAAATTAAAACAGTCCAAAATACAAAT
Found at i:11388669 original size:15 final size:15
Alignment explanation
Indices: 11388642--11388687 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
11388632 AAACTCTATT
*
11388642 CCTTAGACCTTAAAC
1 CCTTAAACCTTAAAC
11388657 CC-TAAACCCTT-AAC
1 CCTTAAA-CCTTAAAC
11388671 CCTTAAACCTTAAAC
1 CCTTAAACCTTAAAC
11388686 CC
1 CC
11388688 ACGAACCCCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 12 0.44
15 15 0.56
ACGTcount: A:0.35, C:0.39, G:0.02, T:0.24
Consensus pattern (15 bp):
CCTTAAACCTTAAAC
Found at i:11388673 original size:14 final size:14
Alignment explanation
Indices: 11388642--11388683 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
11388632 AAACTCTATT
*
11388642 CCTTAGACCTTAAAC
1 CCTTAAACCTT-AAC
11388657 CC-TAAACCCTTAAC
1 CCTTAAA-CCTTAAC
11388671 CCTTAAACCTTAA
1 CCTTAAACCTTAA
11388684 ACCCACGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.26
Consensus pattern (14 bp):
CCTTAAACCTTAAC
Found at i:11389728 original size:208 final size:208
Alignment explanation
Indices: 11389360--11390087 Score: 1041
Period size: 208 Copynumber: 3.5 Consensus size: 208
11389350 TGTTGCCATT
* * * * * * ** *
11389360 TGCTTAAAATTTTTTGCGGCGC-TACTATAAAAACGCCGCTAATTATTGAATTTTGCGACG-TTT
1 TGCTTAAAACTTTTTGCGGCGCTTCCTCT-AAAGCGCCGCTAATGATTGACTTCAGCGGCGATTT
* * * * * *
11389423 C-TGGCAATGCGCCACTAATGTCTCTAAATCTGAA-AAGAAAATGCTGTCGTTTGCCTAAAACTA
65 CTTTG-AA-GCGCCACTATTGTGTCTAAAACTCAACAAGAAAATGTTGTCGTTTGCCTAAAACTA
* * ** * * *
11389486 TTATCGATAATGCTTGAATTTTATGGCATTTTTCGCGAAGCGCCACTAATTTCCTTAAGCACAAC
128 TTACCGATAATGCTTGACTTTTGCGGCATTTTTCGCGAAGTGCCACTAATGTCCCTAAGCACAAC
11389551 AGAAAATGACGGCGTA
193 AGAAAATGACGGCGTA
* * *
11389567 TGCTTAAAACTTTTTGCGGCGCTTCCTCAAAAGCGCCGCTAATGATTGACTTCGGCGGTGATTTC
1 TGCTTAAAACTTTTTGCGGCGCTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCGGCGATTTC
* * *
11389632 TTCGAAGCGCCACTATTGTGTCTAAAACTCAACAAGAAAATGTTGTTGTTTGTCTAAAACTATTA
66 TTTGAAGCGCCACTATTGTGTCTAAAACTCAACAAGAAAATGTTGTCGTTTGCCTAAAACTATTA
* * *
11389697 CCAATAATGCTTGACTTTTGCGACATTTTTCGCGAAGTGCCACTAATGTCCCTAAGCACAACAAA
131 CCGATAATGCTTGACTTTTGCGGCATTTTTCGCGAAGTGCCACTAATGTCCCTAAGCACAACAGA
* *
11389762 AAACGATGGCGTA
196 AAATGACGGCGTA
* *
11389775 TGCTTAAAACTTTTTGCGGCGCTTCCTCTAAAGCGCCGGTAATGATTGACTTCAGCGGCAATTTC
1 TGCTTAAAACTTTTTGCGGCGCTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCGGCGATTTC
* *
11389840 TTTGAAGTGCCACTATTGTGTCTAAAACTCAACAAGAAAATGTTGTCGTCTGCCTAAAACTATTA
66 TTTGAAGCGCCACTATTGTGTCTAAAACTCAACAAGAAAATGTTGTCGTTTGCCTAAAACTATTA
11389905 CCGATAATGCTTGACTTTTGCGGCATTTTTCGCGAAGTGCCACTAATGTCCCTAAGCACAACAGA
131 CCGATAATGCTTGACTTTTGCGGCATTTTTCGCGAAGTGCCACTAATGTCCCTAAGCACAACAGA
*
11389970 AAATGACGGTGTA
196 AAATGACGGCGTA
* *
11389983 TGCTTAAAACTTTTTGCGGCACTTCCTCTAAAGCGCCGCTAATGATTGACTTCAACGGCGATTTC
1 TGCTTAAAACTTTTTGCGGCGCTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCGGCGATTTC
11390048 TTTGAAGCGCCACTATTGTGTCTAAAACTCAACAAGAAAA
66 TTTGAAGCGCCACTATTGTGTCTAAAACTCAACAAGAAAA
11390088 AGACGTCGTT
Statistics
Matches: 465, Mismatches: 52, Indels: 7
0.89 0.10 0.01
Matches are distributed among these distances:
207 67 0.14
208 396 0.85
209 2 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.31
Consensus pattern (208 bp):
TGCTTAAAACTTTTTGCGGCGCTTCCTCTAAAGCGCCGCTAATGATTGACTTCAGCGGCGATTTC
TTTGAAGCGCCACTATTGTGTCTAAAACTCAACAAGAAAATGTTGTCGTTTGCCTAAAACTATTA
CCGATAATGCTTGACTTTTGCGGCATTTTTCGCGAAGTGCCACTAATGTCCCTAAGCACAACAGA
AAATGACGGCGTA
Found at i:11390648 original size:22 final size:23
Alignment explanation
Indices: 11390623--11390670 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
11390613 TTATTAATGA
11390623 AATATTTTAAAATTTAATTA-TT
1 AATATTTTAAAATTTAATTACTT
* * *
11390645 AATATTTTTATATTTTATTACTT
1 AATATTTTAAAATTTAATTACTT
11390668 AAT
1 AAT
11390671 TTAATCATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (23 bp):
AATATTTTAAAATTTAATTACTT
Found at i:11394550 original size:17 final size:17
Alignment explanation
Indices: 11394528--11394562 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
11394518 TTGAGAAACA
*
11394528 TATATTGTCATTGCATT
1 TATATTGTCATTACATT
11394545 TATATTGTCATTACATT
1 TATATTGTCATTACATT
11394562 T
1 T
11394563 TCATGTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.26, C:0.11, G:0.09, T:0.54
Consensus pattern (17 bp):
TATATTGTCATTACATT
Found at i:11404933 original size:27 final size:27
Alignment explanation
Indices: 11404867--11404955 Score: 90
Period size: 27 Copynumber: 3.2 Consensus size: 27
11404857 AAAGTTTTAG
* *
11404867 ATTTTACAAGTTTCCCCTATTTTT-AA
1 ATTTTACAATTTTGCCCTATTTTTCAA
* *
11404893 GATTTTATACTTTTGCCCTATTTTTCAA
1 -ATTTTACAATTTTGCCCTATTTTTCAA
* *
11404921 ATTTTACAATTTTGTCCCTTACTTTACAA
1 ATTTTACAATTTTG-CCC-TATTTTTCAA
11404950 ATTTTA
1 ATTTTA
11404956 TTATTTTAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
27 32 0.63
28 5 0.10
29 14 0.27
ACGTcount: A:0.26, C:0.18, G:0.04, T:0.52
Consensus pattern (27 bp):
ATTTTACAATTTTGCCCTATTTTTCAA
Found at i:11404961 original size:29 final size:26
Alignment explanation
Indices: 11404894--11404962 Score: 66
Period size: 29 Copynumber: 2.5 Consensus size: 26
11404884 TATTTTTAAG
* *
11404894 ATTTTATACTTTTGCCCTATTTTTCAA
1 ATTTTATA-TTTTGCCCTACTTTACAA
*
11404921 ATTTTACAATTTTGTCCCTTACTTTACAA
1 ATTTTA-TATTTTG-CCC-TACTTTACAA
11404950 ATTTTATTATTTT
1 ATTTTA-TATTTT
11404963 AACCCAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
27 11 0.32
28 4 0.12
29 19 0.56
ACGTcount: A:0.25, C:0.16, G:0.03, T:0.57
Consensus pattern (26 bp):
ATTTTATATTTTGCCCTACTTTACAA
Found at i:11415793 original size:41 final size:40
Alignment explanation
Indices: 11415748--11415827 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 40
11415738 GAGGTGTGAT
* *
11415748 TTCGTCTAAGACCATGTCTGGGACATTGACATCGTATATGA
1 TTCGTATAAGACCATGTCTGGGACAGTGACATCG-ATATGA
* *
11415789 TTCGTATAAGACCCTGTCTGGGACAGTGGCATCGATATG
1 TTCGTATAAGACCATGTCTGGGACAGTGACATCGATATG
11415828 CGTTAATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
40 5 0.14
41 30 0.86
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (40 bp):
TTCGTATAAGACCATGTCTGGGACAGTGACATCGATATGA
Found at i:11416123 original size:31 final size:31
Alignment explanation
Indices: 11416087--11416148 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
11416077 TTAAGATGAT
*
11416087 TTATTTGCTTATGGCTTATTAAGCTTCCAAA
1 TTATTTGCTTATGGCTTACTAAGCTTCCAAA
11416118 TTATTTGCTTATGGCTTACTAAGCTTCCAAA
1 TTATTTGCTTATGGCTTACTAAGCTTCCAAA
11416149 GCTTACTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.44
Consensus pattern (31 bp):
TTATTTGCTTATGGCTTACTAAGCTTCCAAA
Found at i:11423896 original size:50 final size:50
Alignment explanation
Indices: 11423833--11424066 Score: 258
Period size: 50 Copynumber: 4.7 Consensus size: 50
11423823 CATTAAGATT
*
11423833 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGACGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCACCGAG
* * *
11423883 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCACCGAG
** * * *
11423933 ATGAGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATAGGCACCGAT
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCACCGAG
* ** * * *
11423983 ATAAGAACTCCCATGTAAGACCATATCTGGGATATGACATTGGCACTAC-AG
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCAC--CGAG
* ** *
11424034 -T-AAACATCCCATGTAAGACTATGTTTGGGACAT
1 ATGAGAGGTCCCATGTAAGACCATGTTTGGGACAT
11424067 AGCTTTGGCA
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 25 0.16
50 129 0.83
51 1 0.01
52 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCACCGAG
Found at i:11429353 original size:684 final size:684
Alignment explanation
Indices: 11428046--11429415 Score: 2740
Period size: 684 Copynumber: 2.0 Consensus size: 684
11428036 GCAAATCATC
11428046 TCAAAACATCATAGCTTTTATACACACTACTTATAAGCATTCATAATTTCAAGCATATGGCTAAG
1 TCAAAACATCATAGCTTTTATACACACTACTTATAAGCATTCATAATTTCAAGCATATGGCTAAG
11428111 CATATTTCAAACATCATCAACTCATACCTTTTCATACTTTCATATCATCACTTATTGAAGCATTT
66 CATATTTCAAACATCATCAACTCATACCTTTTCATACTTTCATATCATCACTTATTGAAGCATTT
11428176 GTCGAACCTTCCCTTTTTCATACTTGTTGAACCATTAGAATAATATCAGATACACAGGAATCTAG
131 GTCGAACCTTCCCTTTTTCATACTTGTTGAACCATTAGAATAATATCAGATACACAGGAATCTAG
11428241 CACACTATATGCCAACATGTGGTCTAAACCACTACTATATCATATCTCGTATCACTGCTCTCTCT
196 CACACTATATGCCAACATGTGGTCTAAACCACTACTATATCATATCTCGTATCACTGCTCTCTCT
11428306 CAAGCCATAAATGGGTTCGCTCACACCAGCTATAAATCAGGACGTAGCTACTCAGTGCTACTTAC
261 CAAGCCATAAATGGGTTCGCTCACACCAGCTATAAATCAGGACGTAGCTACTCAGTGCTACTTAC
11428371 ACAAGCTATCAAGTAACCACAACACATGCCGAAAAATTAGCCACTGGTAGGACGTACAAGACCAG
326 ACAAGCTATCAAGTAACCACAACACATGCCGAAAAATTAGCCACTGGTAGGACGTACAAGACCAG
11428436 CACCCAAAACACGGTAACATTTATATCCTATATATGCCGAAAACACATGCCAAAAACTTAGCCAC
391 CACCCAAAACACGGTAACATTTATATCCTATATATGCCGAAAACACATGCCAAAAACTTAGCCAC
11428501 CGGTGGGACGTACATGTCATTTGTATCATATATATTCCTAAGGTTCAAACGGGATCTGAAAGTTG
456 CGGTGGGACGTACATGTCATTTGTATCATATATATTCCTAAGGTTCAAACGGGATCTGAAAGTTG
11428566 CCAAAAATTCGTTGGATATTTTCGTAGTCATAATATCAAAATATATAACACAGAAGCATTTAATT
521 CCAAAAATTCGTTGGATATTTTCGTAGTCATAATATCAAAATATATAACACAGAAGCATTTAATT
11428631 CAAATATGATTCAATGCTATTTAAATTAACGAACTTACCTCAAACACGAACGGAGAAATACGATT
586 CAAATATGATTCAATGCTATTTAAATTAACGAACTTACCTCAAACACGAACGGAGAAATACGATT
11428696 GATTAATCCAATACTTTTTTTTCCCCGATCTAAA
651 GATTAATCCAATACTTTTTTTTCCCCGATCTAAA
11428730 TCAAAACATCATAGCTTTTATACACACTACTTATAAGCATTCATAATTTCAAGCATATGGCTAAG
1 TCAAAACATCATAGCTTTTATACACACTACTTATAAGCATTCATAATTTCAAGCATATGGCTAAG
11428795 CATATTTCAAACATCATCAACTCATACCTTTTCATACTTTCATATCATCACTTATTGAAGCATTT
66 CATATTTCAAACATCATCAACTCATACCTTTTCATACTTTCATATCATCACTTATTGAAGCATTT
11428860 GTCGAACCTTCCCTTTTTCATACTTGTTGAACCATTAGAATAATATCAGATACACAGGAATCTAG
131 GTCGAACCTTCCCTTTTTCATACTTGTTGAACCATTAGAATAATATCAGATACACAGGAATCTAG
11428925 CACACTATATGCCAACATGTGGTCTAAACCACTACTATATCATATCTCGTATCACTGCTCTCTCT
196 CACACTATATGCCAACATGTGGTCTAAACCACTACTATATCATATCTCGTATCACTGCTCTCTCT
11428990 CAAGCCATAAATGGGTTCGCTCACACCAGCTATAAATCAGGACGTAGCTACTCAGTGCTACTTAC
261 CAAGCCATAAATGGGTTCGCTCACACCAGCTATAAATCAGGACGTAGCTACTCAGTGCTACTTAC
11429055 ACAAGCTATCAAGTAACCACAACACATGCCGAAAAATTAGCCACTGGTAGGACGTACAAGACCAG
326 ACAAGCTATCAAGTAACCACAACACATGCCGAAAAATTAGCCACTGGTAGGACGTACAAGACCAG
11429120 CACCCAAAACACGGTAACATTTATATCCTATATATGCCGAAAACACATGCCAAAAACTTAGCCAC
391 CACCCAAAACACGGTAACATTTATATCCTATATATGCCGAAAACACATGCCAAAAACTTAGCCAC
11429185 CGGTGGGACGTACATGTCATTTGTATCATATATATTCCTAAGGTTCAAACGGGATCTGAAAGTTG
456 CGGTGGGACGTACATGTCATTTGTATCATATATATTCCTAAGGTTCAAACGGGATCTGAAAGTTG
11429250 CCAAAAATTCGTTGGATATTTTCGTAGTCATAATATCAAAATATATAACACAGAAGCATTTAATT
521 CCAAAAATTCGTTGGATATTTTCGTAGTCATAATATCAAAATATATAACACAGAAGCATTTAATT
11429315 CAAATATGATTCAATGCTATTTAAATTAACGAACTTACCTCAAACACGAACGGAGAAATACGATT
