Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
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: 4987688
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 20
Found at i:1828359 original size:18 final size:17
Alignment explanation
Indices: 1828332--1828368 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
1828322 ATTTAATATA
*
1828332 AAAATGAAATAAAATGAT
1 AAAATAAAATAAAA-GAT
1828350 AAAATAAAATAAAAGAT
1 AAAATAAAATAAAAGAT
1828367 AA
1 AA
1828369 TCATTCAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (17 bp):
AAAATAAAATAAAAGAT
Found at i:1830943 original size:33 final size:34
Alignment explanation
Indices: 1830906--1830981 Score: 118
Period size: 33 Copynumber: 2.3 Consensus size: 34
1830896 ATTTTGGGTT
*
1830906 AGGGTATCGGTACTGATAGAATAGTACTATGA-G
1 AGGGTATCGGTACTGATAGAACAGTACTATGAGG
*
1830939 AGGGTATCGGTACTGATAGAACATTACTATGAGG
1 AGGGTATCGGTACTGATAGAACAGTACTATGAGG
*
1830973 AAGGTATCG
1 AGGGTATCG
1830982 ATACCACTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 30 0.77
34 9 0.23
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (34 bp):
AGGGTATCGGTACTGATAGAACAGTACTATGAGG
Found at i:1831527 original size:55 final size:55
Alignment explanation
Indices: 1831403--1831661 Score: 332
Period size: 55 Copynumber: 4.8 Consensus size: 55
1831393 GCACTATGTA
* *
1831403 TGCAAAAATAAGAAATTCA-ACTAAATGTGTGAATTT-CGTATGGGCAC--TATG
1 TGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTCCGTATGGGAACTATATG
* *
1831454 TGCAAAAATAAGAAATTCATACTAAGTGTGCGAATTTCCGTATGGGAACTACATG
1 TGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTCCGTATGGGAACTATATG
* * * *
1831509 TTCAAACATAAGAAATTCATAATAAGTAG-GTGAATTTCCGTATGGGCACTATATG
1 TGCAAAAATAAGAAATTCATACTAAGT-GTGTGAATTTCCGTATGGGAACTATATG
**
1831564 TGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTCCGTATGAAAACTATATG
1 TGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTCCGTATGGGAACTATATG
* * * *
1831619 TGCAAACATATGAAATTCATAATAAGTAG-GTGAATTTCTGTAT
1 TGCAAAAATAAGAAATTCATACTAAGT-GTGTGAATTTCCGTAT
1831662 TGGCAGTGGG
Statistics
Matches: 181, Mismatches: 20, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
51 19 0.10
52 15 0.08
53 10 0.06
54 1 0.01
55 134 0.74
56 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (55 bp):
TGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTCCGTATGGGAACTATATG
Found at i:1831573 original size:110 final size:108
Alignment explanation
Indices: 1831403--1831666 Score: 381
Period size: 110 Copynumber: 2.4 Consensus size: 108
1831393 GCACTATGTA
* * *
1831403 TGCAAAAATAAGAAATTCA-ACTAAAT-GTGTGAATTT-CGTATGGGCACTATGTGCAAAAATAA
1 TGCAAACATAAGAAATTCATAATAAGTAG-GTGAATTTCCGTATGGGCACTATGTGCAAAAATAA
**
1831465 GAAATTCATACTAAGTGTGCGAATTTCCGTATGGGAACTACATG
65 GAAATTCATACTAAGTGTGCGAATTTCCGTATGAAAACTACATG
*
1831509 TTCAAACATAAGAAATTCATAATAAGTAGGTGAATTTCCGTATGGGCACTATATGTGCAAAAATA
1 TGCAAACATAAGAAATTCATAATAAGTAGGTGAATTTCCGTATGGGCAC--TATGTGCAAAAATA
* *
1831574 AGAAATTCATACTAAGTGTGTGAATTTCCGTATGAAAACTATATG
64 AGAAATTCATACTAAGTGTGCGAATTTCCGTATGAAAACTACATG
* * *
1831619 TGCAAACATATGAAATTCATAATAAGTAGGTGAATTTCTGTATTGGCA
1 TGCAAACATAAGAAATTCATAATAAGTAGGTGAATTTCCGTATGGGCA
1831667 GTGGGTATGC
Statistics
Matches: 141, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
106 17 0.12
107 13 0.09
108 12 0.09
110 99 0.70
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (108 bp):
TGCAAACATAAGAAATTCATAATAAGTAGGTGAATTTCCGTATGGGCACTATGTGCAAAAATAAG
AAATTCATACTAAGTGTGCGAATTTCCGTATGAAAACTACATG
Found at i:1837745 original size:55 final size:55
Alignment explanation
Indices: 1837662--1838036 Score: 402
Period size: 55 Copynumber: 6.9 Consensus size: 55
1837652 GATTTCCAAA
* * * * * *
1837662 TGGCACTATATGTACAAAAAGAATAAATTTATACTAAGTGCGTGAATTTCCGTAT
1 TGGCACTATGTGTGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTCCGTAT
*
1837717 TGGCACTATGTGTGCAAAACTAAGAAATTCATACTAAGTGTGTGAATTT-CGTA-
1 TGGCACTATGTGTGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTCCGTAT
* * ***
1837770 TGTGCACTATGTATGCAAAAATAAAAAATTCATACTAAGTGTGTGAATTTTTATAT
1 TG-GCACTATGTGTGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTCCGTAT
* * * * * *
1837826 GGGCAC--TGTATGCAAAAATAAGAAACTCATACTAAATGTGTGAGTTTTCGTAT
1 TGGCACTATGTGTGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTCCGTAT
* * * *
1837879 GGGCACCATGTGTGCAAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTAT
1 TGGCACTATGTGTGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTCCGTAT
* * * *