586 CAAATATGATTCAATGCTATTTAAATTAACGAACTTACCTCAAACACGAACGGAGAAATACGATT
11429380 GATTAATCCAATACTTTTTTTTCCCCGATCTAAA
651 GATTAATCCAATACTTTTTTTTCCCCGATCTAAA
11429414 TC
1 TC
11429416 TGCATGTTGC
Statistics
Matches: 686, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
684 686 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (684 bp):
TCAAAACATCATAGCTTTTATACACACTACTTATAAGCATTCATAATTTCAAGCATATGGCTAAG
CATATTTCAAACATCATCAACTCATACCTTTTCATACTTTCATATCATCACTTATTGAAGCATTT
GTCGAACCTTCCCTTTTTCATACTTGTTGAACCATTAGAATAATATCAGATACACAGGAATCTAG
CACACTATATGCCAACATGTGGTCTAAACCACTACTATATCATATCTCGTATCACTGCTCTCTCT
CAAGCCATAAATGGGTTCGCTCACACCAGCTATAAATCAGGACGTAGCTACTCAGTGCTACTTAC
ACAAGCTATCAAGTAACCACAACACATGCCGAAAAATTAGCCACTGGTAGGACGTACAAGACCAG
CACCCAAAACACGGTAACATTTATATCCTATATATGCCGAAAACACATGCCAAAAACTTAGCCAC
CGGTGGGACGTACATGTCATTTGTATCATATATATTCCTAAGGTTCAAACGGGATCTGAAAGTTG
CCAAAAATTCGTTGGATATTTTCGTAGTCATAATATCAAAATATATAACACAGAAGCATTTAATT
CAAATATGATTCAATGCTATTTAAATTAACGAACTTACCTCAAACACGAACGGAGAAATACGATT
GATTAATCCAATACTTTTTTTTCCCCGATCTAAA
Found at i:11450348 original size:33 final size:33
Alignment explanation
Indices: 11450311--11450375 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
11450301 TGAGTCCTTT
* *
11450311 AACAGTAATAGAATAATGTGGGCTTTAGCCCAA
1 AACAGTAAAAGAATAATGTGGGCCTTAGCCCAA
** *
11450344 AACAGTAAAAGTGTAGTGTGGGCCTTAGCCCA
1 AACAGTAAAAGAATAATGTGGGCCTTAGCCCA
11450376 TTACAGTATC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (33 bp):
AACAGTAAAAGAATAATGTGGGCCTTAGCCCAA
Found at i:11450636 original size:21 final size:21
Alignment explanation
Indices: 11450578--11450641 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
11450568 TGCCAGTGAT
* *
11450578 CAGAATGGCTAAGAGCTGTAAA
1 CAGAATAGCTAA-AGCTATAAA
*
11450600 CAGGATAGCTATAAGCTATAAA
1 CAGAATAGCTA-AAGCTATAAA
*
11450622 CAGAAT-GCTACAAGCCATAA
1 CAGAATAGCTA-AAGCTATAA
11450642 GTACAGTAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
21 12 0.34
22 22 0.63
23 1 0.03
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (21 bp):
CAGAATAGCTAAAGCTATAAA
Found at i:11450706 original size:32 final size:32
Alignment explanation
Indices: 11450633--11450803 Score: 195
Period size: 32 Copynumber: 5.4 Consensus size: 32
11450623 AGAATGCTAC
* * * *
11450633 AAGCCATAAGT-ACAGTAATATGATTGGCAAA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * *
11450664 AAGTCC-TCAGTAGCAGTGATATGATCGGCACA
1 AAG-CCATCAGTAACGGTAATATGATCGGCACA
*
11450696 CAA-CCATCAGTAACGGTAATATGATTGGCACA
1 -AAGCCATCAGTAACGGTAATATGATCGGCACA
** *
11450728 AAGCCATCAGTAATTGTAATATGATCGACACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
*
11450760 AAGCCATCAGTAACGGTAATATGATTGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
11450792 AAGCCATCAGTA
1 AAGCCATCAGTA
11450804 GTATCGCAGC
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
31 11 0.09
32 105 0.89
33 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGGCACA
Found at i:11450750 original size:64 final size:64
Alignment explanation
Indices: 11450633--11450803 Score: 231
Period size: 64 Copynumber: 2.7 Consensus size: 64
11450623 AGAATGCTAC
* * * * * *
11450633 AAGCCATAAGT-ACAGTAATATGATTGGCAAAAAGTCC-TCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATTGGCACAAAG-CCATCAGTAACAGTAATATGATCGACACA
**
11450696 CAA-CCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTAATTGTAATATGATCGACACA
1 -AAGCCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTAACAGTAATATGATCGACACA
11450760 AAGCCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTA
1 AAGCCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTA
11450804 GTATCGCAGC
Statistics
Matches: 96, Mismatches: 8, Indels: 6
0.87 0.07 0.05
Matches are distributed among these distances:
63 11 0.11
64 85 0.89
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (64 bp):
AAGCCATCAGTAACGGTAATATGATTGGCACAAAGCCATCAGTAACAGTAATATGATCGACACA
Found at i:11450858 original size:26 final size:26
Alignment explanation
Indices: 11450802--11450859 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
11450792 AAGCCATCAG
* *
11450802 TAGTATCGCAGCAAAGTTGCCAGCAA
1 TAGTATCGCAACAAAGCTGCCAGCAA
* * * *
11450828 CAGTATCGCAATAAAGCTGCCCGTAA
1 TAGTATCGCAACAAAGCTGCCAGCAA
11450854 TAGTAT
1 TAGTAT
11450860 ATGTGGCCAA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (26 bp):
TAGTATCGCAACAAAGCTGCCAGCAA
Found at i:11451010 original size:24 final size:23
Alignment explanation
Indices: 11450975--11451104 Score: 95
Period size: 24 Copynumber: 5.4 Consensus size: 23
11450965 CCATGCTCAG
* *
11450975 AATCAGTTATACAATTCACAAACA
1 AATCAGTCATACAA-TCACAGACA
11450999 AATCAGTCATACCAATCACAGACA
1 AATCAGTCATA-CAATCACAGACA
11451023 AATCAGTCATTTA-AATCACAGACA
1 AATCAGTCA--TACAATCACAGACA
* * *
11451047 AATCAATCATTTAC-ATCTCGGACA
1 AATCAGTCA--TACAATCACAGACA
* *
11451071 AATTAATCACTTAC-ATCACAGACA
1 AATCAGTCA--TACAATCACAGACA
*
11451095 AATCAATCAT
1 AATCAGTCAT
11451105 TTAACCTGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
22 1 0.01
24 86 0.93
25 3 0.03
26 2 0.02
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.25
Consensus pattern (23 bp):
AATCAGTCATACAATCACAGACA
Found at i:11451048 original size:48 final size:46
Alignment explanation
Indices: 11450990--11451104 Score: 122
Period size: 48 Copynumber: 2.4 Consensus size: 46
11450980 GTTATACAAT
* * * *
11450990 TCACAAACAAATCAGTCATACCAATCACAGACAAATCAGTCATTTAAA
1 TCACAGACAAATCAATCATA-C-ATCACAGACAAATCAATCACTTAAA
* * * *
11451038 TCACAGACAAATCAATCATTTACATCTCGGACAAATTAATCACTTACA
1 TCACAGACAAATCAATCA--TACATCACAGACAAATCAATCACTTAAA
11451086 TCACAGACAAATCAATCAT
1 TCACAGACAAATCAATCAT
11451105 TTAACCTGAG
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
46 1 0.02
48 53 0.93
49 1 0.02
50 2 0.04
ACGTcount: A:0.45, C:0.25, G:0.06, T:0.23
Consensus pattern (46 bp):
TCACAGACAAATCAATCATACATCACAGACAAATCAATCACTTAAA
Found at i:11451210 original size:26 final size:27
Alignment explanation
Indices: 11451176--11451250 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
11451166 CAGAGGTATT
11451176 ACAGTCATTTTA-CCTATAGGGGCATC
1 ACAGTCATTTTACCCTATAGGGGCATC
* * * *
11451202 ACATTCATTTTACCCTACAGAGGCATT
1 ACAGTCATTTTACCCTATAGGGGCATC
*
11451229 ACGGTCATTTTACCCTATAGGG
1 ACAGTCATTTTACCCTATAGGG
11451251 CAATACGGTT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 11 0.28
27 29 0.73
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (27 bp):
ACAGTCATTTTACCCTATAGGGGCATC
Found at i:11451226 original size:27 final size:27
Alignment explanation
Indices: 11451165--11451270 Score: 108
Period size: 26 Copynumber: 4.0 Consensus size: 27
11451155 AATTCACCTA
*
11451165 ACAGAGGTATTACAGTCATTTTA-CCT
1 ACAGAGGCATTACAGTCATTTTACCCT
* * * *
11451191 ATAGGGGCATCACATTCATTTTACCCT
1 ACAGAGGCATTACAGTCATTTTACCCT
*
11451218 ACAGAGGCATTACGGTCATTTTACCCT
1 ACAGAGGCATTACAGTCATTTTACCCT
* * * *
11451245 ATAG-GGCAATACGGTTATTTTACCCT
1 ACAGAGGCATTACAGTCATTTTACCCT
11451271 TCGAGGGTAT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
26 38 0.58
27 28 0.42
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (27 bp):
ACAGAGGCATTACAGTCATTTTACCCT
Found at i:11451291 original size:27 final size:27
Alignment explanation
Indices: 11451261--11451486 Score: 258
Period size: 27 Copynumber: 8.4 Consensus size: 27
11451251 CAATACGGTT
* *
11451261 ATTTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
* *
11451288 ATTTTACCCATCGAGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTTGGTA
*
11451315 ATTTTACCCATCAAGGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
* **
11451342 ATTTTACCCATCGAGGATATTTCAGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
*
11451369 ATTTTACCCATCGACGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
*
11451396 ATTTTACCCATCGAGGGTTTTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
** *
11451423 ATTTTACCC-TTTAGGGGTATTTCGGTA
1 ATTTTACCCATCGA-GGGTATTTTGGTA
* ** * **
11451450 AGTTTACCTTTCAAGGGTATTTCAGTA
1 ATTTTACCCATCGAGGGTATTTTGGTA
11451477 A-TTTACCCAT
1 ATTTTACCCAT
11451487 GAATTGCACG
Statistics
Matches: 169, Mismatches: 28, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 9 0.05
27 158 0.93
28 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTTGGTA
Found at i:11451469 original size:81 final size:81
Alignment explanation
Indices: 11451261--11451486 Score: 294
Period size: 81 Copynumber: 2.8 Consensus size: 81
11451251 CAATACGGTT
* *
11451261 ATTTTACCCTTCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCAT
1 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCAT
11451326 CAAGGGTATTTTGGTA
66 CAAGGGTATTTTGGTA
* * * *
11451342 ATTTTACCCATCGAGGATATTTCAGTAATTTTACCCATCGACGGTATTTTGGTAATTTTACCCAT
1 ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCAT
* *
11451407 CGAGGGTTTTTTGGTA
66 CAAGGGTATTTTGGTA
* * * ** * *
11451423 ATTTTACCCTT-TAGGGGTATTTCGGTAAGTTTACCTTTCAAGGGTATTTCAGTAA-TTTACCCA
1 ATTTTACCCTTCGA-GGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCA
11451486 T
65 T
11451487 GAATTGCACG
Statistics
Matches: 125, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
80 10 0.08
81 115 0.92
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (81 bp):
ATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCAT
CAAGGGTATTTTGGTA
Found at i:11457166 original size:16 final size:18
Alignment explanation
Indices: 11457131--11457168 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
11457121 ATCCTTATTT
11457131 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
11457149 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
11457165 AAAT
1 AAAT
11457169 CCCTATAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:11461251 original size:416 final size:416
Alignment explanation
Indices: 11460480--11462136 Score: 2942
Period size: 416 Copynumber: 4.0 Consensus size: 416
11460470 TGAGAAAGAT
*
11460480 AATTTAATCGATCATAATATTATTGTTAGATAGAAGTCATATAGTGATTCGAGATCTAAACGTCG
1 AATTTAATCGATCACAATATTATTGTTAGATAGAAGTCATATAGTGATTCGAGATCTAAACGTCG
* **
11460545 AGATTGAGGCGTACTTACCAATTCTTGGTTAGTATTTGGAATGTTTCTATCGACAATTTTGTTTC
66 AGATTGAGGCGTACTTACCAATTCTTGGTTAGTATTTGGAATGTTTCTATTGACAATTTCATTTC
**
11460610 TGGTAGAACAACGAGTTAACAAGGATTGACTTTGATTTTAGAAAAAACAATAAAAATTCAACAAA
131 TGGTAGAACAACGAGTTAACAAGGATTGACTTTGATTCCAGAAAAAACAATAAAAATTCAACAAA
* *
11460675 AAAATCATGACAAATTTGATGTAAAAGAGAGGAAAGAAGAGAAAAAAA-AGGGAAGTGAAAGAAA
196 AAAATCATGAAAAATTTGATGTAAAAGAGAGGAAAGAAGAGAAAAAAATAGGGAGGTGAAAGAAA
11460739 TTCTATTTGGTTTTGAAGAGAACATAATCCTTGTTCAAATTGGGTAAAGTTGGATTAAAAATATA
261 TTCTATTTGGTTTTGAAGAGAACATAATCCTTGTTC-AATTGGGTAAAGTTGGATTAAAAATATA
* * *
11460804 GGGTTTGGGAACCGTAGGGCATCTGGAGCAATTTTCCCAAAGCTTTGGGCATAAAATTTAAAGAT
325 GGGTTTGGGAACCCTAGGGCATCGGGAGCAATTTTCCCAAAGTTTTGGGCATAAAATTTAAAGAT