1837934 TGGCACTCTGTGTGCAAAACTAAGACATTCATACTAAGTGTGTGAATTTCTGTAT
1 TGGCACTATGTGTGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTCCGTAT
* * * * * * *
1837989 GGGAACTA--TATGCAAAGATAAGAAATTCATAATAAATATGTGAATTTC
1 TGGCACTATGTGTGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTC
1838037 ATATTGGTAG
Statistics
Matches: 273, Mismatches: 42, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
53 82 0.30
54 48 0.18
55 142 0.52
56 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (55 bp):
TGGCACTATGTGTGCAAAAATAAGAAATTCATACTAAGTGTGTGAATTTCCGTAT
Found at i:1837916 original size:108 final size:106
Alignment explanation
Indices: 1837686--1838036 Score: 409
Period size: 108 Copynumber: 3.2 Consensus size: 106
1837676 CAAAAAGAAT
* *
1837686 AAATTTATACTAAGTGCGTGAATTTCCGTATTGGCACTATGTGTGCAAAACTAAGAAATTCATAC
1 AAATTCATACTAAGTGTGTGAATTTCCGTATTGGCAC--TGTGTGCAAAACTAAGAAATTCATAC
* * *
1837751 TAAGTGTGTGAATTTCGTATGTGCACTATGTATGCAAAAATAAA
64 TAAGTGTGTGAATTTCGTATGGGCACCATGTATGC-AAAATAAG
*** * * * *
1837795 AAATTCATACTAAGTGTGTGAATTTTTATATGGGCACTGTATGCAAAAATAAGAAACTCATACTA
1 AAATTCATACTAAGTGTGTGAATTTCCGTATTGGCACTGTGTGCAAAACTAAGAAATTCATACTA
* * *
1837860 AATGTGTGAGTTTTCGTATGGGCACCATGTGTGCAAAACTAAG
66 AGTGTGTGA-ATTTCGTATGGGCACCATGTATGCAAAA-TAAG
* *
1837903 AAATTCATACTAAGTGTATGAATTTCCGTATTGGCACTCTGTGTGCAAAACTAAGACATTCATAC
1 AAATTCATACTAAGTGTGTGAATTTCCGTATTGGCA--CTGTGTGCAAAACTAAGAAATTCATAC
* *
1837968 TAAGTGTGTGAATTTCTGTATGGG-AAC-TATATGCAAAGATAAG
64 TAAGTGTGTGAATTTC-GTATGGGCACCATGTATGCAAA-ATAAG
* * *
1838011 AAATTCATAATAAATATGTGAATTTC
1 AAATTCATACTAAGTGTGTGAATTTC
1838037 ATATTGGTAG
Statistics
Matches: 203, Mismatches: 33, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
107 37 0.18
108 88 0.43
109 38 0.19
110 40 0.20
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.33
Consensus pattern (106 bp):
AAATTCATACTAAGTGTGTGAATTTCCGTATTGGCACTGTGTGCAAAACTAAGAAATTCATACTA
AGTGTGTGAATTTCGTATGGGCACCATGTATGCAAAATAAG
Found at i:1852431 original size:923 final size:932
Alignment explanation
Indices: 1851123--1852982 Score: 3328
Period size: 923 Copynumber: 2.0 Consensus size: 932
1851113 TTTCCCTAGT
1851123 CTCCTTCATTTGATGCATGATTGAAATCATCCCTTTCCAAACATGTTGGGCTCATCCCAAGCCCA
1 CTCCTTCATTTGATGCATGATTGAAATCATCCCTTTCCAAACATGTTGGGCTCATCCCAAGCCCA
1851188 AATCAAATCTACTTGGGGTCCAAACTTCATATTCTAAGGGAAAATTATTCTAAAACCCATTCAAA
66 AATCAAATCTACTTGGGGTCCAAACTTCATATTCTAAGGGAAAATTATTCTAAAACCCATT---A
1851253 TAAACCTGAAACTCCAAACCTTTAATTTAAGGCATTACAAATGACCAATGCAAGCAATTAAAAAG
128 T--A-C-GAAACT-CAAACCTTTAATTTAAGGCATTACAAATGACCAATGCAAGCAATTAAAAAG
*
1851318 ATGCTTCACGTCTAATGGTAATTGTCCGTGTTGTGTGGATGTCTTGGAGGACATTGATCATGTTT
188 ACGCTTCACGTCTAATGGTAATTGTCCGTGTTGTGTGGATGTCTTGGAGGACATTGATCATGTTT
*
1851383 TCAGAAATGTAGTGTTATTTACTCCATTTGGGTGTTGTTGATTAAGGAGGAGAATCTAAAGGAGT
253 TCAGAAATGTAGTGTTATTTACTCCATTTGGGTATTGTTGATTAAGGAGGAGAATCTAAAGGAGT
1851448 TCATGTCAATGGAGATCAAAATTTTGATTCATGTCAATCTTGTGAATATTAGTTATTTTACCAAA
318 TCATGTCAATGGAGATCAAAATTTTGATTCATGTCAATCTTGTGAATATTAGTTATTTTACCAAA
1851513 GAGGACAAAGATTGGGAAATATTGGTTGGTGCTATACTTTGG-ACACCTGGCGACATCAAAATGC
383 GAGGACAAAGATTGGGAAATATTGGTTGGTGCTATACTTTGGAACACCTGGCGACATCAAAATGC
1851577 CAGTGTTTCATAACCTCCTATAGGGTAATATTGGTATTCTCGAGCATAGCA-GAGGCTGCAGAAG
448 CAGTGTTTCATAACCTCCTATAGGGTAATATTGGTATTCTCGAGCATAGCAGGAGGCTGCAGAAG
* *
1851641 TTGACGATCCAAGCTATTGAGCGGGATCGTGGTAATACAGGGGGTTACATCCTTCATATGTGGGA
513 TTGACGATCCAAGCTATTGAGCGGGATAGTGGTAATACAGGGGGATACATCCTTCATATGTGGGA
* *
1851706 GTTGATTGATTAATGGTGTTGTCGGTTCATTGGATTAAAGTCAATACCGATGGTGCTCGTAAAGA
578 GTTGATTCATTAATGGCGTTGTCGGTTCATTGGATTAAAGTCAATACCGATGGTGCTCGTAAAGA
* *
1851771 TAGAAATGG-TTCTCATCTTGCGGTGGTGTGGTTTGAAATCATAATGAATGTTGGATTCTAGGTT
643 TAGAAAGGGTTTCTCATCTTGCGGTGGTGTGGTTTGAAATCATAATGAAGGTTGGATTCTAGGTT
1851835 TTAAAAAGTTTCTGGAGGTGTGCTT-GTTTTGGAAGCAGAGCTTTGGGTTGTGCACATCGATCTC
708 TTAAAAAGTTTCTGGAGGTGTGCTTGGTTTTGGAAGCAGAGCTTTGGGTTGTGCACATCGATCTC
* *
1851899 CATTGTGCTTGGCGCATACGTGCGCGAAAGGTGATTGTAGAGAATTATAACTTGTCGGTTGTAAA
773 CATTGTGCTTGGCGCATACGTGCGCGAAAGGTGATTGTAGAGAATTATAAATTGTCGATTGTAAA
* *
1851964 GCTTCTGCGTGGCCATAAAAAAAGAACAATTTGTTGTCTATTGTTGAACATATCTATAGGATTCT
838 GCTTCTGCATGGCCATAAAAAAAGAACAA-TTGTTGTCTATTGTTGAACATATCTATAGGATGCT
1852029 CGACTGGGATTGGGAAGTTAGATTCCAAGTC
902 CGACTGGGATTGGGAAGTTAGATTCCAAGTC
1852060 CTCCTTCATTTGATGCATGATTGAAATCATCCCTTTCCAAACATGTTGGGCTCATCCCAAGCCCA
1 CTCCTTCATTTGATGCATGATTGAAATCATCCCTTTCCAAACATGTTGGGCTCATCCCAAGCCCA
1852125 AATCAAATCTACTTGGGGTCCAAACTTCATATTCTAAGGGAAAATTATTCTAAAACCCA-T-T-C
66 AATCAAATCTACTTGGGGTCCAAACTTCATATTCTAAGGGAAAATTATTCTAAAACCCATTATAC
1852187 -AAA-T-AAACCTTTAATTTAAGGCATTACAAATGACCAATGCAAGCAATTAAAAAGACGCTTCA
131 GAAACTCAAACCTTTAATTTAAGGCATTACAAATGACCAATGCAAGCAATTAAAAAGACGCTTCA
** *
1852249 CGTCTAATGGTAATTGTTTGTGTTGTGTGGATGTCTTGGAGGACATTGATCATGTTTTCGGAAAT
196 CGTCTAATGGTAATTGTCCGTGTTGTGTGGATGTCTTGGAGGACATTGATCATGTTTTCAGAAAT
1852314 GTAGTGTTATTTACTCCATTTGGGTATTGTTGATTAACGG-GGAGAATCTAAAGGAGTTCATGTC
261 GTAGTGTTATTTACTCCATTTGGGTATTGTTGATTAA-GGAGGAGAATCTAAAGGAGTTCATGTC
1852378 AATGGAGATCAAAATTTTGATTCATGTCAATCTTGTGAATATTAGTTATTTTACCAAAGAGGACA
325 AATGGAGATCAAAATTTTGATTCATGTCAATCTTGTGAATATTAGTTATTTTACCAAAGAGGACA
1852443 AAGATTGGGAAATATTGGTTGGTGCTATACTTTGGAACACCTGGCGACATCAAAATGCCAGTGTT
390 AAGATTGGGAAATATTGGTTGGTGCTATACTTTGGAACACCTGGCGACATCAAAATGCCAGTGTT
**
1852508 TCATAACCTCCTATAGGGTAATATTGGTATTCTCGAGCATAGCAGGAGGCTGCAGAAGTTGGGGA
455 TCATAACCTCCTATAGGGTAATATTGGTATTCTCGAGCATAGCAGGAGGCTGCAGAAGTTGACGA
* * *
1852573 TCCAAGCTATTTAGCGGGATAGTGGTAATACGGGGGGATACATCCTTCATATGTTGGAGTTGATT
520 TCCAAGCTATTGAGCGGGATAGTGGTAATACAGGGGGATACATCCTTCATATGTGGGAGTTGATT
* *
1852638 CATTGATGGCGTTGTCGGTTCATTGGATTAAAGTCAATACCGATGGTGCTCGTAAAGATATAAAG
585 CATTAATGGCGTTGTCGGTTCATTGGATTAAAGTCAATACCGATGGTGCTCGTAAAGATAGAAAG
1852703 GGTTTCTCATCTTGCGGTGGTGTGGTTTGAAATCATAATGAAGGTTGGATTCTAGGTTTTAAAAA
650 GGTTTCTCATCTTGCGGTGGTGTGGTTTGAAATCATAATGAAGGTTGGATTCTAGGTTTTAAAAA
1852768 GTTTCTGGAGGTGTGCTTGGTTTTGGAAGCAGAGCTTTGGGTTGTGCACATCGATCTCCATTGTG
715 GTTTCTGGAGGTGTGCTTGGTTTTGGAAGCAGAGCTTTGGGTTGTGCACATCGATCTCCATTGTG
* * *
1852833 CTTGGCGCATAGGTTCGCGAAAGGTGATTGTAGAGAATTATAAATTGTCGATTGTAAAGTTTCTG
780 CTTGGCGCATACGTGCGCGAAAGGTGATTGTAGAGAATTATAAATTGTCGATTGTAAAGCTTCTG
1852898 CATGGCCATAAAAAAAGAACAATTGTTGTCTATTGTTGAACATATCTATAGGATGCTCGACTGGG
845 CATGGCCATAAAAAAAGAACAATTGTTGTCTATTGTTGAACATATCTATAGGATGCTCGACTGGG
1852963 ATTGGGAAGTTAGATTCCAA
910 ATTGGGAAGTTAGATTCCAA
1852983 CATGTTTTGA
Statistics
Matches: 893, Mismatches: 25, Indels: 21
0.95 0.03 0.02
Matches are distributed among these distances:
923 279 0.31
924 75 0.08
925 141 0.16
926 144 0.16
927 127 0.14
928 1 0.00
932 1 0.00
936 1 0.00
937 124 0.14
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (932 bp):
CTCCTTCATTTGATGCATGATTGAAATCATCCCTTTCCAAACATGTTGGGCTCATCCCAAGCCCA
AATCAAATCTACTTGGGGTCCAAACTTCATATTCTAAGGGAAAATTATTCTAAAACCCATTATAC
GAAACTCAAACCTTTAATTTAAGGCATTACAAATGACCAATGCAAGCAATTAAAAAGACGCTTCA
CGTCTAATGGTAATTGTCCGTGTTGTGTGGATGTCTTGGAGGACATTGATCATGTTTTCAGAAAT
GTAGTGTTATTTACTCCATTTGGGTATTGTTGATTAAGGAGGAGAATCTAAAGGAGTTCATGTCA
ATGGAGATCAAAATTTTGATTCATGTCAATCTTGTGAATATTAGTTATTTTACCAAAGAGGACAA
AGATTGGGAAATATTGGTTGGTGCTATACTTTGGAACACCTGGCGACATCAAAATGCCAGTGTTT
CATAACCTCCTATAGGGTAATATTGGTATTCTCGAGCATAGCAGGAGGCTGCAGAAGTTGACGAT
CCAAGCTATTGAGCGGGATAGTGGTAATACAGGGGGATACATCCTTCATATGTGGGAGTTGATTC
ATTAATGGCGTTGTCGGTTCATTGGATTAAAGTCAATACCGATGGTGCTCGTAAAGATAGAAAGG
GTTTCTCATCTTGCGGTGGTGTGGTTTGAAATCATAATGAAGGTTGGATTCTAGGTTTTAAAAAG
TTTCTGGAGGTGTGCTTGGTTTTGGAAGCAGAGCTTTGGGTTGTGCACATCGATCTCCATTGTGC
TTGGCGCATACGTGCGCGAAAGGTGATTGTAGAGAATTATAAATTGTCGATTGTAAAGCTTCTGC
ATGGCCATAAAAAAAGAACAATTGTTGTCTATTGTTGAACATATCTATAGGATGCTCGACTGGGA
TTGGGAAGTTAGATTCCAAGTC
Found at i:1856769 original size:86 final size:86
Alignment explanation
Indices: 1856623--1856795 Score: 267
Period size: 86 Copynumber: 2.0 Consensus size: 86
1856613 GACATTATTG
*
1856623 TTATTGATTGCTTTATGGTATATGTATGTTATGATTGGATCAAGGCCCAATCACAAAATCTAAAG
1 TTATTGATTGCTTTATAG-ATATGTATGTTATGATTGGATCAAGGCCCAATCACAAAATCTAAAG
1856688 ATGTCTTCATGTTGTTCCCTTT
65 ATGTCTTCATGTTGTTCCCTTT
* * * *
1856710 TTATTGATTGCTTTTATAG-TATGTGTGTTATGATTGGATCAAGGGCCATTCACATAATCTAAAG
1 TTATTGATTGC-TTTATAGATATGTATGTTATGATTGGATCAAGGCCCAATCACAAAATCTAAAG
*
1856774 ATGTCTTCATTTTGTTCCCTTT
65 ATGTCTTCATGTTGTTCCCTTT
1856796 ACACAAATTA
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
86 62 0.78
87 11 0.14
88 6 0.08
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.43
Consensus pattern (86 bp):
TTATTGATTGCTTTATAGATATGTATGTTATGATTGGATCAAGGCCCAATCACAAAATCTAAAGA
TGTCTTCATGTTGTTCCCTTT
Found at i:1859598 original size:44 final size:46
Alignment explanation
Indices: 1859535--1859624 Score: 114
Period size: 44 Copynumber: 2.0 Consensus size: 46
1859525 TCTTGGAACT
1859535 CTTCTCCTCCCCTTTCACTC-ATCCTCA-CTTGTTT-TCCTGAAACA
1 CTTCTCCTCCCCTTTCACTCTATCCTCATC-TGTTTATCCTGAAACA
** *
1859579 CTTCTCCTTTCCTTTCACTCTTATCCTCATCTGTTTATCTTGAAAC