11460869 AAATTTAGAATAAAAATAAAACGGATG
390 AAATTTAGAATAAAAATAAAACGGATG
*
11460896 AATTTAATCGGTCACAATATTATTGTTAGATAGAAGTCATATAGTGATTCGAGATCTAAACGTCG
1 AATTTAATCGATCACAATATTATTGTTAGATAGAAGTCATATAGTGATTCGAGATCTAAACGTCG
*
11460961 AGATTGAGGCGTACTTACCAATTCTTGGTTAGTATTTGGAATGTTTCTATTGACAATTTCGTTTC
66 AGATTGAGGCGTACTTACCAATTCTTGGTTAGTATTTGGAATGTTTCTATTGACAATTTCATTTC
* * * **
11461026 TGGTAGAACCACAAGTTAAGAAGGATTGACTTTGATTCCAGAAAAAACAATAAAAATTCAACAGC
131 TGGTAGAACAACGAGTTAACAAGGATTGACTTTGATTCCAGAAAAAACAATAAAAATTCAACAAA
* *
11461091 AAAATCATGAAAAATTTGGTGTAAAAGAGAGGAAAGAAGAGAAAAAAATAGGGAGGTAAAAGAAA
196 AAAATCATGAAAAATTTGATGTAAAAGAGAGGAAAGAAGAGAAAAAAATAGGGAGGTGAAAGAAA
11461156 TTCTATTTGGTTTTGAAGAGAACATAATCCTTGTTCAATTGGGTAAAGTTGGATTAAAAATATAG
261 TTCTATTTGGTTTTGAAGAGAACATAATCCTTGTTCAATTGGGTAAAGTTGGATTAAAAATATAG
11461221 GGTTTGGGAACCCTAGGGCATCGGGAGCAATTTTCCCAAAGTTTTGGGCATAAAATTTAAAGATA
326 GGTTTGGGAACCCTAGGGCATCGGGAGCAATTTTCCCAAAGTTTTGGGCATAAAATTTAAAGATA
11461286 AATTTAGAATAAAAATAAAACGGATG
391 AATTTAGAATAAAAATAAAACGGATG
11461312 AATTTAATCGATCACAATATTATTGTTAGATAGAAGTCATATAGTGATTCGAGATCTAAACGTCG
1 AATTTAATCGATCACAATATTATTGTTAGATAGAAGTCATATAGTGATTCGAGATCTAAACGTCG
11461377 AGATTGAGGCGTACTTACCAATTCTTGGTTAGTATTTGGAATGTTTCTATTGACAATTTCATTTC
66 AGATTGAGGCGTACTTACCAATTCTTGGTTAGTATTTGGAATGTTTCTATTGACAATTTCATTTC
* * ** *
11461442 TGGTAAAACAATGAGTTAACAAGGATTGACTTTGATTTTAGAAAAAAAAATAAAAATTCAACAAA
131 TGGTAGAACAACGAGTTAACAAGGATTGACTTTGATTCCAGAAAAAACAATAAAAATTCAACAAA
*
11461507 AAAATCATGAGAAATTTGATGTAAAAGAGAGGAAAGAAGAGAAAAAAATAGGGAGGTGAAAGAAA
196 AAAATCATGAAAAATTTGATGTAAAAGAGAGGAAAGAAGAGAAAAAAATAGGGAGGTGAAAGAAA
* *
11461572 TTCTATTTGGTTTTAAAGAGAACATAATCCTTTTTCAATTGGGTAAAGTTGGATTAAAAATATAG
261 TTCTATTTGGTTTTGAAGAGAACATAATCCTTGTTCAATTGGGTAAAGTTGGATTAAAAATATAG
* *
11461637 GGTTTGGAAACCCTAAGGCATCGGGAGCAATTTTCCCAAAGTTTTGGGCATAAAATTTAAAGATA
326 GGTTTGGGAACCCTAGGGCATCGGGAGCAATTTTCCCAAAGTTTTGGGCATAAAATTTAAAGATA
11461702 AATTTAGAATAAAAATAAAACGGATG
391 AATTTAGAATAAAAATAAAACGGATG
11461728 AATTTAATCGATCACAATATTATTGTTAGATAGAAGTCATATAGTGATTCGAGATCTAAACGTCG
1 AATTTAATCGATCACAATATTATTGTTAGATAGAAGTCATATAGTGATTCGAGATCTAAACGTCG
11461793 AGATTGAGGCGTACTTACCAATTCTTGGTTAGTATTTGGAATGTTTCTATTGACAATTTCATTTC
66 AGATTGAGGCGTACTTACCAATTCTTGGTTAGTATTTGGAATGTTTCTATTGACAATTTCATTTC
* *
11461858 TGGTAGAACAATGAGTTAACAAGGATTGACTTTGATTCCAGAAAAAACAATAAAAATTCAACAAC
131 TGGTAGAACAACGAGTTAACAAGGATTGACTTTGATTCCAGAAAAAACAATAAAAATTCAACAAA
*
11461923 AAAATCATGAAAAATTTGATGTAAAAGAGAGGAAAGAAGCG-AAAAAATAGGGAGGTGAAAGAAA
196 AAAATCATGAAAAATTTGATGTAAAAGAGAGGAAAGAAGAGAAAAAAATAGGGAGGTGAAAGAAA
11461987 TTCTATTTGGTTTTGAAGAGAACATAATCCTTGTTCAATTGGGTAAAGTTGGATTAAAAATATAG
261 TTCTATTTGGTTTTGAAGAGAACATAATCCTTGTTCAATTGGGTAAAGTTGGATTAAAAATATAG
** *
11462052 GGTTTGGGAACCCTAGGG-AGTCAAGAGCAATTTTCCCAAAGTTTTGGGCCTAAAATTTAAAGAT
326 GGTTTGGGAACCCTAGGGCA-TCGGGAGCAATTTTCCCAAAGTTTTGGGCATAAAATTTAAAGAT
*
11462116 AAATTTAGAATAAAAAGAAAA
390 AAATTTAGAATAAAAATAAAA
11462137 GGGACGATTT
Statistics
Matches: 1187, Mismatches: 52, Indels: 5
0.95 0.04 0.00
Matches are distributed among these distances:
414 1 0.00
415 163 0.14
416 973 0.82
417 50 0.04
ACGTcount: A:0.40, C:0.10, G:0.20, T:0.30
Consensus pattern (416 bp):
AATTTAATCGATCACAATATTATTGTTAGATAGAAGTCATATAGTGATTCGAGATCTAAACGTCG
AGATTGAGGCGTACTTACCAATTCTTGGTTAGTATTTGGAATGTTTCTATTGACAATTTCATTTC
TGGTAGAACAACGAGTTAACAAGGATTGACTTTGATTCCAGAAAAAACAATAAAAATTCAACAAA
AAAATCATGAAAAATTTGATGTAAAAGAGAGGAAAGAAGAGAAAAAAATAGGGAGGTGAAAGAAA
TTCTATTTGGTTTTGAAGAGAACATAATCCTTGTTCAATTGGGTAAAGTTGGATTAAAAATATAG
GGTTTGGGAACCCTAGGGCATCGGGAGCAATTTTCCCAAAGTTTTGGGCATAAAATTTAAAGATA
AATTTAGAATAAAAATAAAACGGATG
Found at i:11469412 original size:29 final size:30
Alignment explanation
Indices: 11469352--11469414 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
11469342 GTAACATATG
*
11469352 AAAAATAGGGGCAGAACGATAAAATCTAAA
1 AAAAATAGGGGCAAAACGATAAAATCTAAA
* *
11469382 AAAAATAGGGGCAAAATTG-TATAATCTAAA
1 AAAAATAGGGGCAAAA-CGATAAAATCTAAA
11469412 AAA
1 AAA
11469415 GTGGTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.57, C:0.08, G:0.17, T:0.17
Consensus pattern (30 bp):
AAAAATAGGGGCAAAACGATAAAATCTAAA
Found at i:11470770 original size:59 final size:58
Alignment explanation
Indices: 11470681--11470940 Score: 360
Period size: 59 Copynumber: 4.4 Consensus size: 58
11470671 AACGGCGTGT
* * * *
11470681 TGACGATCATCAGATTGTGAAAAGGGATAGCTTCAGCTATCGGTTATGAAAAGGGATGG
1 TGACGACCATCA-ATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGG
* * *
11470740 TGATGACCACTGAATTATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGG
1 TGACGACCA-TCAATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGG
* * *
11470799 TGACGACCATCAACTATGAAAAGGGATA-CTTTGGCTATTGATTATGAAAAGGGATGG
1 TGACGACCATCAATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGG
* * * *
11470856 TGATGACCACTGAATTATGAAAAGGGATAGCTTCGGCTATTGGTTATGAAAAGGGATGG
1 TGACGACCA-TCAATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGG
11470915 TGACGACCATCAATTATGAAAAGGGA
1 TGACGACCATCAATTATGAAAAGGGA
11470941 CGGTGACGGC
Statistics
Matches: 178, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
57 34 0.19
58 50 0.28
59 92 0.52
60 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (58 bp):
TGACGACCATCAATTATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGG
Found at i:11470852 original size:116 final size:117
Alignment explanation
Indices: 11470698--11470940 Score: 407
Period size: 116 Copynumber: 2.1 Consensus size: 117
11470688 CATCAGATTG
*
11470698 TGAAAAGGGATAGCTTCAGCTATCGGTTATGAAAAGGGATGGTGATGACCACTGAATTATGAAAA
1 TGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGATGACCACTGAATTATGAAAA
11470763 GGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACGACCATCAACTA
66 GGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACGACCATCAACTA
** *
11470815 TGAAAAGGGATA-CTTTGGCTATTGATTATGAAAAGGGATGGTGATGACCACTGAATTATGAAAA
1 TGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGATGACCACTGAATTATGAAAA
*** *
11470879 GGGATAGCTTCGGCTATTGGTTATGAAAAGGGATGGTGACGACCATCAATTA
66 GGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACGACCATCAACTA
11470931 TGAAAAGGGA
1 TGAAAAGGGA
11470941 CGGTGACGGC
Statistics
Matches: 118, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
116 106 0.90
117 12 0.10
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (117 bp):
TGAAAAGGGATAGCTTCAGCTATCGATTATGAAAAGGGATGGTGATGACCACTGAATTATGAAAA
GGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACGACCATCAACTA
Found at i:11470945 original size:29 final size:29
Alignment explanation
Indices: 11470724--11470955 Score: 173
Period size: 29 Copynumber: 8.0 Consensus size: 29
11470714 CAGCTATCGG
* *
11470724 TTATGAAAAGGGATGGTGATGACCACTGAA
1 TTATGAAAAGGGATGGTGACGACCA-TCAA
* * * *
11470754 TTATGAAAAGGGATAGCT-TCGGCTATCAA
1 TTATGAAAAGGGAT-GGTGACGACCATCAA
11470783 TTATGAAAAGGGATGGTGACGACCATCAA
1 TTATGAAAAGGGATGGTGACGACCATCAA
* ** ** * * **
11470812 CTATGAAAAGGGATACT-TTGGCTATTGA
1 TTATGAAAAGGGATGGTGACGACCATCAA
* *
11470840 TTATGAAAAGGGATGGTGATGACCACTGAA
1 TTATGAAAAGGGATGGTGACGACCA-TCAA
* * * * ***
11470870 TTATGAAAAGGGATAGCT-TCGGCTATTGG
1 TTATGAAAAGGGAT-GGTGACGACCATCAA
11470899 TTATGAAAAGGGATGGTGACGACCATCAA
1 TTATGAAAAGGGATGGTGACGACCATCAA
* *
11470928 TTATGAAAAGGGACGGTGACGGCCATCA
1 TTATGAAAAGGGATGGTGACGACCATCA
11470956 TGATTAGACT
Statistics
Matches: 152, Mismatches: 44, Indels: 13
0.73 0.21 0.06
Matches are distributed among these distances:
28 23 0.15
29 89 0.59
30 36 0.24
31 4 0.03
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.25
Consensus pattern (29 bp):
TTATGAAAAGGGATGGTGACGACCATCAA
Found at i:11474892 original size:20 final size:20
Alignment explanation
Indices: 11474867--11474931 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
11474857 TAAAGTACAA
11474867 CAGGGGCACGTAAGTGCAAT
1 CAGGGGCACGTAAGTGCAAT
* *
11474887 CAGGGGTATCG-AAGTACAA-
1 CAGGGGCA-CGTAAGTGCAAT
* **
11474906 CTGGGGCACGTAAGTGTGAT
1 CAGGGGCACGTAAGTGCAAT
11474926 CAGGGG
1 CAGGGG
11474932 TACCGAAGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 2 0.06
19 11 0.32
20 19 0.56
21 2 0.06
ACGTcount: A:0.28, C:0.17, G:0.38, T:0.17
Consensus pattern (20 bp):
CAGGGGCACGTAAGTGCAAT
Found at i:11474902 original size:39 final size:39
Alignment explanation
Indices: 11474832--11474944 Score: 136
Period size: 39 Copynumber: 2.9 Consensus size: 39
11474822 ACATAAACAC
* * * * **
11474832 GGCACGAAAGTGCTATTAGGAGTACTAAAGTACAACAGG
1 GGCACGTAAGTGCAATCAGGGGTACCGAAGTACAACAGG
* *
11474871 GGCACGTAAGTGCAATCAGGGGTATCGAAGTACAACTGG
1 GGCACGTAAGTGCAATCAGGGGTACCGAAGTACAACAGG
**
11474910 GGCACGTAAGTGTGATCAGGGGTACCGAAGTACAA
1 GGCACGTAAGTGCAATCAGGGGTACCGAAGTACAA
11474945 TAGTTTTCTA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 63 1.00
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.18
Consensus pattern (39 bp):
GGCACGTAAGTGCAATCAGGGGTACCGAAGTACAACAGG
Found at i:11474920 original size:19 final size:19
Alignment explanation
Indices: 11474859--11474920 Score: 72
Period size: 19 Copynumber: 3.2 Consensus size: 19
11474849 AGGAGTACTA
11474859 AAGTACAACAGGGGCACGT
1 AAGTACAACAGGGGCACGT
* *
11474878 AAGTGCAATCAGGGGTATCG-
1 AAGTACAA-CAGGGGCA-CGT
*
11474898 AAGTACAACTGGGGCACGT
1 AAGTACAACAGGGGCACGT
11474917 AAGT
1 AAGT
11474921 GTGATCAGGG
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
18 2 0.06
19 17 0.49
20 14 0.40
21 2 0.06
ACGTcount: A:0.34, C:0.18, G:0.32, T:0.16
Consensus pattern (19 bp):
AAGTACAACAGGGGCACGT
Found at i:11478346 original size:27 final size:27
Alignment explanation
Indices: 11478264--11478785 Score: 584
Period size: 27 Copynumber: 19.4 Consensus size: 27
11478254 CCCCAAAATA
** *
11478264 GGTAAAACAACCGAAATA-CCCGATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
11478290 GATAAAATGACC-AAACTA-CCCCATAG
1 GGTAAAATGACCGAAA-TACCCCCATAG
* * * *
11478316 GGTAGAATGACCGAAATACTCTCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* *
11478343 GGTAAAATGACCGAAATACTCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
11478370 GGTAAAATTATCGAAATAACCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * *
11478397 GATAAAATGATCGAAATAACCCAATAG
1 GGTAAAATGACCGAAATACCCCCATAG
**
11478424 GGTAAAATGATTGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
11478451 GGTAGAATGACTGAAATACCCTCAT-G
1 GGTAAAATGACCGAAATACCCCCATAG
*
11478477 GGTTAAAATGACCGAAATACCCTCATAG
1 GG-TAAAATGACCGAAATACCCCCATAG
*
11478505 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
11478532 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * * * *
11478559 GATAGAATGACTGAAATACCTCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
* *
11478586 GGTAAAATGAACGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
11478613 GGTAAAATGATCGAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
11478640 GGTAAAATGACCAAAATACCCCCAAAA
1 GGTAAAATGACCGAAATACCCCCATAG
*
11478667 GGTAAAATGACCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
11478694 GGTAAAATGACCGAAATACCCCCATAA
1 GGTAAAATGACCGAAATACCCCCATAG
** *
11478721 GGTAAAATGACTAAAATACCCCCGTAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * *
11478748 GTTAAAATGATCGAAATACCTCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
11478775 GGTTAAATGAC
1 GGTAAAATGAC
11478786 TATTATACCC
Statistics
Matches: 421, Mismatches: 70, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
25 3 0.01
26 33 0.08
27 382 0.91
28 3 0.01
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:11486992 original size:40 final size:39
Alignment explanation
Indices: 11486934--11487172 Score: 199
Period size: 40 Copynumber: 6.0 Consensus size: 39
11486924 AATTATTGTA
* * * *
11486934 TGATTGGACAAACATGCCCCTGTTGGTACTTCGGTACACC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC-CC
* * *
11486974 TGATTCCACATACGTGCCCTTGTTTGCACTTCGGTATCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCC
* * * * *
11487014 TGACTACACATACGTACCCCTGTTGGTACTTTGGTACCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * *
11487053 TTGATTGCACATATGTTCCCCTTTTTGTACTTTGGTACCC
1 -TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
* * * * ** *
11487093 TTGATTGCTCACACGTGCCTCTGTTTGTATTTCATTATCGC
1 -TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCC
* * *
11487134 TGATTGCACATACGTGCCCTTGTTTATACTTTGGTACCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
11487173 CTAAATGCAG
Statistics
Matches: 155, Mismatches: 41, Indels: 7
0.76 0.20 0.03
Matches are distributed among these distances:
39 5 0.03
40 147 0.95
41 3 0.02
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.37
Consensus pattern (39 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCC
Found at i:11487593 original size:19 final size:19
Alignment explanation
Indices: 11487569--11487607 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
11487559 CTAAATGGAC
*
11487569 TAGGTTTGTATGCATGAAA
1 TAGGTTTGTACGCATGAAA
11487588 TAGGTTTGTACGCATGAAA
1 TAGGTTTGTACGCATGAAA
11487607 T
1 T
11487608 GAAACATGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.36
Consensus pattern (19 bp):
TAGGTTTGTACGCATGAAA
Found at i:11491825 original size:16 final size:17
Alignment explanation
Indices: 11491790--11491825 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
11491780 TATTAAAATG
11491790 GTACCGTTTGAAGCTTT
1 GTACCGTTTGAAGCTTT
11491807 GTACCGTTTGAAG-TTT
1 GTACCGTTTGAAGCTTT
11491823 GTA
1 GTA
11491826 TTTGATCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.19, C:0.14, G:0.25, T:0.42
Consensus pattern (17 bp):
GTACCGTTTGAAGCTTT
Found at i:11510015 original size:21 final size:21
Alignment explanation
Indices: 11509973--11510016 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11509963 TAACGTATAA
* *
11509973 AAATTGTTAACAATATTATTT
1 AAATTGTTAAAAATAATATTT
11509994 AAATTGTTAAAAAATAAT-TTT
1 AAATTGTT-AAAAATAATATTT
11510015 AA
1 AA
11510017 TGTTCAAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (21 bp):
AAATTGTTAAAAATAATATTT
Found at i:11510065 original size:16 final size:16
Alignment explanation
Indices: 11510044--11510074 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11510034 ATTTTTGTAA
*
11510044 TTTTAATATTAAATAT
1 TTTTAAGATTAAATAT
11510060 TTTTAAGATTAAATA
1 TTTTAAGATTAAATA
11510075 AAATTAATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
TTTTAAGATTAAATAT
Found at i:11511175 original size:14 final size:14
Alignment explanation
Indices: 11511156--11511185 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
11511146 TTCCATTTGG
11511156 AAACTTATTGTTTC
1 AAACTTATTGTTTC
11511170 AAACTTATTGTTTC
1 AAACTTATTGTTTC
11511184 AA
1 AA
11511186 TCCCTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.07, T:0.47
Consensus pattern (14 bp):
AAACTTATTGTTTC
Found at i:11515918 original size:703 final size:702
Alignment explanation
Indices: 11513004--11518371 Score: 6484
Period size: 703 Copynumber: 7.6 Consensus size: 702
11512994 CCCAATTACG
* * * *
11513004 ATAAACGACAGACTAAGCTTTCTTTTTCGGCCAAATCGAAGAACTTTCTTCCAAGGTAATACGTT
1 ATAAACCACAGACTAAGCTTTCCTTTTCGGCCAAATC-AAGAACTTTCTTCCAAGGCAATACTTT
* * *
11513069 CAGAAATACTGTGTCACCGACTTGAAATTCAATATCTTTTGTTTTCAAATCTACGTAAGATTTCT
65 CAGAAATACTGTGTCGCCGACTTGAAATTCAATATCTTTTCTTTTCAAATCTGCGTAAGATTTCT
* * * *
11513134 GTTGGTCCAAAGCTGCTTTCAAGCTATCACGTATCACTTTGAACTTTTCTTCAGTTTCTCAAATC
130 GTCGATCCAAAGCTGCTTTCAAGCTATCACGTATCACTTTGACCTTTTCTTCGGTTTCTCAAATC
* * * * * * *
11513199 AAATCACCACCGAATAACCTTTTGTCGCTCAACTTTGTCTC-GTATAATGGAATTCGACACTTTT
195 AAATCAACACCGAATAACTTTTTCTCACTCAGCTCTGTC-CAGTATAATGGAATTCGACACTTTC
* * * * ** *
11513263 GACCATACAAAGCTTCGTCAAATTTGTGGTCCCGAAACCACTGTTCTGACTTTACTGAAAACCGA
259 GACCATACAAAGCTTCGTCAGATTTGTGGTCCCGAAACCACTATTCCGACTTCACTGAAAATGGG
* * * *
11513328 CTGCTACAACTCTCCCCCTCAAGGAATTTTTGTTCCTAAAAATCTTACCAGAAAATAAATTCAAG
324 CTGTTACAACTCTCCCCCTAAAGGAATTTTTGTCCCTAAAAATCTTACCAGAAAATAAGTTCAAG
* * * * * * *
11513393 TATTCCACTTTCATCGCTTCTTCTGGTTCCCAGGCACCCTCTTGTATTCTGTGTCATTGCCAAAT
389 TATTGCACTTTCATAGCTTCTTCTGGTTCCCAGGCAGCCTCTTCTATTCCGTGTCATTGCCAGAG
*
11513458 AACTTTAACTAAAGTTATACTTTTATTTCTCAATTCTTTAACTTCTCGAGCTAGAATTTTGATCG
454 AACTTTAACTAAAGCTATACTTTTATTTCTCAATTCTTTAACTTC-CGAGCTAGAATTTTGATCG
* * * * *
11513523 GTTCTTCTCTGTAAGTCATATTAGGTTGAATTTCAACATCAACTGGGGATATTATGTATGAAGGA
518 GTTCTTCACTGTACGTCATATCAGGTTGAATTTCAACATCAACTGGGGATATTACGTGTGAAGGA
* * * *
11513588 TCTGATTCG-TATCGTCGTAACATCGATACGTGGATTATATTATGAATATTTTCTAACTCTAATG
583 TCTGA-TCGATACCGTCGTAACATCGATACGTGGAATACATTATGAATATTTTCTAACTCTAA-C
* *
11513652 GA-AAACCTAACCGATAAGCTACTAGCCCAATTCTCTCAATGATCTCAAATGGCCCA
646 GACAAAGCTAACCGATAAGCTACTAGCCCAATTCTCTCAATGATCTCAAACGGCCCA
*
11513708 ATAAACCACGGACAGACTAAGCTTTCCTTTTCAGCCAAATCAAAGAACTTTCTTCCAAGGCAATA
1 ATAAA-C-C--ACAGACTAAGCTTTCCTTTTCGGCCAAATC-AAGAACTTTCTTCCAAGGCAATA
* * ** * *** * *
11513773 CTTTCACAAATATTGTGTTACTGAAAAGAAATTCAATATATTTTCTTTTCAAATAC-GCGAAAGA
61 CTTTCAGAAATACTGTGTCGCCGACTTGAAATTCAATATCTTTTCTTTTCAAAT-CTGCGTAAGA
* *
11513837 TTTCTGTCGATCCAAAGCTGCTTTCAAGCTATCACGTATTACTTTGACATTTTCTTCGGTTTCTC
125 TTTCTGTCGATCCAAAGCTGCTTTCAAGCTATCACGTATCACTTTGACCTTTTCTTCGGTTTCTC
* ** * *
11513902 AAATCAAATCAATATTGAATAACTTTTTCTCACTCAGCTCTATCCATTATAATGGAATTCGACAC
190 AAATCAAATCAACACCGAATAACTTTTTCTCACTCAGCTCTGTCCAGTATAATGGAATTCGACAC
* * * *
11513967 TTTTGACCATACCAAGCTTCGTCAGATTTGTGGTCTCAAAACCACTATTCCGACTTCACTGAAAA
255 TTTCGACCATACAAAGCTTCGTCAGATTTGTGGTCCCGAAACCACTATTCCGACTTCACTGAAAA
* * * * * *
11514032 TTGGCTGTTACAACTCTCCCCCTAAACGAATTTTTCATCCCTGAAAATCTTACTAGAAAATAAAT
320 TGGGCTGTTACAACTCTCCCCCTAAAGGAATTTTT-GTCCCTAAAAATCTTACCAGAAAATAAGT
* * * *
11514097 TCAAGTATTAG-ACTTTCATAGCTTCTTCCGGTTCCCAGGAAGCCTCTTGTATTCCGTGTCGTTG
384 TCAAGTATT-GCACTTTCATAGCTTCTTCTGGTTCCCAGGCAGCCTCTTCTATTCCGTGTCATTG
* *
11514161 CCAAAGAACTTTAACTAAAGCTATACTTTTATTTCTCAATTCTTTAACTTCTCGAGCTAGAATTC
448 CCAGAGAACTTTAACTAAAGCTATACTTTTATTTCTCAATTCTTTAACTTC-CGAGCTAGAATTT
* * *
11514226 TGATCGGTTCTTCACTATACGTCATATCAGGTTGAATTTCAACATTAATTGGGGATATTACGTGT
512 TGATCGGTTCTTCACTGTACGTCATATCAGGTTGAATTTCAACATCAACTGGGGATATTACGTGT
* * * * * * *
11514291 GAAGGATCTAATTGGTACCGT-GTAACATTGATATGTGGAATACATTATGAATCTTTTCTAAATC
577 GAAGGATCTGATCGATACCGTCGTAACATCGATACGTGGAATACATTATGAATATTTTCTAACTC
* * * * * * *
11514355 TGACGGCAAAGCTAACCCATAAGCTACTGGCCCAATTTTCACAATGATCTCAAACGGCCTA
642 TAACGACAAAGCTAACCGATAAGCTACTAGCCCAATTCTCTCAATGATCTCAAACGGCCCA
* *
11514416 ATAAACCAGAGACTAAGCTTTCCTTTTCCGCCAAATCGAAGAACTTTCTTCCAAGGCAATACTTT
1 ATAAACCACAGACTAAGCTTTCCTTTTCGGCCAAATC-AAGAACTTTCTTCCAAGGCAATACTTT
* ** * * *
11514481 CAGAAATACTGTGTTGTTGACTTGAAATTCAATATCTTTTCTTTTCAAATCAGCATAATATTTCT
65 CAGAAATACTGTGTCGCCGACTTGAAATTCAATATCTTTTCTTTTCAAATCTGCGTAAGATTTCT
* * * * * *
11514546 TTCGATCCAAAGCTGCATTT-AAGCTCTCACGTATCACTTTGACCATTTATTAGGTTTCTTAAAT
130 GTCGATCCAAAGCTGC-TTTCAAGCTATCACGTATCACTTTGACCTTTTCTTCGGTTTCTCAAAT
* *
11514610 CAAATCAACACTGAATAACTTTTTCTCACTCAGCTCTGTCCAGTATAATCGAATTCGACACTTTC
194 CAAATCAACACCGAATAACTTTTTCTCACTCAGCTCTGTCCAGTATAATGGAATTCGACACTTTC
* * * ** * * * *
11514675 GACCATACAAATCTTTGTC-GAATATGTGGTCTTGAAACCACTATTTCAATTTCACTTAAAATGG
259 GACCATACAAAGCTTCGTCAG-ATTTGTGGTCCCGAAACCACTATTCCGACTTCACTGAAAATGG
* * * * ** * * *
11514739 GTTGTTAAAACTTTTCCCCTAAAATAATTTTCGTCCCCAAAAATCTTACTAGAAAATAAGTTCAA
323 GCTGTTACAACTCTCCCCCTAAAGGAATTTTTGTCCCTAAAAATCTTACCAGAAAATAAGTTCAA
* * *
11514804 GTATTGCACTTTCATAG-TTGCTTCTGGGTCCCAGGCAGCCTCTTCTATTCCATGTGATTGCCAG
388 GTATTGCACTTTCATAGCTT-CTTCTGGTTCCCAGGCAGCCTCTTCTATTCCGTGTCATTGCCAG
* * *
11514868 AGAACTTTAACTAAAGCTATACTTTTA-TTCATTAATTCTTTAACTTCCTGAGCTAAAATTCTGA
452 AGAACTTTAACTAAAGCTATACTTTTATTTC-TCAATTCTTTAACTTCC-GAGCTAGAATTTTGA
* * * * * *
11514932 CCAGTTCTTCACTGTACGTTATATTAGGATAAATTTCAACATCAACTGGGGATATTACGTGTGAA
515 TCGGTTCTTCACTGTACGTCATATCAGGTTGAATTTCAACATCAACTGGGGATATTACGTGTGAA
* *
11514997 GGATCTGATCGGTACCGTCGTAACATCGATACGTGAAATACATTATGAATATTTTCTAACTCTAA
580 GGATCTGATCGATACCGTCGTAACATCGATACGTGGAATACATTATGAATATTTTCTAACTCTAA
* * ** * * *
11515062 CGGCAAAGCTAACTGATAAGCTGTTGGCCCAATTCCCTCAATGATCTCAAACGGCCTA
645 CGACAAAGCTAACCGATAAGCTACTAGCCCAATTCTCTCAATGATCTCAAACGGCCCA
* * *
11515120 ATAAACCATAGACTCAA-CTTTCCTTTTTGGCCAAATCACATAACTTTCTTCCAAGGCAATACTT
1 ATAAACCACAGACT-AAGCTTTCCTTTTCGGCCAAATCA-AGAACTTTCTTCCAAGGCAATACTT
* * * * * * * *
11515184 TTAGATATATTATGTCACCGACTTGAAATTCAATATCTTTTATTTTCAAATCTGTGTAAGATTTT
64 TCAGAAATACTGTGTCGCCGACTTGAAATTCAATATCTTTTCTTTTCAAATCTGCGTAAGATTTC
* * * * *
11515249 TGTCGATCCAAAGTTTCTTTCAAGCAATCACGTATCACTTTGACCTTCTCTTTGGTTTCTCAAAT
129 TGTCGATCCAAAGCTGCTTTCAAGCTATCACGTATCACTTTGACCTTTTCTTCGGTTTCTCAAAT
* ** * * * *
11515314 -AAATTCAACACCGAAAAAAATTTTCTCACTACA-CTTTTTCCAGTATAATAGAATTCGAAACTT
194 CAAA-TCAACACCGAATAACTTTTTCTCACT-CAGCTCTGTCCAGTATAATGGAATTCGACACTT
* * * * * *
11515377 TCGACCATACAAAGCTTCCTCAAATTTGTGGCCCCAAAACTAGC-ATTCCGACTTCACTGAAAAC
257 TCGACCATACAAAGCTTCGTCAGATTTGTGGTCCCGAAACCA-CTATTCCGACTTCACTGAAAAT
* * **
11515441 GGGTTGTTACAACTCTCCTCCTACAA-GAATTTTTGTCCCTGGAAATCTTACCAGAAAATAAGTT
321 GGGCTGTTACAACTCTCCCCCTA-AAGGAATTTTTGTCCCTAAAAATCTTACCAGAAAATAAGTT
* * * * *
11515505 CAAGTATTGCACTTTCATAGCTTCTTCCGGCTGCAAGGCAGCCTCTTCTATTCCGTGTCATTTCC
385 CAAGTATTGCACTTTCATAGCTTCTTCTGGTTCCCAGGCAGCCTCTTCTATTCCGTGTCATTGCC
* * *
11515570 AGAGAAC-TTAACTAAAGCTATACTTTTATTTCTTAATTCTTTAGCTTCACGAGCTAGAATTTTA
450 AGAGAACTTTAACTAAAGCTATACTTTTATTTCTCAATTCTTTAACTTC-CGAGCTAGAATTTTG
* *
11515634 ATCGGTTCTTCACTGTACGTCATATCAAGTAGAATTTCAACATCAACTGGGGATATTACGTGTGA