1 CTTCTCCTCCCCTTTCACTC-TATCCTCATCTGTTTATCCTGAAAC
1859625 CATGATTTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
44 18 0.46
46 12 0.31
47 9 0.23
ACGTcount: A:0.16, C:0.37, G:0.04, T:0.43
Consensus pattern (46 bp):
CTTCTCCTCCCCTTTCACTCTATCCTCATCTGTTTATCCTGAAACA
Found at i:1860152 original size:131 final size:133
Alignment explanation
Indices: 1859971--1860287 Score: 414
Period size: 131 Copynumber: 2.4 Consensus size: 133
1859961 TTGTATTTAA
* * * * *
1859971 TTTAATGTTTACATGTAATTGAATTAATTGGTGGTTGTTTGATTTATTTCTACTTTGAACGTTGT
1 TTTAATTTTTACATGTAATTGAACTAATTGGTGGTTGTTTGCTTTGTTTCTACTTTGAAAGTTGT
* *
1860036 AATTGATGTTTGTTTTTAATTTGA-CTTATT-G-GTGTCTATATAATTTGAATGTTCTAATTAGA
66 AATTGATGTTTGTTTCTAATTAGAGC-TATTGGTGTGTCTATATAATTTGAATGTTCTAATTAGA
1860098 CTAT
130 CTAT
*
1860102 TTTAATTTTTACATATAA-TGAAACTAATTGGTGGTTGTTTGCTTTGTTTCTACTTTGAAAGTTG
1 TTTAATTTTTACATGTAATTG-AACTAATTGGTGGTTGTTTGCTTTGTTTCTACTTTGAAAGTTG
* * ** *
1860166 TAATTGATGTTTGTTTCTAATTAGAGCTATTGGTGTGTGTATCTAATTTGTCTGTTCTAATTGGA
65 TAATTGATGTTTGTTTCTAATTAGAGCTATTGGTGTGTCTATATAATTTGAATGTTCTAATTAGA
1860231 CTAT
130 CTAT
* * * *
1860235 TTTGATTTTTACATGTAATTGGAGTAA-T--TGGTTGTTTCCTTTGTTTCTACTTT
1 TTTAATTTTTACATGTAATTGAACTAATTGGTGGTTGTTTGCTTTGTTTCTACTTT
1860288 AAACATTACA
Statistics
Matches: 163, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
130 26 0.16
131 82 0.50
132 3 0.02
133 50 0.31
134 2 0.01
ACGTcount: A:0.23, C:0.08, G:0.18, T:0.52
Consensus pattern (133 bp):
TTTAATTTTTACATGTAATTGAACTAATTGGTGGTTGTTTGCTTTGTTTCTACTTTGAAAGTTGT
AATTGATGTTTGTTTCTAATTAGAGCTATTGGTGTGTCTATATAATTTGAATGTTCTAATTAGAC
TAT
Found at i:1861286 original size:56 final size:60
Alignment explanation
Indices: 1861155--1861302 Score: 214
Period size: 56 Copynumber: 2.5 Consensus size: 60
1861145 CACATTCAAA
* * *
1861155 ACCAAACACATCAGAATGATCAAAGTTTTCCAAATGTTAACAACCAACAAACAAACAAAAT
1 ACCAAACACAACATAATGATCAAAGTTTTTCAAATGTTAACAA-CAACAAACAAACAAAAT
*
1861216 ATCAAACACAACATAATGATCAAAGTTTTTCAAATGTT-A-AA-AAC-AACAAACAAAAT
1 ACCAAACACAACATAATGATCAAAGTTTTTCAAATGTTAACAACAACAAACAAACAAAAT
*
1861272 ACCAAACACAACATAATGATAAAAGTTTTTC
1 ACCAAACACAACATAATGATCAAAGTTTTTC
1861303 TAAGATAGCC
Statistics
Matches: 81, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 41 0.51
57 3 0.04
59 2 0.02
60 1 0.01
61 34 0.42
ACGTcount: A:0.53, C:0.20, G:0.06, T:0.22
Consensus pattern (60 bp):
ACCAAACACAACATAATGATCAAAGTTTTTCAAATGTTAACAACAACAAACAAACAAAAT
Found at i:1861774 original size:19 final size:19
Alignment explanation
Indices: 1861750--1861810 Score: 95
Period size: 19 Copynumber: 3.2 Consensus size: 19
1861740 TTAATTTTTT
*
1861750 AATATATTAATAACATAAA
1 AATATATCAATAACATAAA
*
1861769 AATATATCAATAACATAGA
1 AATATATCAATAACATAAA
*
1861788 AATATATCAATAACATAAC
1 AATATATCAATAACATAAA
1861807 AATA
1 AATA
1861811 CTTGGAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.28
Consensus pattern (19 bp):
AATATATCAATAACATAAA
Found at i:1864923 original size:13 final size:13
Alignment explanation
Indices: 1864905--1864929 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1864895 GTTAAATAAC
1864905 ATGTTTATTTAAT
1 ATGTTTATTTAAT
1864918 ATGTTTATTTAA
1 ATGTTTATTTAA
1864930 GTAAGCTAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
ATGTTTATTTAAT
Found at i:1865644 original size:43 final size:43
Alignment explanation
Indices: 1865585--1865674 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 43
1865575 TGATTTGAAA
* * *
1865585 TTTTAGGTTTTCAATTTCAGAAGTAATCCT-AAACCCACATCAT
1 TTTTAGGTTTTCAATTTCAAAAGTAACCCTAAAACCCAAAT-AT
* *
1865628 TTTTGGGTTTTTAATTTCAAAAGTAACCCTAAAACCCAAATAT
1 TTTTAGGTTTTCAATTTCAAAAGTAACCCTAAAACCCAAATAT
1865671 TTTT
1 TTTT
1865675 TGGCTTTGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
43 32 0.78
44 9 0.22
ACGTcount: A:0.33, C:0.18, G:0.09, T:0.40
Consensus pattern (43 bp):
TTTTAGGTTTTCAATTTCAAAAGTAACCCTAAAACCCAAATAT
Found at i:1865932 original size:16 final size:16
Alignment explanation
Indices: 1865905--1865946 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
1865895 AACATTACTA
*
1865905 TTAATGTTTTATTTATT
1 TTAAT-TTTTATATATT
1865922 TTAATTTTTATATATT
1 TTAATTTTTATATATT
1865938 TTAATTTTT
1 TTAATTTTT
1865947 TAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 19 0.79
17 5 0.21
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (16 bp):
TTAATTTTTATATATT
Found at i:1867623 original size:38 final size:38
Alignment explanation
Indices: 1867576--1867704 Score: 118
Period size: 38 Copynumber: 3.4 Consensus size: 38