514 ATCGGTTCTTCACTGTACGTCATATCAGGTTGAATTTCAACATCAACTGGGGATATTACGTGTGA
* * * *
11515699 AGGATCTGATCGATACCATCGTAATATCAATACGTGGAATACATTATGAATCTTTTCTAACTCTA
579 AGGATCTGATCGATACCGTCGTAACATCGATACGTGGAATACATTATGAATATTTTCTAACTCTA
* * * *
11515764 ATGACAAAGCTAACAGATAAGCTACTAGCCCAATTCTCTAAATGATCTCAAACGGCCCG
644 ACGACAAAGCTAACCGATAAGCTACTAGCCCAATTCTCTCAATGATCTCAAACGGCCCA
* * *
11515823 ATAAACCATAGACTAAGCTTTCCTTTTCGGCCAAATCAACGAACTTTCTTCCAAGGAAATACATT
1 ATAAACCACAGACTAAGCTTTCCTTTTCGGCCAAATCAA-GAACTTTCTTCCAAGGCAATACTTT
* ** * *
11515888 CAGAAATACTGTGTCGCCAACTCAAAATTCAATATCTTCTCTTTTCAAATCTGCGTAAGATTTTT
65 CAGAAATACTGTGTCGCCGACTTGAAATTCAATATCTTTTCTTTTCAAATCTGCGTAAGATTTCT
* * *
11515953 GTCGATCCAAAGCTGCTTTCAAGCTATCAAGTATGACTTTGACCTTTTCTTCGGTTTGTCAAATC
130 GTCGATCCAAAGCTGCTTTCAAGCTATCACGTATCACTTTGACCTTTTCTTCGGTTTCTCAAATC
* * * *
11516018 AAATCAACACCGAATAACTTTTTCTCGCTCAGCTTTGTCTAGTATAACGGAATTCGACACTTTCG
195 AAATCAACACCGAATAACTTTTTCTCACTCAGCTCTGTCCAGTATAATGGAATTCGACACTTTCG
* * *
11516083 ACCATACAAAGTTTCGTCAGATTTGTGGTCCTGAAACCACTGTTCCGACTTCACT-ACAAATGGG
260 ACCATACAAAGCTTCGTCAGATTTGTGGTCCCGAAACCACTATTCCGACTTCACTGA-AAATGGG
* * ** * * *
11516147 CTGTTACAACTCTCTCCTTAAAGGAATTTTCATCCCCAAAAATCTTCCCAAAAAATAAGTTCAAG
324 CTGTTACAACTCTCCCCCTAAAGGAATTTTTGTCCCTAAAAATCTTACCAGAAAATAAGTTCAAG
* * * ** * * *
11516212 TATTGTACTTTCATAGCTTATTCTGGTTCCCAGGTAGCCTAATCTATCCCATGTCATTACCAGAG
389 TATTGCACTTTCATAGCTTCTTCTGGTTCCCAGGCAGCCTCTTCTATTCCGTGTCATTGCCAGAG
* * *
11516277 AACTTTAACTAAAG-TATACTTTTATTTCTCAATTCTTTAACTTCCGAGCTACAATTCTGATCGA
454 AACTTTAACTAAAGCTATACTTTTATTTCTCAATTCTTTAACTTCCGAGCTAGAATTTTGATCGG
* *
11516341 TTCTTCACTGTACGTCATATCAGGTTGAATGTCAACATCAACTAGGGATATTACGTGTGAAGGAT
519 TTCTTCACTGTACGTCATATCAGGTTGAATTTCAACATCAACTGGGGATATTACGTGTGAAGGAT
* ** * * * * * *
11516406 CTAATCGATATTGTTGTAACATCGATACATAGAATACATTATGAATTTTTTCTACCTCTGACGAC
584 CTGATCGATACCGTCGTAACATCGATACGTGGAATACATTATGAATATTTTCTAACTCTAACGAC
* ** * * *
11516471 AAAGCTAACCGTTAAGCTACTATTCCAATTCTCTCAATGACCTCAAACAGCCCG
649 AAAGCTAACCGATAAGCTACTAGCCCAATTCTCTCAATGATCTCAAACGGCCCA
11516525 ATAAACCACAGACTAAGCTTTCCATTTT-GGCCAAATCGAAGAACTTTCTTCCAAGGCAATACTT
1 ATAAACCACAGACTAAGCTTTCC-TTTTCGGCCAAATC-AAGAACTTTCTTCCAAGGCAATACTT
*
11516589 TCTA-AAATACTGTG-CTGCCGACTTGAAATTCAATATCTTTTCTTTTCAAATCTGTGTAAGATT
64 TC-AGAAATACTGTGTC-GCCGACTTGAAATTCAATATCTTTTCTTTTCAAATCTGCGTAAGATT
* *
11516652 TCTGTCGTTCCAAAGTTGCTTTCAAGCTATCACGTATCACTTT-ACGCTTTTCTTCGGTTTCTCA
127 TCTGTCGATCCAAAGCTGCTTTCAAGCTATCACGTATCACTTTGAC-CTTTTCTTCGGTTTCTCA
* * * * * * ***
11516716 AATCAAATCAACACCAAATAACTTTTTCTCGCTCAGCTTTTTCTAGTCTAACAAAATTCGACACT
191 AATCAAATCAACACCGAATAACTTTTTCTCACTCAGCTCTGTCCAGTATAATGGAATTCGACACT
* * * * * * *
11516781 GTT-GATGC-TACAAAGATTCGTCAGATATGTGTTCCTGAAACAACTATTCTGACTTCACTGAAA
256 -TTCGA-CCATACAAAGCTTCGTCAGATTTGTGGTCCCGAAACCACTATTCCGACTTCACTGAAA
* * * * * * *
11516844 ACGGGTTGTTACAACTCTCCTCCTAAAGGAATTTTCGTCCCTGACAATCTTACTAGAAAATAAGT
319 ATGGGCTGTTACAACTCTCCCCCTAAAGGAATTTTTGTCCCTAAAAATCTTACCAGAAAATAAGT
* ** * * * *
11516909 TCAAGTATTGCACTTTCATAGCTTATTCCAGTTTCCAGGTAGCCTTTTCTATTCTGTGTCATTGC
384 TCAAGTATTGCACTTTCATAGCTTCTTCTGGTTCCCAGGCAGCCTCTTCTATTCCGTGTCATTGC
* * * *
11516974 CAAAGAACTATAAACTAAAGCTATACTTTTATTTCTCAATGCTTTAACTTCCCGAGCTAGACTTT
449 CAGAGAACT-TTAACTAAAGCTATACTTTTATTTCTCAATTCTTTAACTT-CCGAGCTAGAATTT
* * * *
11517039 TGATCGGTTCTTCAGTGTACGTCATTTCAGGTTGAATTTCAACATCAATTGGGGATACTACGTGT
512 TGATCGGTTCTTCACTGTACGTCATATCAGGTTGAATTTCAACATCAACTGGGGATATTACGTGT
* * * * * * *
11517104 GAAGGTTCTAATCAATACAGTCGTAACATCGATGCGTAGAATACATTATGAATATTTCCTAACTC
577 GAAGGATCTGATCGATACCGTCGTAACATCGATACGTGGAATACATTATGAATATTTTCTAACTC
* * * *
11517169 TAACGAAAAACCTAACCGATAAACTACTAGCCCAATTCTCTCAATGATCTCAAATGGCCCA
642 TAACGACAAAGCTAACCGATAAGCTACTAGCCCAATTCTCTCAATGATCTCAAACGGCCCA
** * * *
11517230 ATAAACCACGGATGGACTAAGCTTTCCTTTTCAACCAAATCAAAGAAATTTCTTCCATGGAAATA
1 ATAAACCAC--A--GACTAAGCTTTCCTTTTCGGCCAAATC-AAGAACTTTCTTCCAAGGCAATA
* * * * * ** * * *
11517295 CTTTGACAAATATTGTGTTGCTGACTCAAAATTCAGTATCTTTTCTTTTCAAATCTGTGAAAGAT
61 CTTTCAGAAATACTGTGTCGCCGACTTGAAATTCAATATCTTTTCTTTTCAAATCTGCGTAAGAT
* * * * * **
11517360 TTCTATTGATCCAAAGCAGTTTTCAAGCTATCACGTATCACTTTGACATTTTCTTCAATTTCTCA
126 TTCTGTCGATCCAAAGCTGCTTTCAAGCTATCACGTATCACTTTGACCTTTTCTTCGGTTTCTCA
* ** * * * **
11517425 AATCAAATCAATACTTAATAACTTTTTCTCACTCAACTCTATCTAGTATAATGGAATTTAACACT
191 AATCAAATCAACACCGAATAACTTTTTCTCACTCAGCTCTGTCCAGTATAATGGAATTCGACACT
** * * * * *
11517490 TTTTACCATAAAAAGCTTCATCAGATTTGTAGTCCCGAAACCATTGTTCCGACTTCACTGAAAAT
256 TTCGACCATACAAAGCTTCGTCAGATTTGTGGTCCCGAAACCACTATTCCGACTTCACTGAAAAT
* * * *
11517555 GGGTTGTTACAACTTTCCCCCTAAAGTAATTTTTGTCCCTAAAAATC-TACAAGAAAATAAGTTC
321 GGGCTGTTACAACTCTCCCCCTAAAGGAATTTTTGTCCCTAAAAATCTTACCAGAAAATAAGTTC
* * ** * ** * *
11517619 AAGTATTACACTTTCATAGCTTCTTCTAGTTCCCAAACAACCTCTTCTATTTTGTGTCGTTACCA
386 AAGTATTGCACTTTCATAGCTTCTTCTGGTTCCCAGGCAGCCTCTTCTATTCCGTGTCATTGCCA
* * * * *
11517684 GAAAAATTTAACTAAAGTTATACTTTTATTTCTCAATTTTTTAACTACCTGAGCTAGAATTTTGA
451 GAGAACTTTAACTAAAGCTATACTTTTATTTCTCAATTCTTTAACTTCC-GAGCTAGAATTTTGA
* * * ** *
11517749 TCAGTTTTTCACTGTACGTCATATCAAGTTGAATTTCAACATCAACAAGGGATATTACTTGTGAA
515 TCGGTTCTTCACTGTACGTCATATCAGGTTGAATTTCAACATCAACTGGGGATATTACGTGTGAA
* * * * *
11517814 GGATCTGATCGATACCGTTGTAACATTGATACGTAGAATACATTATGAATCTTTTCTAACTCTGA
580 GGATCTGATCGATACCGTCGTAACATCGATACGTGGAATACATTATGAATATTTTCTAACTCTAA
* * * *
11517879 TGACAAAGCTAACCGTTAAGCTACTAGCCCAATTCACTCAATGATCTCAAACGGCCCG
645 CGACAAAGCTAACCGATAAGCTACTAGCCCAATTCTCTCAATGATCTCAAACGGCCCA
* * *
11517937 ATAAACCAGAGGCTAAGCTTTCCTTTTCGGCCAAATCAATGAACTTTCTTCGAAGGCAATACTTT
1 ATAAACCACAGACTAAGCTTTCCTTTTCGGCCAAATCAA-GAACTTTCTTCCAAGGCAATACTTT
* * * * *
11518002 TAGAAATTCTGTGTTGCTGACTTGAAATTCAATATCTTTTCTTTTCAAATCTGTGTAAGATTTCT
65 CAGAAATACTGTGTCGCCGACTTGAAATTCAATATCTTTTCTTTTCAAATCTGCGTAAGATTTCT
*
11518067 GTCGATCCAAAGCTGCTTTCAAGCTATCACGTATCACTTTGACCTTTTCTTTGGTTTCTCAAATC
130 GTCGATCCAAAGCTGCTTTCAAGCTATCACGTATCACTTTGACCTTTTCTTCGGTTTCTCAAATC
* * * *
11518132 AAATCAACACCGAATAACTTTTTCTCGCTCACCTCTGTCCAGTAAAATGGAATTCGACACTTTCA
195 AAATCAACACCGAATAACTTTTTCTCACTCAGCTCTGTCCAGTATAATGGAATTCGACACTTTCG
* * * * * * * ** *
11518197 ACCATACAAAGATTTGTTAGATTTGTGGACTCGAAGCCACTGTTCTAACTTCATTGAAAATGGGC
260 ACCATACAAAGCTTCGTCAGATTTGTGGTCCCGAAACCACTATTCCGACTTCACTGAAAATGGGC
* *
11518262 TGTTACAACTCTCCCCCTAAAGGAATTTTTGTCACTAAAAATCTTACCAGAAGATAAGTTCAAGT
325 TGTTACAACTCTCCCCCTAAAGGAATTTTTGTCCCTAAAAATCTTACCAGAAAATAAGTTCAAGT
* * *
11518327 ATTGCACTTTCATAGCTTCTTCTAGTTCCCAAGCAACCTCTTCTA
390 ATTGCACTTTCATAGCTTCTTCTGGTTCCCAGGCAGCCTCTTCTA
11518372 CTTTTAATTT
Statistics
Matches: 3996, Mismatches: 607, Indels: 122
0.85 0.13 0.03
Matches are distributed among these distances:
701 3 0.00
702 581 0.15
703 1154 0.29
704 861 0.22
705 197 0.05
706 3 0.00
707 221 0.06
708 472 0.12
709 502 0.13
710 2 0.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (702 bp):
ATAAACCACAGACTAAGCTTTCCTTTTCGGCCAAATCAAGAACTTTCTTCCAAGGCAATACTTTC
AGAAATACTGTGTCGCCGACTTGAAATTCAATATCTTTTCTTTTCAAATCTGCGTAAGATTTCTG
TCGATCCAAAGCTGCTTTCAAGCTATCACGTATCACTTTGACCTTTTCTTCGGTTTCTCAAATCA
AATCAACACCGAATAACTTTTTCTCACTCAGCTCTGTCCAGTATAATGGAATTCGACACTTTCGA
CCATACAAAGCTTCGTCAGATTTGTGGTCCCGAAACCACTATTCCGACTTCACTGAAAATGGGCT
GTTACAACTCTCCCCCTAAAGGAATTTTTGTCCCTAAAAATCTTACCAGAAAATAAGTTCAAGTA
TTGCACTTTCATAGCTTCTTCTGGTTCCCAGGCAGCCTCTTCTATTCCGTGTCATTGCCAGAGAA
CTTTAACTAAAGCTATACTTTTATTTCTCAATTCTTTAACTTCCGAGCTAGAATTTTGATCGGTT
CTTCACTGTACGTCATATCAGGTTGAATTTCAACATCAACTGGGGATATTACGTGTGAAGGATCT
GATCGATACCGTCGTAACATCGATACGTGGAATACATTATGAATATTTTCTAACTCTAACGACAA
AGCTAACCGATAAGCTACTAGCCCAATTCTCTCAATGATCTCAAACGGCCCA
Found at i:11519777 original size:701 final size:697
Alignment explanation
Indices: 11518370--11520493 Score: 2634
Period size: 701 Copynumber: 3.0 Consensus size: 697
11518360 CAACCTCTTC
* *
11518370 TACTTTTAATTT-TCAATTTTTTAACTTCCCGAGCTAGAATTCTGATCGGTTCTTCACTGTACAT
1 TACTTTT-ATTTCTCAATTCTTTAACTTCCCGAGCTAGAATTCTGATCGGTTCTTCACTGTACGT
* * * * * * *
11518434 CATATCAGGTTGAATTTCAGCATAAACTAGGGATATTATGAGTGAAGAATCTGATCGATACCGTC
65 CATATCAGGTTGAATTTCAACATCAACTGGGGATATTACGTGTGAAGGATCTGATCGATACCATC
* * **
11518499 GCAACATCGAGACGTGGAATACATTATGAATCTTTTCTAACTCTGATGATAAAGCTAACTGATAA
130 GTAACATCGATACGTGGAATACATTATGAATCTTTTCTAACTCTGATGGCAAAGCTAACTGATAA
* * * *
11518564 GCTACTGGCCC-ATTCTTTCAATAATCTCAAATGGCCTGATAAACCAAGGGCTAAGCTTTCCTTT
195 GCTACTGACCCAATTCTCTCAATAATCTCAAATGGCC-GATAAACCACGGACTAAGCTTT-C-TT
* * * * * * *
11518628 TTGGCCACATTGAA-GAACTTTCTTCCAAGGTAATACTTTTAGAAATGCTGTGTCGCCTACTTGA
257 TT-GCCA-AATCAATGAACTTTCTTCCAAGGCAATACTTTCAAAAATACTGTGTCGCCGACTTGA
* * * * * * *
11518692 AATTTAATATATTTTCGTTTCAAATCTGCGTAAGATTTCTATTGATCCAAAGCCACTTTCAAGCT
320 AATTCAATAT-TTTTCTTTTCAAATCTGCGTAAAATTTTTGTCGATCCAAAGCCGCTTTCAAGCT
* *
11518757 ATCACATATCACTTTGACATTTTCATTAGTTTCTCAAATCAAATCAACA-TCGAATAAC-TTTTC
384 ATCACGTATCATTTTGACATTTTC-TTAGTTTCTCAAATCAAATCAACACT-GAATAACTTTTTC
* * * * * *
11518820 ACACTCAACACTAT-TGAGTATAACGGGATTCGACACTTTTGACCATACAAAACTTCGTCAAATT
447 TCGCTCAACTCTGTCT-AGTATAACGGAATTCGACACTTTTGACCATACAAAGCTTCGTCAAATT
* * * * *
11518884 TATGGTCCCGAAACCACTGTTTTAACTTCACTGAAAACGGGCTATTACAACTCTCCCCCTAAAGG
511 TGTGGTCTCGAAACCACTGTTTT-ATTTCACTGAAAACGGGTTGTTACAACTCTCCCCCTAAAGG
*
11518949 AAATTCCGTCCCTAAAAATCTTACCAGAAAATAAGTTCAAGTATTGCACTTTCATA--TTTTATT
575 AAATTCCGTCCCTAAAAATCTTACCAGAAAATAAGTTCAAGTATTGCACTTTCATAGCTTCT-TT
* * * * * *
11519012 CTGGTTCCCAGGCAGTCTATTCTATT-CTGTGTCGTTACTAGAGAACTTTATCTAAAGTTA
639 C-GGTTCCCAGGCAGCCTCTTCTATTCCT-TGTCGTTGCCAGAGAACTTTAACTAAAGCTA
* * * *
11519072 TACTTTTATTTCTCAATTCATTAACTACCCGAGCTAGAATTTTGATCGGTTCTTCACTATACGTC
1 TACTTTTATTTCTCAATTCTTTAACTTCCCGAGCTAGAATTCTGATCGGTTCTTCACTGTACGTC
* * * *
11519137 ATATCAAGTTGAATTTCAACATCAACTGGGGATATTACGTGTGAAGGATCTGATCAACACCATTG
66 ATATCAGGTTGAATTTCAACATCAACTGGGGATATTACGTGTGAAGGATCTGATCGATACCATCG
* * *
11519202 TAACATCGATACGTGGAATACATTATGAATATTTTCTAACTCCGACGGCAAAGCTAACTGATAAG
131 TAACATCGATACGTGGAATACATTATGAATCTTTTCTAACTCTGATGGCAAAGCTAACTGATAAG
* *
11519267 CTACTGACCCAATTCTCTCAATAATCTCAAATGGCTCGATAAACCTCGGATTAAGCTTT-TTTTC
196 CTACTGACCCAATTCTCTCAATAATCTCAAATGGC-CGATAAACCACGGACTAAGCTTTCTTTT-
* *
11519331 AGCCAAATCAATGTACTTTCTTCCAAGGCAATACTTTCAAAAATATTGTGTCGCCGACTTGAAAT
259 -GCCAAATCAATGAACTTTCTTCCAAGGCAATACTTTCAAAAATACTGTGTCGCCGACTTGAAAT
* * * *
11519396 TCAATATCTTTTCTTTTCAAATCTGCATAAAATTTTTGTCGATCCATAGCTGCTTTCAAGCTATA
323 TCAATAT-TTTTCTTTTCAAATCTGCGTAAAATTTTTGTCGATCCAAAGCCGCTTTCAAGCTATC
* * *
11519461 ACGTTTCATTTTGACATTTTCTTCGATTTCTCAAATCAAATCAACACTGAATAACTTTTTCTTGC
387 ACGTATCATTTTGACATTTTCTTAG-TTTCTCAAATCAAATCAACACTGAATAACTTTTTCTCGC
* * * * * ***