1867566 TTTTTATGAT
1867576 ACAAGTCTTAAGAAAGTAAAGATTGAAGTTTCTAGGGAA
1 ACAA-TCTTAAGAAAGTAAAGATTGAAGTTTCTAGGGAA
* * * * *
1867615 ACATTCTTAAGAAAG-ACCATATTGAATTTTCTA-GGAT
1 ACAATCTTAAGAAAGTA-AAGATTGAAGTTTCTAGGGAA
* * * * *
1867652 ACAAGTCTTAAGAAAATCAAGAATGAAGTTTTTAGAGAA
1 ACAA-TCTTAAGAAAGTAAAGATTGAAGTTTCTAGGGAA
*
1867691 ACGATCTTAAGAAA
1 ACAATCTTAAGAAA
1867705 TACAAAATTG
Statistics
Matches: 70, Mismatches: 16, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
37 7 0.10
38 55 0.79
39 8 0.11
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (38 bp):
ACAATCTTAAGAAAGTAAAGATTGAAGTTTCTAGGGAA
Found at i:1867715 original size:76 final size:75
Alignment explanation
Indices: 1867537--1867716 Score: 209
Period size: 76 Copynumber: 2.4 Consensus size: 75
1867527 GTTCCTCAAG
* * * * * * *
1867537 GAAAAATCTTTAGAAAGACTAAAGTGATATTTTTATGATACAAGTCTTAAGAAAGTAAAGATTGA
1 GAAACATCTTAAGAAAGACAAAATTGATATTTTTAGGATACAAGTCTTAAGAAAATAAAGAATGA
*
1867602 AGTTTCTAGG
66 AGTTTCTAGA
* * *
1867612 GAAACATTCTTAAGAAAGACCATATTGA-ATTTTCTAGGATACAAGTCTTAAGAAAATCAAGAAT
1 GAAACA-TCTTAAGAAAGACAAAATTGATATTTT-TAGGATACAAGTCTTAAGAAAATAAAGAAT
*
1867676 GAAGTTTTTAGA
64 GAAGTTTCTAGA
*
1867688 GAAACGATCTTAAGAAATACAAAATTGAT
1 GAAAC-ATCTTAAGAAAGACAAAATTGAT
1867717 TTCTTAAAAC
Statistics
Matches: 87, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
75 10 0.11
76 76 0.87
77 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (75 bp):
GAAACATCTTAAGAAAGACAAAATTGATATTTTTAGGATACAAGTCTTAAGAAAATAAAGAATGA
AGTTTCTAGA
Found at i:1891403 original size:41 final size:41
Alignment explanation
Indices: 1891343--1891426 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
1891333 CTATGCAAAG
* * *
1891343 CAGTTTGTAGCTCATTCCCCAAATAGCCTTCGATTTTTTTC
1 CAGTTTGTAGCTCACTCCCCAAATAGCCTTCAATTTATTTC
*
1891384 CAGTTTGTTGCTCACTCCCCAAATAGCCTTCAATTTATTTC
1 CAGTTTGTAGCTCACTCCCCAAATAGCCTTCAATTTATTTC
1891425 CA
1 CA
1891427 TCCCAATCTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.21, C:0.29, G:0.11, T:0.39
Consensus pattern (41 bp):
CAGTTTGTAGCTCACTCCCCAAATAGCCTTCAATTTATTTC
Found at i:1891734 original size:21 final size:21
Alignment explanation
Indices: 1891709--1891750 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1891699 AAATGCCCAC
* * *
1891709 CCCTTTCTGCTTTCTTCTGTA
1 CCCTTGCTGCATTCCTCTGTA
1891730 CCCTTGCTGCATTCCTCTGTA
1 CCCTTGCTGCATTCCTCTGTA
1891751 AACTTTGAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.07, C:0.36, G:0.12, T:0.45
Consensus pattern (21 bp):
CCCTTGCTGCATTCCTCTGTA
Found at i:1894363 original size:29 final size:29
Alignment explanation
Indices: 1894339--1894520 Score: 196
Period size: 29 Copynumber: 6.5 Consensus size: 29
1894329 TTAAAAGAAT
*
1894339 TTAC-AAAATATCACCCTTTTCAAAATAA
1 TTACTAAAATATCACCATTTTCAAAATAA
** **
1894367 TTACTAAAATATCA-TTTTTTTTAAAT--
1 TTACTAAAATATCACCATTTTCAAAATAA
* * * *
1894393 TTACGAAATTATCA-C-TTTTTAAAAAAA
1 TTACTAAAATATCACCATTTTCAAAATAA
** * *
1894420 TTAAGAAAATATCACAATTTTAAAAATAA
1 TTACTAAAATATCACCATTTTCAAAATAA
*
1894449 TTACCAAAATATCACCATTTTCAAAATAA
1 TTACTAAAATATCACCATTTTCAAAATAA
1894478 TTACTAAAATATCACCATTTTCAAAATAA
1 TTACTAAAATATCACCATTTTCAAAATAA
1894507 TTACTAAAATATCA
1 TTACTAAAATATCA
1894521 ACGGTCAACG
Statistics
Matches: 130, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
25 8 0.06
26 12 0.09
27 12 0.09
28 12 0.09
29 86 0.66
ACGTcount: A:0.48, C:0.14, G:0.01, T:0.36
Consensus pattern (29 bp):
TTACTAAAATATCACCATTTTCAAAATAA
Found at i:1901619 original size:28 final size:28
Alignment explanation
Indices: 1901562--1901765 Score: 143
Period size: 29 Copynumber: 7.3 Consensus size: 28
1901552 TACACACATT
* *
1901562 TATCACCCTTTTTAAAA-AATTTACAAAAA
1 TATCACCCTTTTCAAAATAA-TTAC-TAAA
*
1901591 TATCACCCTTTTCAAAATTATTACTAAA
1 TATCACCCTTTTCAAAATAATTACTAAA
** ** *
1901619 TATCA-TTTTTTTTAAAT--TTACGAAA
1 TATCACCCTTTTCAAAATAATTACTAAA
* *
1901644 TTATCA--CTTTTTAAAAAAATTA-TGAAAA
1 -TATCACCCTTTTCAAAATAATTACT--AAA
* * *
1901672 TAGCACCATTTTCAAAATAATTACCAAA
1 TATCACCCTTTTCAAAATAATTACTAAA
*
1901700 TATCACCATTTTCAAAATAATTACTAAAA
1 TATCACCCTTTTCAAAATAATTACT-AAA
** *
1901729 TATTGCCATTTTCAAAATAATTACTACAA
1 TATCACCCTTTTCAAAATAATTACTA-AA
1901758 TATCACCC
1 TATCACCC
1901766 GATCAACGGT
Statistics
Matches: 140, Mismatches: 24, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
25 15 0.11
26 5 0.04
27 15 0.11
28 38 0.27
29 66 0.47
30 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (28 bp):
TATCACCCTTTTCAAAATAATTACTAAA
Found at i:1901729 original size:57 final size:56
Alignment explanation
Indices: 1901562--1901764 Score: 159
Period size: 57 Copynumber: 3.6 Consensus size: 56
1901552 TACACACATT
* * * *
1901562 TATCACCCTTTTTAAAA-AATTTACAAAAATATCACCCTTTTCAAAATTATTACT-AAA
1 TATCACCATTTTCAAAATAA-TTAC-CAAATATCA-CCTTTTCAAAATAATTACTAAAA
** ** * * *
1901619 TATCA-TTTTTTTTAAAT--TTACGAAATTATCA-CTTTTTAAAAAAATTA-TGAAAA
1 TATCACCATTTTCAAAATAATTACCAAA-TATCACCTTTTCAAAATAATTACT-AAAA
*
1901672 TAGCACCATTTTCAAAATAATTACCAAATATCACCATTTTCAAAATAATTACTAAAA
1 TATCACCATTTTCAAAATAATTACCAAATATCACC-TTTTCAAAATAATTACTAAAA
** *
1901729 TATTGCCATTTTCAAAATAATTACTACAATATCACC
1 TATCACCATTTTCAAAATAATTACCA-AATATCACC
1901765 CGATCAACGG
Statistics
Matches: 116, Mismatches: 19, Indels: 21
0.74 0.12 0.13
Matches are distributed among these distances:
51 1 0.01
52 13 0.11
53 10 0.09
54 17 0.15
55 5 0.04
56 16 0.14
57 44 0.38
58 10 0.09
ACGTcount: A:0.44, C:0.17, G:0.02, T:0.37
Consensus pattern (56 bp):
TATCACCATTTTCAAAATAATTACCAAATATCACCTTTTCAAAATAATTACTAAAA
Found at i:1902836 original size:22 final size:22
Alignment explanation
Indices: 1902747--1902834 Score: 122
Period size: 22 Copynumber: 4.0 Consensus size: 22
1902737 GGGGCATTTA
* *
1902747 AATTTGTCTCGAAGGACCTATA
1 AATTTGTCCCGAAGGACCTATG
*
1902769 AATTTGTCCCAAAGGACCTATG
1 AATTTGTCCCGAAGGACCTATG
*
1902791 AATTTGTCCCGAAGGACCTCTG
1 AATTTGTCCCGAAGGACCTATG
* *
1902813 TATATGTCCCGAAGGACCTATG
1 AATTTGTCCCGAAGGACCTATG
1902835 TAACCCTGAC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.28
Consensus pattern (22 bp):
AATTTGTCCCGAAGGACCTATG
Found at i:1905867 original size:15 final size:15
Alignment explanation
Indices: 1905835--1905955 Score: 95
Period size: 15 Copynumber: 8.1 Consensus size: 15
1905825 GGATGATACA
* * *
1905835 GAAATGGGCAATGCT
1 GAAATGGGTAGTGGT
*
1905850 GAAATAGGTAGTGGT
1 GAAATGGGTAGTGGT
* *
1905865 GAAATGGATAGTGCT
1 GAAATGGGTAGTGGT
* *
1905880 GGAATGGGTAGTGTT
1 GAAATGGGTAGTGGT
*
1905895 GAAA-GGG-AGAATAAG-
1 GAAATGGGTAG--T-GGT
*
1905910 GAAATGGGCAGTGGT
1 GAAATGGGTAGTGGT
*
1905925 GAAATGGGTAGTGTT
1 GAAATGGGTAGTGGT
1905940 GAAATGGGTAGTGGT
1 GAAATGGGTAGTGGT
1905955 G
1 G
1905956 GAAGATCCAA
Statistics
Matches: 83, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
13 2 0.02
14 4 0.05
15 72 0.87
16 3 0.04
17 2 0.02
ACGTcount: A:0.31, C:0.03, G:0.41, T:0.24
Consensus pattern (15 bp):
GAAATGGGTAGTGGT
Found at i:1905871 original size:30 final size:30
Alignment explanation
Indices: 1905835--1905955 Score: 109
Period size: 30 Copynumber: 4.0 Consensus size: 30
1905825 GGATGATACA
* *
1905835 GAAATGGGCAATGCTGAAATAGGTAGTGGT
1 GAAATGGGTAATGCTGAAATGGGTAGTGGT
* * * *
1905865 GAAATGGATAGTGCTGGAATGGGTAGTGTT
1 GAAATGGGTAATGCTGAAATGGGTAGTGGT
* *** *
1905895 GAAA-GGGAGAATAAGGAAATGGGCAGTGGT
1 GAAATGGG-TAATGCTGAAATGGGTAGTGGT
* *
1905925 GAAATGGGTAGTGTTGAAATGGGTAGTGGT
1 GAAATGGGTAATGCTGAAATGGGTAGTGGT
1905955 G
1 G
1905956 GAAGATCCAA
Statistics
Matches: 68, Mismatches: 21, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
29 2 0.03
30 63 0.93
31 3 0.04
ACGTcount: A:0.31, C:0.03, G:0.41, T:0.24
Consensus pattern (30 bp):
GAAATGGGTAATGCTGAAATGGGTAGTGGT
Found at i:1906941 original size:34 final size:34
Alignment explanation
Indices: 1906893--1906957 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
1906883 TCTAAGTGAG
1906893 AATCAAGTTAACTTATTTATTTTCACTTGTAATA
1 AATCAAGTTAACTTATTTATTTTCACTTGTAATA
* *
1906927 AATCCAGTTAACTTATTTGTTTTCACTTGTA
1 AATCAAGTTAACTTATTTATTTTCACTTGTA
1906958 TTGAATACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.48
Consensus pattern (34 bp):
AATCAAGTTAACTTATTTATTTTCACTTGTAATA
Found at i:1907191 original size:18 final size:19
Alignment explanation
Indices: 1907147--1907198 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
1907137 TCCTATGGGG
*
1907147 AGTATCGATACTCTACCCTG
1 AGTATCGATACT-TACCCTA
*
1907167 TGTATCGATACTTA-CCTA
1 AGTATCGATACTTACCCTA
1907185 AGTATCGATACTTA
1 AGTATCGATACTTA
1907199 ATTTAGATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 16 0.55
19 2 0.07
20 11 0.38
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (19 bp):
AGTATCGATACTTACCCTA
Found at i:1910029 original size:77 final size:77
Alignment explanation
Indices: 1909880--1910040 Score: 223
Period size: 77 Copynumber: 2.1 Consensus size: 77
1909870 CTCAAGTTAT
* *
1909880 TTATTGTTCAAGAATATATTGAACTATAATTGTGGTTTCTGTCATGTTATGTTAATTGAACATCC
1 TTATTGTTCAAGAATATATTGAACTATAATTGTGGTTTCTGTCATGTTATGTTAATTGAAAAACC
**
1909945 ATTTAGGTCATG