11519526 TCAGCTCTGTCTAGTATAATGGAATTCTACACTTTCGACCATACAAAGCTTCATTGGATTTGTGG
451 TCAACTCTGTCTAGTATAACGGAATTCGACACTTTTGACCATACAAAGCTTCGTCAAATTTGTGG
* * * * ** *
11519591 TCTCAAAACCATTATTTTGATTTCACTGAAAAGGGGTTGTTACAAAACTCCCCCTAAA-GAATTT
516 TCTCGAAACCACTGTTTT-ATTTCACTGAAAACGGGTTGTTACAACTCTCCCCCTAAAGGAAATT
* * * *
11519655 TCG-GCCTCAAAAATCTTACCAGAAAATATGTTCAAGTATTGCACTCTCATAGCTTCTTTCGGTT
580 CCGTCCCT-AAAAATCTTACCAGAAAATAAGTTCAAGTATTGCACTTTCATAGCTTCTTTCGGTT
*
11519719 CCCACGCAGCCTCTTCTATTCCTTGTCGTTGCCAGAGAACTTTAACTAAAGCTA
644 CCCAGGCAGCCTCTTCTATTCCTTGTCGTTGCCAGAGAACTTTAACTAAAGCTA
* * *
11519773 TACTTTTATTTCTCAATTCTTTAACTTCTCC-TGCAAGAATTCTGATCGGTTCGTCACTGTACGT
1 TACTTTTATTTCTCAATTCTTTAACTTC-CCGAGCTAGAATTCTGATCGGTTCTTCACTGTACGT
* * * *
11519837 CATATCAGGTTGAATTTCCACATCAATTGGGGATATTACATCTGAAGGATCTGATCGATACCATC
65 CATATCAGGTTGAATTTCAACATCAACTGGGGATATTACGTGTGAAGGATCTGATCGATACCATC
* *
11519902 GTAACATCGATACGTGGAATACATTATTATTCTTTTCTAACTCTGATGGCAAAGCTAA-TGATAA
130 GTAACATCGATACGTGGAATACATTATGAATCTTTTCTAACTCTGATGGCAAAGCTAACTGATAA
* * * *
11519966 GCTACTGACCCAATTCTCTAAATGATCTTAAATGGCCCGATAAACCACAGACTAAGCTTTCAGTT
195 GCTACTGACCCAATTCTCTCAATAATCTCAAATGG-CCGATAAACCACGGACTAAGCTTTC--TT
* *
11520031 TTGCCCAAATCAAAT-AACTTTCTTCCAAGGCAATACTTTCAAAAATACTATGTCGCTGACTTGA
257 TTG-CCAAATC-AATGAACTTTCTTCCAAGGCAATACTTTCAAAAATACTGTGTCGCCGACTTGA
* * * *
11520095 AATTC-A-A-TTTT-TTTTCAAATCAGCGT-AAGTTTTTGTCGATCCAAACCCGATTTCAAGCTA
320 AATTCAATATTTTTCTTTTCAAATCTGCGTAAAATTTTTGTCGATCCAAAGCCGCTTTCAAGCTA
* * * **
11520155 TCACGTATCATTTTGACCTTCTTCTTTGGTTTCTCGAATCAAATCAACACCAAATAACTTTTTTC
385 TCACGTATCATTTTGACATT-TTC-TTAGTTTCTCAAATCAAATCAACACTGAATAAC-TTTTTC
*
11520220 TCGCTCAACTCTGTCCAGTATAACGGAATTCGACACTTTTGACCATACAAAGCTTCGTCAAATTT
447 TCGCTCAACTCTGTCTAGTATAACGGAATTCGACACTTTTGACCATACAAAGCTTCGTCAAATTT
* * * * **
11520285 GTGGTATCGAAACCACTGTCTCTATTTCATTGAAAACAGGTTGTTACAACTCTTACCCTAAAGGA
512 GTGGTCTCGAAACCACTGT-TTTATTTCACTGAAAACGGGTTGTTACAACTCTCCCCCTAAAGGA
* * * *
11520350 AATTCCATCCCTAAAAACCTTACCAGAAAATAACTTCAAGTATTGCACTTTCATAGCTTCTTCCG
576 AATTCCGTCCCTAAAAATCTTACCAGAAAATAAGTTCAAGTATTGCACTTTCATAGCTTCTTTCG
* *
11520415 ATTCCCAGGCAGCCTCTTCTATTCCATGTCAG-TGCCAGAGAACTTTAACTAAAGCTA
641 GTTCCCAGGCAGCCTCTTCTATTCCTTGTC-GTTGCCAGAGAACTTTAACTAAAGCTA
*
11520472 TAATTTTATTTCTCAATTCTTT
1 TACTTTTATTTCTCAATTCTTT
11520494 TATTCCGTGT
Statistics
Matches: 1220, Mismatches: 175, Indels: 57
0.84 0.12 0.04
Matches are distributed among these distances:
696 46 0.04
697 42 0.03
698 115 0.09
699 129 0.11
700 77 0.06
701 415 0.34
702 343 0.28
703 52 0.04
704 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.34
Consensus pattern (697 bp):
TACTTTTATTTCTCAATTCTTTAACTTCCCGAGCTAGAATTCTGATCGGTTCTTCACTGTACGTC
ATATCAGGTTGAATTTCAACATCAACTGGGGATATTACGTGTGAAGGATCTGATCGATACCATCG
TAACATCGATACGTGGAATACATTATGAATCTTTTCTAACTCTGATGGCAAAGCTAACTGATAAG
CTACTGACCCAATTCTCTCAATAATCTCAAATGGCCGATAAACCACGGACTAAGCTTTCTTTTGC
CAAATCAATGAACTTTCTTCCAAGGCAATACTTTCAAAAATACTGTGTCGCCGACTTGAAATTCA
ATATTTTTCTTTTCAAATCTGCGTAAAATTTTTGTCGATCCAAAGCCGCTTTCAAGCTATCACGT
ATCATTTTGACATTTTCTTAGTTTCTCAAATCAAATCAACACTGAATAACTTTTTCTCGCTCAAC
TCTGTCTAGTATAACGGAATTCGACACTTTTGACCATACAAAGCTTCGTCAAATTTGTGGTCTCG
AAACCACTGTTTTATTTCACTGAAAACGGGTTGTTACAACTCTCCCCCTAAAGGAAATTCCGTCC
CTAAAAATCTTACCAGAAAATAAGTTCAAGTATTGCACTTTCATAGCTTCTTTCGGTTCCCAGGC
AGCCTCTTCTATTCCTTGTCGTTGCCAGAGAACTTTAACTAAAGCTA
Found at i:11526568 original size:43 final size:43
Alignment explanation
Indices: 11526501--11526629 Score: 177
Period size: 43 Copynumber: 3.0 Consensus size: 43
11526491 TTTTTTTAGG
*
11526501 CCTTTAGCGGCGCTTTCCCCAAAAACGCCGCTAAAGATCATGA
1 CCTTTAGCGGCGCTTTCCCAAAAAACGCCGCTAAAGATCATGA
** * *
11526544 CCTTTAGCGGCGCTTTCCTTAAAAACGCCGCTAAAGAACAAGA
1 CCTTTAGCGGCGCTTTCCCAAAAAACGCCGCTAAAGATCATGA
** * *
11526587 CCTTTAGCGAAGCTTTCCCAAAAAACGCCGTTAAAGGTCATGA
1 CCTTTAGCGGCGCTTTCCCAAAAAACGCCGCTAAAGATCATGA
11526630 AAAATTTTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 74 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (43 bp):
CCTTTAGCGGCGCTTTCCCAAAAAACGCCGCTAAAGATCATGA
Found at i:11530498 original size:14 final size:14
Alignment explanation
Indices: 11530465--11530491 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11530455 TTGTTGAAAT
11530465 ATCTTTCCCCCCTC
1 ATCTTTCCCCCCTC
11530479 ATCTTTCCCCCCT
1 ATCTTTCCCCCCT
11530492 TTTCTTTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.56, G:0.00, T:0.37
Consensus pattern (14 bp):
ATCTTTCCCCCCTC
Found at i:11532034 original size:40 final size:41
Alignment explanation
Indices: 11531969--11532289 Score: 163
Period size: 41 Copynumber: 7.9 Consensus size: 41
11531959 TGAATCCATG
* * *
11531969 AGCATTAGCGGCGCTT-TTTAGAAAACGCCACTAAAAAT-AA
1 AGCATTAGCGGCGCTTCCTCA-AAAACGCCGCTAAAAATCAA
**
11532009 AGCATTAGCGGCGCTTCCTCAAAAACGCCGCT--AAATCCC
1 AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAAATCAA
* **
11532048 TGTTCATTAGCGGCGCTTCCTCAAAAACGCCGCT--AAATCCC
1 AG--CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAAATCAA
* * * * * *** *
11532089 TGTTCATTAGAGGCTCTTCTTCAAAAATGCCGCTAAAGCCCTA
1 AG--CATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAAATCAA
* * * * *** **
11532132 AGAATTTGTGGCGCTTCCCCAAAAACGCCGCTAAAGCCCCG
1 AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAAATCAA
* *** *
11532173 AGCATTAGCGGCGCTTTCC-CAAAAACGCCACTAAAGCCCCA
1 AGCATTAGCGGCGC-TTCCTCAAAAACGCCGCTAAAAATCAA
* * *** **
11532214 AGCATTAGCGGCGCTTCCCCAGAAACGCCGCTAAAGCCCTG
1 AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAAATCAA
* *
11532255 AGCATTAGCGGTGCTTCC-CTAAAAACACCGCTAAA
1 AGCATTAGCGGCGCTTCCTC-AAAAACGCCGCTAAA
11532290 GCCCCGAAAG
Statistics
Matches: 235, Mismatches: 37, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
38 4 0.02
39 1 0.00
40 31 0.13
41 192 0.82
42 4 0.02
43 3 0.01
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAAATCAA
Found at i:11532064 original size:41 final size:41
Alignment explanation
Indices: 11532009--11532293 Score: 331
Period size: 41 Copynumber: 7.0 Consensus size: 41
11531999 CTAAAAATAA
*
11532009 AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCTG
1 AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTG
** *
11532050 TTCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAATCCCTG
1 AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTG
** * * * * *
11532091 TTCATTAGAGGCTCTTCTTCAAAAATGCCGCTAAAGCCCTA
1 AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTG
* * * * *
11532132 AGAATTTGTGGCGCTTCCCCAAAAACGCCGCTAAAGCCCCG
1 AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTG
* **
11532173 AGCATTAGCGGCGCTTTCC-CAAAAACGCCACTAAAGCCCCA
1 AGCATTAGCGGCGC-TTCCTCAAAAACGCCGCTAAAGCCCTG
* *
11532214 AGCATTAGCGGCGCTTCCCCAGAAACGCCGCTAAAGCCCTG
1 AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTG
* *
11532255 AGCATTAGCGGTGCTTCC-CTAAAAACACCGCTAAAGCCC
1 AGCATTAGCGGCGCTTCCTC-AAAAACGCCGCTAAAGCCC
11532294 CGAAAGCTCA
Statistics
Matches: 210, Mismatches: 31, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
40 5 0.02
41 201 0.96
42 4 0.02
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.20
Consensus pattern (41 bp):
AGCATTAGCGGCGCTTCCTCAAAAACGCCGCTAAAGCCCTG
Found at i:11532438 original size:41 final size:38
Alignment explanation
Indices: 11532349--11532440 Score: 94
Period size: 40 Copynumber: 2.3 Consensus size: 38
11532339 GCGTTTTGGA
* * *
11532349 AAACGCCGCTAATGCTTATTTTTAGCAGTGTTTTCCAT
1 AAACGCCGCTAATGCTGATCTTTAGCAGCGTTTTCCAT
* * *
11532387 AAAGCCCCGCTAATGCTCGATCTTTAGCGGCGTTTTTCAT
1 AAA-CGCCGCTAATGCT-GATCTTTAGCAGCGTTTTCCAT
11532427 CCAAACGCCGCTAA
1 --AAACGCCGCTAA
11532441 AAATGCCGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
38 3 0.07
39 12 0.28
40 17 0.40
41 8 0.19
42 3 0.07
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (38 bp):
AAACGCCGCTAATGCTGATCTTTAGCAGCGTTTTCCAT
Found at i:11571824 original size:21 final size:22
Alignment explanation
Indices: 11571798--11571841 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11571788 CTTCATTTTT
*
11571798 AAAAATTAA-TTTTAATTGTTA
1 AAAAATAAATTTTTAATTGTTA
*
11571819 AAAAATAAATTTTTAATTTTTA
1 AAAAATAAATTTTTAATTGTTA
11571841 A
1 A
11571842 TTTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAAATAAATTTTTAATTGTTA
Found at i:11573096 original size:102 final size:102
Alignment explanation
Indices: 11572915--11573126 Score: 381
Period size: 102 Copynumber: 2.1 Consensus size: 102
11572905 TTTATTTTTA
**
11572915 AAAATAAATTTTAATTGTTAAAAAATAAATTTTTTATTTTTAATTTTAAAAAATCGCTAAATTGG
1 AAAA-AAATTTTAATTGTTAAAAAATAAATTTTTTATTTTTAATTTTAAAAAATCGCTAAATCAG
11572980 TGTTGGAACATACCTCTATGGTATAGGCCCTCCTGGTG
65 TGTTGGAACATACCTCTATGGTATAGGCCCTCCTGGTG
11573018 AAAAAAATTTTAATTG-TAAAAAATAAATTTTTTTATTTTTAATTTTAAAAAATCGCTAAATCAG
1 AAAAAAATTTTAATTGTTAAAAAATAAA-TTTTTTATTTTTAATTTTAAAAAATCGCTAAATCAG
11573082 TGTTGGAACATACCTCTATGGTATAGGCCCTCCTGGTG
65 TGTTGGAACATACCTCTATGGTATAGGCCCTCCTGGTG
11573120 AAAAAAA
1 AAAAAAA
11573127 AATTAGCTAT
Statistics
Matches: 106, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
101 11 0.10
102 91 0.86
103 4 0.04
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.38
Consensus pattern (102 bp):
AAAAAAATTTTAATTGTTAAAAAATAAATTTTTTATTTTTAATTTTAAAAAATCGCTAAATCAGT
GTTGGAACATACCTCTATGGTATAGGCCCTCCTGGTG
Found at i:11580598 original size:21 final size:20
Alignment explanation
Indices: 11580560--11580599 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
11580550 CAACATCTTC
* *
11580560 ATTTTTAAAAATTAATTTTA
1 ATTTTCAAAAAATAATTTTA
11580580 ATTTTCAAAAAATAGATTTT
1 ATTTTCAAAAAATA-ATTTT
11580600 TTATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
ATTTTCAAAAAATAATTTTA
Found at i:11583170 original size:3 final size:3
Alignment explanation
Indices: 11583162--11583226 Score: 116
Period size: 3 Copynumber: 22.3 Consensus size: 3
11583152 GTTCCCCTGC
11583162 ACA ACA ACA A-A A-A ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA
11583208 ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA A
11583227 ACCCCATGTA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 4 0.07
3 57 0.93
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:11585280 original size:16 final size:15
Alignment explanation
Indices: 11585246--11585291 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
11585236 ATAAAAGACT
* *
11585246 AATAATAATAATAAT
1 AATAATAACAATAAA
*
11585261 AATAATGACCAATAAA
1 AATAAT-AACAATAAA
11585277 AATAATAACAATAAA
1 AATAATAACAATAAA
11585292 TCAATTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (15 bp):
AATAATAACAATAAA
Found at i:11589616 original size:3 final size:3
Alignment explanation
Indices: 11589608--11589639 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