66 AACTAGGTCATG
* * * * * *
1909957 TTATTGTTTAAGCATATATTGAACTATTATTGTGGTTTTTGTCATTTTATGTTAATTGAAAAAGC
1 TTATTGTTCAAGAATATATTGAACTATAATTGTGGTTTCTGTCATGTTATGTTAATTGAAAAACC
1910022 AACTAGGTCATG
66 AACTAGGTCATG
*
1910034 TTGTTGT
1 TTATTGT
1910041 GGTTTTATTT
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (77 bp):
TTATTGTTCAAGAATATATTGAACTATAATTGTGGTTTCTGTCATGTTATGTTAATTGAAAAACC
AACTAGGTCATG
Found at i:1910095 original size:34 final size:34
Alignment explanation
Indices: 1910057--1910136 Score: 99
Period size: 33 Copynumber: 2.4 Consensus size: 34
1910047 ATTTTATGTT
1910057 AATTGAATTGTTAAAGGTTATTTTAGAGGACTGA
1 AATTGAATTGTTAAAGGTTATTTTAGAGGACTGA
* * * * *
1910091 AATTGAATTATT-AATGTTATTTTGGAGGATTGT
1 AATTGAATTGTTAAAGGTTATTTTAGAGGACTGA
*
1910124 TATTGAATTGTTA
1 AATTGAATTGTTA
1910137 CTGAACAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
33 27 0.71
34 11 0.29
ACGTcount: A:0.33, C:0.01, G:0.21, T:0.45
Consensus pattern (34 bp):
AATTGAATTGTTAAAGGTTATTTTAGAGGACTGA
Found at i:1912040 original size:21 final size:21
Alignment explanation
Indices: 1911969--1912066 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
1911959 AATTTGTCCT
* * *
1911969 GAAGGGCCTCATGTATGTCCC
1 GAAGGACCTCATATATGTTCC
* **
1911990 GAAGGACCTCGTA-ATGACCC
1 GAAGGACCTCATATATGTTCC
* *
1912010 AAAAGACCTCATATATGTAT-C
1 GAAGGACCTCATATATGT-TCC
*
1912031 GAAGGACCTCGTATATGTTCC
1 GAAGGACCTCATATATGTTCC
*
1912052 GAAGGACTTCATATA
1 GAAGGACCTCATATA
1912067 ACCCCAACTC
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
20 17 0.28
21 43 0.72
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (21 bp):
GAAGGACCTCATATATGTTCC
Found at i:1919344 original size:62 final size:64
Alignment explanation
Indices: 1919215--1919371 Score: 162
Period size: 62 Copynumber: 2.5 Consensus size: 64
1919205 AATTAAATTG
* * *
1919215 AACATCGAATGCATTTCATGCATCGATGCACATACCAGCACCGATGCACTGAGGATTTTATGAA
1 AACATCGAATGCACTTGATGCATCGATGCACATACCAGCACCGATGCACTCAGGATTTTATGAA
* * * *
1919279 AACATCGAATGCA-TTGA-GCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTT-TG
1 AACATCGAATGCACTTGATGCATCGATGCA-CATACCA-GCACCGATGCACTCAGGAT-TTTATG
1919340 -A
63 AA
* * *
1919341 AACATCAAATGCACTTGATGCTTCAATGCAC
1 AACATCGAATGCACTTGATGCATCGATGCAC
1919372 TCTTAGTGCA
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
62 27 0.34
63 27 0.34
64 25 0.32
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (64 bp):
AACATCGAATGCACTTGATGCATCGATGCACATACCAGCACCGATGCACTCAGGATTTTATGAA
Found at i:1920882 original size:21 final size:21
Alignment explanation
Indices: 1920852--1920910 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1920842 TAAAATTTAT
* * *
1920852 CCGAATGACCTCATGTATGTC
1 CCGAAGGACCTCATATATATC
*
1920873 CCGAAGGACCTCGTATATATC
1 CCGAAGGACCTCATATATATC
*
1920894 CCGAAGGACTTCATATA
1 CCGAAGGACCTCATATA
1920911 ACCCTCGACT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (21 bp):
CCGAAGGACCTCATATATATC
Found at i:1921622 original size:15 final size:15
Alignment explanation
Indices: 1921602--1921632 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1921592 ATTGCCTTAC
*
1921602 GGTATCGGTACCCTT
1 GGTATCGATACCCTT
1921617 GGTATCGATACCCTT
1 GGTATCGATACCCTT
1921632 G
1 G
1921633 AATAACTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.32
Consensus pattern (15 bp):
GGTATCGATACCCTT
Found at i:1927879 original size:11 final size:11
Alignment explanation
Indices: 1927849--1927884 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
1927839 TAAAATTATA
1927849 AAATTATAAAT
1 AAATTATAAAT
1927860 GAAATTATAAAT
1 -AAATTATAAAT
*
1927872 ATATTATAAAT
1 AAATTATAAAT
1927883 AA
1 AA
1927885 TATATACCGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAATTATAAAT
Found at i:1927887 original size:12 final size:12
Alignment explanation
Indices: 1927846--1927887 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
1927836 ACATAAAATT
*
1927846 ATAAAATTATAA
1 ATAATATTATAA
1927858 ATGAA-ATTATAA
1 AT-AATATTATAA
1927870 AT-ATATTATAA
1 ATAATATTATAA
1927881 ATAATAT
1 ATAATAT
1927888 ATACCGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 1 0.04
11 9 0.33
12 15 0.56
13 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (12 bp):
ATAATATTATAA
Found at i:1931282 original size:37 final size:37
Alignment explanation
Indices: 1931199--1931282 Score: 132
Period size: 37 Copynumber: 2.3 Consensus size: 37
1931189 AAACCTGACC
* * *
1931199 CGACCTGACCCGACCCGAATATCACACTTAAAAACCC
1 CGACCCGACCCGACCCGAATATCACACTTAAAAAACA
*