11589598 ATTCCCCTCC
11589608 ACA ACA ACA A-A A-A ACA ACA ACA ACA ACA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
11589640 AAAACCCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.14
3 24 0.86
ACGTcount: A:0.72, C:0.28, G:0.00, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:11593633 original size:17 final size:17
Alignment explanation
Indices: 11593611--11593646 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11593601 ATGCACTAAC
*
11593611 ATAAAAATATAATGACA
1 ATAAAAATACAATGACA
*
11593628 ATAAAAATGCAATGACA
1 ATAAAAATACAATGACA
11593645 AT
1 AT
11593647 GTGTACTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.22
Consensus pattern (17 bp):
ATAAAAATACAATGACA
Found at i:11594054 original size:5 final size:6
Alignment explanation
Indices: 11594036--11594061 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11594026 AATCTTCCTC
11594036 TTCTTT TTCTTT TTCTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TT
11594062 TTCATCATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTCTTT
Found at i:11594099 original size:21 final size:21
Alignment explanation
Indices: 11594073--11594126 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
11594063 TCATCATCAA
* **
11594073 CAACTTCTTCTTTTTTAGCAG
1 CAACTTCTTCTTCTACAGCAG
*
11594094 CAACTTCCTCTTCTACAGCAG
1 CAACTTCTTCTTCTACAGCAG
11594115 CAACTTCCTTCT
1 CAACTT-CTTCT
11594127 CAACAATAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.39
Consensus pattern (21 bp):
CAACTTCTTCTTCTACAGCAG
Found at i:11615908 original size:21 final size:23
Alignment explanation
Indices: 11615865--11615912 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
11615855 TTTTTTCAAC
*
11615865 ATAAATATTAATTATTAATTTAA
1 ATAAATATAAATTATTAATTTAA
*
11615888 ATAAAT-TAAATTTTTAA-TTAA
1 ATAAATATAAATTATTAATTTAA
11615909 ATAA
1 ATAA
11615913 TTTTCTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 9 0.39
23 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAAATATAAATTATTAATTTAA
Found at i:11623032 original size:31 final size:30
Alignment explanation
Indices: 11622997--11623140 Score: 162
Period size: 31 Copynumber: 4.6 Consensus size: 30
11622987 AGGCATCAAC
* *
11622997 CATTCATATTTACATATTCTTACCTTGTAAT
1 CATTCATATTT-CATATTCATACCCTGTAAT
* *
11623028 CATTCATACTTTCATAGTCATGCCCTGTAAT
1 CATTCATA-TTTCATATTCATACCCTGTAAT
* *
11623059 CATTCATATTTTCATATTCACACCTTGTAAT
1 CATTCATA-TTTCATATTCATACCCTGTAAT
* *
11623090 CATTCATACTTTTATATACATACCCTGTAAT
1 CATTCATA-TTTCATATTCATACCCTGTAAT
*
11623121 CATTCATATTTTTATATTCA
1 CATTCATA-TTTCATATTCA
11623141 CACCATGCAT
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
31 93 0.97
32 3 0.03
ACGTcount: A:0.29, C:0.22, G:0.04, T:0.45
Consensus pattern (30 bp):
CATTCATATTTCATATTCATACCCTGTAAT
Found at i:11623065 original size:62 final size:62
Alignment explanation
Indices: 11622997--11623144 Score: 217
Period size: 62 Copynumber: 2.4 Consensus size: 62
11622987 AGGCATCAAC
** *
11622997 CATTCATATTTACATATTCTTACCTTGTAATCATTCATACTTTCATAGT-CATGCCCTGTAAT
1 CATTCATATTTACATATTCACACCTTGTAATCATTCATACTTTCATA-TACATACCCTGTAAT
* *
11623059 CATTCATATTTTCATATTCACACCTTGTAATCATTCATACTTTTATATACATACCCTGTAAT
1 CATTCATATTTACATATTCACACCTTGTAATCATTCATACTTTCATATACATACCCTGTAAT
**
11623121 CATTCATATTTTTATATTCACACC
1 CATTCATATTTACATATTCACACC
11623145 ATGCATTATC
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
61 1 0.01
62 78 0.99
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (62 bp):
CATTCATATTTACATATTCACACCTTGTAATCATTCATACTTTCATATACATACCCTGTAAT
Found at i:11623180 original size:5 final size:5
Alignment explanation
Indices: 11623167--11623226 Score: 57
Period size: 5 Copynumber: 11.2 Consensus size: 5
11623157 ATATCAATCA
* * *
11623167 TCAATT TCATT TCAAT TCAAT TCAAT TCAAT TCAAC TCATAT GCAATT
1 TCAA-T TCAAT TCAAT TCAAT TCAAT TCAAT TCAAT TCA-AT TCAA-T
11623215 TCACAT TCAAT T
1 TCA-AT TCAAT T
11623227 TCATAATCTC
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
5 31 0.69
6 13 0.29
7 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.02, T:0.42
Consensus pattern (5 bp):
TCAAT
Found at i:11624727 original size:9 final size:9
Alignment explanation
Indices: 11624709--11624745 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11624699 NNNNNNNNNA
*
11624709 TATTCAAAT
1 TATTCGAAT
11624718 TATTCGAAT
1 TATTCGAAT
*
11624727 TATTCGAGT
1 TATTCGAAT
11624736 TATTCGAAT
1 TATTCGAAT
11624745 T
1 T
11624746 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11624815 original size:9 final size:9
Alignment explanation
Indices: 11624798--11624828 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11624788 TCGAGTTGAT
11624798 TCGAATAAC
1 TCGAATAAC
*
11624807 TCGATTAAC
1 TCGAATAAC
11624816 TCGAATAAC
1 TCGAATAAC
11624825 TCGA
1 TCGA
11624829 TTCGTTTAAC
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:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:11629101 original size:15 final size:16
Alignment explanation
Indices: 11629061--11629103 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
11629051 TTATTTAATT
*
11629061 ATTAATTAACATGATA
1 ATTAATTAACTTGATA
11629077 A-TATATTAACTTGA-A
1 ATTA-ATTAACTTGATA
11629092 ATTAATTAACTT
1 ATTAATTAACTT
11629104 ACAAATATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (16 bp):
ATTAATTAACTTGATA
Found at i:11629267 original size:58 final size:59
Alignment explanation
Indices: 11629200--11629319 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 59
11629190 TTTTAAAATT
11629200 ATACATTTTAATTAAAT-AATATAAATTTTATTTTATTTTAAATATGATAATGCTAAGA
1 ATACATTTTAATTAAATAAATATAAATTTTATTTTATTTTAAATATGATAATGCTAAGA
* *
11629258 ATACATTTTAGTTAAATAAATATAAATTTTATTTTATTTTAAATATGATCATGCTAAGA
1 ATACATTTTAATTAAATAAATATAAATTTTATTTTATTTTAAATATGATAATGCTAAGA
11629317 ATA
1 ATA
11629320 ACACCGTAGT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 16 0.27
59 43 0.73
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (59 bp):
ATACATTTTAATTAAATAAATATAAATTTTATTTTATTTTAAATATGATAATGCTAAGA
Found at i:11632593 original size:6 final size:6
Alignment explanation
Indices: 11632582--11632610 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
11632572 AAATAAAATT
11632582 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
11632611 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:11632664 original size:9 final size:9
Alignment explanation
Indices: 11632650--11632725 Score: 91
Period size: 9 Copynumber: 8.4 Consensus size: 9
11632640 ATAGTGATTC
11632650 AATTCGGTT
1 AATTCGGTT
*
11632659 AATTCGGGT
1 AATTCGGTT
*
11632668 AATTTGGTT
1 AATTCGGTT
11632677 AATTCAGG-T
1 AATTC-GGTT
11632686 AATTCGGTT
1 AATTCGGTT
*
11632695 AATTCGGGT
1 AATTCGGTT
*
11632704 AATTAGGTT
1 AATTCGGTT
*
11632713 AAGTCGGTT
1 AATTCGGTT
11632722 AATT
1 AATT
11632726 TTTAACCAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
8 2 0.04
9 51 0.93
10 2 0.04
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11632676 original size:18 final size:18
Alignment explanation
Indices: 11632650--11632725 Score: 107
Period size: 18 Copynumber: 4.2 Consensus size: 18
11632640 ATAGTGATTC
11632650 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
* *
11632668 AATTTGGTTAATTCAGGT
1 AATTCGGTTAATTCGGGT
11632686 AATTCGGTTAATTCGGGT
1 AATTCGGTTAATTCGGGT
* * *
11632704 AATTAGGTTAAGTCGGTT
1 AATTCGGTTAATTCGGGT
11632722 AATT
1 AATT
11632726 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.41
Consensus pattern (18 bp):
AATTCGGTTAATTCGGGT
Found at i:11632725 original size:36 final size:36
Alignment explanation
Indices: 11632650--11632725 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
11632640 ATAGTGATTC
* *
11632650 AATTCGGTTAATTCGGGTAATTTGGTTAATTCAGGT
1 AATTCGGTTAATTCGGGTAATTAGGTTAAGTCAGGT
11632686 AATTCGGTTAATTCGGGTAATTAGGTTAAGTC-GGTT
1 AATTCGGTTAATTCGGGTAATTAGGTTAAGTCAGG-T
11632722 AATT
1 AATT
11632726 TTTAACCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
35 2 0.05
36 35 0.95
ACGTcount: A:0.26, C:0.08, G:0.25, T:0.41
Consensus pattern (36 bp):
AATTCGGTTAATTCGGGTAATTAGGTTAAGTCAGGT
Found at i:11633875 original size:23 final size:22
Alignment explanation
Indices: 11633811--11633885 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
11633801 TTTACGGTGC
11633811 TCTCATACGTCCC-CCAAGGGGA
1 TCTCATACGTCCCACCAA-GGGA
* **
11633833 TCTCAAACGTCCCATGAAGGGA
1 TCTCATACGTCCCACCAAGGGA
* *
11633855 TCTTATACGTCCCACACAAGGGGC
1 TCTCATACGTCCCAC-CAA-GGGA
11633879 TCTCATA
1 TCTCATA
11633886 TACAGGTGCA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
22 28 0.68
23 4 0.10
24 9 0.22
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.21
Consensus pattern (22 bp):
TCTCATACGTCCCACCAAGGGA
Found at i:11635990 original size:21 final size:21
Alignment explanation
Indices: 11635920--11635991 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
11635910 AGGTTAGATA
*
11635920 ATAATTTAGA-TTTTAATTAAG
1 ATAA-TTAGATTTTTAATTTAG
* *
11635941 ATAATTAGGAGTTTAAATAAATTAGG
1 ATAATTA-GA-TTT--TTAATTTA-G
11635967 ATAATTAGATTTTTAATTTAG
1 ATAATTAGATTTTTAATTTAG
11635988 ATAA
1 ATAA
11635992 GATAATTAGG
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
20 3 0.08
21 11 0.28
22 6 0.15
23 2 0.05
24 3 0.08
25 7 0.17
26 8 0.20
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.43
Consensus pattern (21 bp):
ATAATTAGATTTTTAATTTAG
Found at i:11636039 original size:52 final size:49
Alignment explanation
Indices: 11635908--11636076 Score: 151
Period size: 52 Copynumber: 3.3 Consensus size: 49
11635898 TTTTAAATTG
* *
11635908 ATAGGTTAGATAATAATTTAGATTTTA-ATTAAGATAATTAGGAGTTTAA
1 ATAGATTAGATAATAATTTAGATTTTAGA-TAAGATAATTAGGACTTTAA
* ** * *
11635957 ATAAATTAGGATAATTAGATTTTTAATTTAGATAAGATAATTAGGAACTTCATTA
1 ATAGATTA-GATAA-TA-ATTTAGATTTTAGATAAGATAATTAGG-ACTT--TAA
* * *
11636012 ATAGATTAGATAATAATTTAGATTTTAGTTAAGATAATTAGAAGTTTAA
1 ATAGATTAGATAATAATTTAGATTTTAGATAAGATAATTAGGACTTTAA
*
11636061 ATTAAATTAGGATAAT
1 A-TAGATTA-GATAAT
11636077 TAAAGTTCTA
Statistics
Matches: 95, Mismatches: 16, Indels: 16
0.75 0.13 0.13
Matches are distributed among these distances:
49 9 0.09
50 11 0.12
51 11 0.12
52 44 0.46
53 6 0.06
54 5 0.05
55 9 0.09
ACGTcount: A:0.44, C:0.01, G:0.14, T:0.40
Consensus pattern (49 bp):
ATAGATTAGATAATAATTTAGATTTTAGATAAGATAATTAGGACTTTAA
Found at i:11636159 original size:107 final size:106
Alignment explanation
Indices: 11635867--11636272 Score: 530
Period size: 107 Copynumber: 3.8 Consensus size: 106
11635857 TATATTATGA
* * * * *
11635867 TAGAGGTTTAATTTAGTTAAGATAATTAAGATTTTAAATTGATAGGTTAGATAATAATTTAGATT
1 TAGAGTTTTAATTTATTTAAGATAATTAATAATTTAAATTAATAGGTTAGATAATAATTTAGATT
*
11635932 TTAATTAAGATAATTAGGAGTTTAAA-TAAATTAGGATAAT
66 TTAATTAAGATAATTAGAAGTTTAAATTAAATTAGGATAAT
* ** ** * * *
11635972 TAGATTTTTAATTTAGATAAGATAATTAGGAACTT-CATTAATAGATTAGATAATAATTTAGATT
1 TAGAGTTTTAATTTATTTAAGATAATTAATAATTTAAATTAATAGGTTAGATAATAATTTAGATT
*
11636036 TTAGTTAAGATAATTAGAAGTTTAAATTAAATTAGGATAAT
66 TTAATTAAGATAATTAGAAGTTTAAATTAAATTAGGATAAT
* * * * *
11636077 TAAAGTTCTAATCTATTTAAGATCATTATTAATTTAAATTAATAGGTTAGATAATAATTTTAGAT
1 TAGAGTTTTAATTTATTTAAGATAATTAATAATTTAAATTAATAGGTTAGATAATAA-TTTAGAT
* * * * *
11636142 TTTAGTTAAGATCATTAGAATTTTAAATTATATTAGGAAAAT
65 TTTAATTAAGATAATTAGAAGTTTAAATTAAATTAGGATAAT
*
11636184 TAGAGTTTTAATTTATTTAAAATAATTAATAATTTAAATTAATAGGTTAGATAATAATTTAGATT
1 TAGAGTTTTAATTTATTTAAGATAATTAATAATTTAAATTAATAGGTTAGATAATAATTTAGATT
*
11636249 TTAATTAAAATAATTA-AGAGTTTA
66 TTAATTAAGATAATTAGA-AGTTTA
11636273 GGGTTCCTAG
Statistics
Matches: 260, Mismatches: 37, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
104 50 0.19
105 69 0.27
106 45 0.17
107 96 0.37
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (106 bp):
TAGAGTTTTAATTTATTTAAGATAATTAATAATTTAAATTAATAGGTTAGATAATAATTTAGATT
TTAATTAAGATAATTAGAAGTTTAAATTAAATTAGGATAAT
Found at i:11636210 original size:26 final size:27
Alignment explanation
Indices: 11636155--11636224 Score: 65
Period size: 26 Copynumber: 2.6 Consensus size: 27
11636145 AGTTAAGATC
*
11636155 ATTAGAATTTTAAATTATATTAGGAAA
1 ATTAGAATTTTAAATTATATTAGAAAA
* *
11636182 ATTAGAGTTTTAATTTAT-TTA-AAATA
1 ATTAGAATTTTAAATTATATTAGAAA-A
*
11636208 ATTA-ATAATTTAAATTA
1 ATTAGA-ATTTTAAATTA
11636225 ATAGGTTAGA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
25 3 0.09
26 16 0.46
27 16 0.46
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.46
Consensus pattern (27 bp):
ATTAGAATTTTAAATTATATTAGAAAA
Found at i:11636265 original size:53 final size:52
Alignment explanation
Indices: 11635878--11636272 Score: 271
Period size: 53 Copynumber: 7.5 Consensus size: 52
11635868 AGAGGTTTAA
* * *
11635878 TTTAGTTAAGATAATTAAGATTTTAAATTGATAGGTTAGATAATAATTTAGAT
1 TTTAATTAAGATAATTAAGAATTTAAATTAATA-GTTAGATAATAATTTAGAT
* * ** *
11635931 TTTAATTAAGATAATTAGGAGTTTAAA-TAA-A-TTAGGATAATTAGATTTTTAA
1 TTTAATTAAGATAATTAAGAATTTAAATTAATAGTTA-GATAA-TA-ATTTAGAT
* * *
11635983 TTTAGA-TAAGATAATTAGGAACTT-CATTAATAGATTAGATAATAATTTAGAT
1 TTTA-ATTAAGATAATTAAGAATTTAAATTAATAG-TTAGATAATAATTTAGAT
*
11636035 TTTAGTTAAGATAATT-AGAAGTTTAAATTAA-A-TTAGGATAATTAAAGTTCTA-A-
1 TTTAATTAAGATAATTAAGAA-TTTAAATTAATAGTTA-GATAA-T-AA-TT-TAGAT
* * * **
11636088 TCTATTTAAGATCATTATTAATTTAAATTAATAGGTTAGATAATAATTTTAGAT
1 TTTAATTAAGATAATTAAGAATTTAAATTAATA-GTTAGATAATAA-TTTAGAT
* * *
11636142 TTTAGTTAAGATCATT-AGAATTTTAAATT-ATA-TTAGGAAAATTAGAGTTTTA-A-
1 TTTAATTAAGATAATTAAGAA-TTTAAATTAATAGTTA-GATAA-TA-A--TTTAGAT
* * *
11636195 TTTATTTAAAATAATTAATAATTTAAATTAATAGGTTAGATAATAATTTAGAT
1 TTTAATTAAGATAATTAAGAATTTAAATTAATA-GTTAGATAATAATTTAGAT
* *
11636248 TTTAATTAAAATAATTAAGAGTTTA
1 TTTAATTAAGATAATTAAGAATTTA
11636273 GGGTTCCTAG
Statistics
Matches: 273, Mismatches: 36, Indels: 66
0.73 0.10 0.18
Matches are distributed among these distances:
49 3 0.01
50 8 0.03
51 19 0.07
52 60 0.22
53 114 0.42
54 44 0.16
55 19 0.07
56 6 0.02
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.43
Consensus pattern (52 bp):
TTTAATTAAGATAATTAAGAATTTAAATTAATAGTTAGATAATAATTTAGAT
Found at i:11640936 original size:16 final size:18
Alignment explanation
Indices: 11640897--11640930 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11640887 TAAGTTTATA
11640897 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
11640914 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
11640931 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:11641011 original size:22 final size:20
Alignment explanation
Indices: 11640986--11641028 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
11640976 TACTTAAATG
11640986 TAAATATTAAAATAATATAATA
1 TAAATATTAAAA-AA-ATAATA
* *
11641008 TAAATTTTTAAAAAATAATA
1 TAAATATTAAAAAAATAATA
11641028 T
1 T
11641029 GGACAGACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAATATTAAAAAAATAATA
Found at i:11645759 original size:22 final size:22
Alignment explanation
Indices: 11645729--11645872 Score: 114
Period size: 22 Copynumber: 6.4 Consensus size: 22
11645719 ACATTAAATG
* *
11645729 GACAGCATTTAAGCAACATTCA
1 GACAACATTTAACCAACATTCA
11645751 GACAACATTTAACCAACATTC-
1 GACAACATTTAACCAACATTCA
* * *
11645772 GAACGACATTTAACCATCATTCG
1 G-ACAACATTTAACCAACATTCA
* *
11645795 GACAACATTAGTATGCTC-A-ATTAA
1 GACAACATT--TA-AC-CAACATTCA
* * *
11645819 GGACAGCATTTAAACAATATTCA
1 -GACAACATTTAACCAACATTCA
11645842 GACAACATTTAACCAACATTCA
1 GACAACATTTAACCAACATTCA
*
11645864 GACAGCATT
1 GACAACATT
11645873 AGTATGCTTA
Statistics
Matches: 96, Mismatches: 17, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
21 2 0.02
22 72 0.75
23 7 0.07
24 5 0.05
25 9 0.09
26 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (22 bp):
GACAACATTTAACCAACATTCA
Found at i:11645900 original size:69 final size:69
Alignment explanation
Indices: 11645777--11646050 Score: 343
Period size: 69 Copynumber: 4.0 Consensus size: 69
11645767 CATTCGAACG
* * * * * *
11645777 ACATTTAACCATCATTCGGACAACATTAGTATGCTCAATTAAGGACAGCATTTAAACAATATTCA
1 ACATTTAACCAACATTCAGACAGCATTAGTATGCTTAATTATGGACAGCATTTAAACAATATTCG
*
11645842 GACA
66 GATA
* * *
11645846 ACATTTAACCAACATTCAGACAGCATTAGTATGCTTAATTATGGAAAGCTTTTAAACAATATTTG
1 ACATTTAACCAACATTCAGACAGCATTAGTATGCTTAATTATGGACAGCATTTAAACAATATTCG
11645911 GATA
66 GATA
* * *
11645915 ACATTTAACCAACATTCGGACAGCATTAGTATGCTTAATTATGGACAGCATTTAACCAACATTCG
1 ACATTTAACCAACATTCAGACAGCATTAGTATGCTTAATTATGGACAGCATTTAAACAATATTCG
11645980 GATA
66 GATA
* * * * * * * *
11645984 GCATTTAACCAACATTCAGACAGTATTAGTTTGCTCAAATATGAACTA-CATTTAAATAACATTC
1 ACATTTAACCAACATTCAGACAGCATTAGTATGCTTAATTATGGAC-AGCATTTAAACAATATTC
11646048 GGA
65 GGA
11646051 CAGCACCTCG
Statistics
Matches: 179, Mismatches: 25, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
69 178 0.99
70 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (69 bp):
ACATTTAACCAACATTCAGACAGCATTAGTATGCTTAATTATGGACAGCATTTAAACAATATTCG
GATA
Found at i:11645941 original size:22 final size:22
Alignment explanation
Indices: 11645916--11646006 Score: 85
Period size: 22 Copynumber: 4.0 Consensus size: 22
11645906 ATTTGGATAA
11645916 CATTTAACCAACATTCGGACAG
1 CATTTAACCAACATTCGGACAG
* ** *
11645938 CATTAGTATGCTTA-ATTATGGACAG
1 CATT--TA-ACCAACATT-CGGACAG
*
11645963 CATTTAACCAACATTCGGATAG
1 CATTTAACCAACATTCGGACAG
*
11645985 CATTTAACCAACATTCAGACAG
1 CATTTAACCAACATTCGGACAG
11646007 TATTAGTTTG
Statistics
Matches: 53, Mismatches: 11, Indels: 10
0.72 0.15 0.14
Matches are distributed among these distances:
22 31 0.58
23 5 0.09
24 5 0.09
25 12 0.23
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (22 bp):
CATTTAACCAACATTCGGACAG
Found at i:11646281 original size:24 final size:24
Alignment explanation
Indices: 11646254--11646300 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
11646244 ACGTCAAAGG
11646254 TACAAACTCTTAAAGTACCAAAAC
1 TACAAACTCTTAAAGTACCAAAAC
*
11646278 TACAAACTTTTAAAGTACCAAAA
1 TACAAACTCTTAAAGTACCAAAA
11646301 TAGAGATCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.51, C:0.21, G:0.04, T:0.23
Consensus pattern (24 bp):
TACAAACTCTTAAAGTACCAAAAC
Found at i:11646751 original size:43 final size:43
Alignment explanation
Indices: 11646717--11646799 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
11646707 CTTACATGTT
*
11646717 ATCACATATCGATGCCACTGTCCCAGACAGGGTCTTACACATA
1 ATCACATATCGATGCCAATGTCCCAGACAGGGTCTTACACATA
* *
11646760 ATCTCATATCGATGCCAATGTCCCAGACATGGTCTTACAC
1 ATCACATATCGATGCCAATGTCCCAGACAGGGTCTTACAC
11646800 GAAATCATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (43 bp):
ATCACATATCGATGCCAATGTCCCAGACAGGGTCTTACACATA
Found at i:11650447 original size:2 final size:2
Alignment explanation
Indices: 11650440--11650464 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11650430 CCAAATCATG
11650440 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
11650465 AAAGGCAAAT
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:11658250 original size:74 final size:74
Alignment explanation
Indices: 11658122--11659152 Score: 1572
Period size: 74 Copynumber: 14.0 Consensus size: 74
11658112 TACTCTATTA
* * **
11658122 TATGTTGTGTGTTTAGATAGTGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGGATTCTAGTA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
11658187 CGTGGAATT-
66 CGTGG-ATTG
* * * * * * *
11658196 TTTGTTTTGTGTTTAGGTAGCGCGATAAGGTTGTTAGCATGTAAAGAAGTTGATG-A----AACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
* *
11658256 TGTGGGTTG
66 CGTGGATTG
* *
11658265 CATGTTGTCTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
11658330 CGTGGATTG
66 CGTGGATTG
*
11658339 TATGTTGTG-GTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGGATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
11658403 CGTGGATTG
66 CGTGGATTG
* * * * *
11658412 TATGTTGTGTGTTTAGATAGCGCGCTAAGGTTGTTAGCCTGTAAAGCAGTTGATGATTTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
*
11658477 CATGGATTG
66 CGTGGATTG
* * * *
11658486 TATGTTGTGTGTTTAGATAGCAAGTTATGATTGCTAGCATGTTAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
*
11658551 CGTGGGTTG
66 CGTGGATTG
* * *
11658560 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGATTTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
11658625 CGTGGATTG
66 CGTGGATTG
* **
11658634 TATGTTGTGTGCTTAGATAGCGAGTTCTGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
11658699 CGTGGATTG
66 CGTGGATTG
**
11658708 TATGTTGTGTGTTTAGATAGCGAGTTCTGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
11658773 CGTGGATTG
66 CGTGGATTG
**
11658782 TATGTTGTGTGTTTAGATAGCGAGTTCTGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
*
11658847 CGTGGGTTG
66 CGTGGATTG
* * *
11658856 TATGTTGTGTGTTTAGATAGCGCGTTAAGGTTGTTAGCATGTAAAGCAGTTGATGATTTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
11658921 CGTGGATTG
66 CGTGGATTG
* **
11658930 TATGTTGTGTGCTTAGATAGCGAGTTTTGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
11658995 CGTGGATTG
66 CGTGGATTG
* *
11659004 TATGTTGTGTGTTTAGATAGCGCGTTAAGATTGTTAGCATGTAAAGCAGTTGATGATTTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
*
11659069 TGTGGATTG
66 CGTGGATTG
11659078 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
1 TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
*
11659143 CATGGATTG
66 CGTGGATTG
11659152 T
1 T
11659153 TGCCTTTGTT
Statistics
Matches: 868, Mismatches: 82, Indels: 14
0.90 0.09 0.01
Matches are distributed among these distances:
68 2 0.00
69 52 0.06
70 1 0.00
73 73 0.08
74 740 0.85
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.37
Consensus pattern (74 bp):
TATGTTGTGTGTTTAGATAGCGAGTTAAGATTGTTAGCATGTAAAGCAGTTGATGAATTCTAACA
CGTGGATTG
Done.