1931236 CGACTCGACCCGACCCGAATATCACACTTAAAAAACA
1 CGACCCGACCCGACCCGAATATCACACTTAAAAAACA
1931273 CGACCCGACC
1 CGACCCGACC
1931283 TGAACAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.36, C:0.40, G:0.12, T:0.12
Consensus pattern (37 bp):
CGACCCGACCCGACCCGAATATCACACTTAAAAAACA
Found at i:1936257 original size:21 final size:22
Alignment explanation
Indices: 1936228--1936280 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
1936218 GTTGATGTGT
*
1936228 AATGCTTGAATGA-GTTGTTAG
1 AATGATTGAATGATGTTGTTAG
1936249 AATGATTGAAT-ATGTTGTTAG
1 AATGATTGAATGATGTTGTTAG
*
1936270 GA-GATTGAATG
1 AATGATTGAATG
1936281 GAAGTTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.32, C:0.02, G:0.28, T:0.38
Consensus pattern (22 bp):
AATGATTGAATGATGTTGTTAG
Found at i:1939709 original size:21 final size:22
Alignment explanation
Indices: 1939680--1939732 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
1939670 GTTGATCTGT
1939680 AATGCTTGAATGA-GTTGTTAG
1 AATGCTTGAATGATGTTGTTAG
*
1939701 AATGATTGAAT-ATGTTGTTAG
1 AATGCTTGAATGATGTTGTTAG
1939722 AA-GCTTGAATG
1 AATGCTTGAATG
1939733 GAAGCTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (22 bp):
AATGCTTGAATGATGTTGTTAG
Found at i:1947542 original size:20 final size:22
Alignment explanation
Indices: 1947499--1947543 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
1947489 CTCATGAGGA
1947499 AACCGATTCCCCCTTTGAAGGGG
1 AACCGATTCCCCCTTT-AAGGGG
1947522 AACCGATTCCCCC-TT-AGGGG
1 AACCGATTCCCCCTTTAAGGGG
1947542 AA
1 AA
1947544 TTGATACCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
22 2 0.09
23 13 0.59
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.20
Consensus pattern (22 bp):
AACCGATTCCCCCTTTAAGGGG
Found at i:1950349 original size:19 final size:19
Alignment explanation
Indices: 1950325--1950369 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
1950315 AATTTTACAC
1950325 TTAGGGAACCGATTCCCCA
1 TTAGGGAACCGATTCCCCA
*
1950344 TTAGGGGTACCGATTCCCCA
1 TTA-GGGAACCGATTCCCCA
1950364 TTAGGG
1 TTAGGG
1950370 GTACTGATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (19 bp):
TTAGGGAACCGATTCCCCA
Found at i:1950357 original size:20 final size:20
Alignment explanation
Indices: 1950332--1950382 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1950322 CACTTAGGGA
1950332 ACCGATTCCCCATTAGGGGT
1 ACCGATTCCCCATTAGGGGT
1950352 ACCGATTCCCCATTAGGGGT
1 ACCGATTCCCCATTAGGGGT
*
1950372 ACTGATTCCCC
1 ACCGATTCCCC
1950383 CCACGCTCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.25
Consensus pattern (20 bp):
ACCGATTCCCCATTAGGGGT
Found at i:1951657 original size:26 final size:27
Alignment explanation
Indices: 1951622--1951681 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
1951612 ATTATGAAAA
* * *
1951622 TATTTATTTA-ATCTTTAAAATAATAT
1 TATTTTTTTATATATTTAAAATAAGAT
* *
1951648 TATTTTTTTATTTATTTGAAATAAGAT
1 TATTTTTTTATATATTTAAAATAAGAT
1951675 TATTTTT
1 TATTTTT
1951682 AGATTATCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (27 bp):
TATTTTTTTATATATTTAAAATAAGAT
Found at i:1952227 original size:24 final size:27
Alignment explanation
Indices: 1952182--1952240 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 27
1952172 CATAAAAACT
*
1952182 TAATATTATTATATTTGAAATATTAGAA
1 TAATATTATTATATTT-AAATATTAAAA
1952210 TAAT-TTATT-TATTT-AATATTAAAA
1 TAATATTATTATATTTAAATATTAAAA
*
1952234 TATTATT
1 TAATATT
1952241 TCTATAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 12 0.43
25 2 0.07
26 5 0.18
27 5 0.18
28 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (27 bp):
TAATATTATTATATTTAAATATTAAAA
Found at i:1952248 original size:22 final size:22
Alignment explanation
Indices: 1952200--1952263 Score: 56
Period size: 25 Copynumber: 2.7 Consensus size: 22
1952190 TTATATTTGA
* *
1952200 AATATTAGAATAATTTATTTATTT
1 AATATTAAAAT-A-TTATTTATAT
*
1952224 AATATTAAAATATTATTTCTAT
1 AATATTAAAATATTATTTATAT
1952246 AATTTTATTAAAATATTA
1 AA---TATTAAAATATTA
1952264 AGATTGGTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 10 0.29
23 1 0.03
24 10 0.29
25 13 0.38
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
AATATTAAAATATTATTTATAT
Found at i:1952499 original size:8 final size:8
Alignment explanation
Indices: 1952488--1952554 Score: 50
Period size: 8 Copynumber: 8.6 Consensus size: 8
1952478 ATATAATACC
1952488 TTATATTA
1 TTATATTA
*
1952496 TTATAATA
1 TTATATTA
1952504 -TA-ATTGA
1 TTATATT-A
1952511 TTATATTA
1 TTATATTA
*
1952519 TTATAATA
1 TTATATTA
* *
1952527 TTAGA-AA
1 TTATATTA
* *
1952534 ATATAATA
1 TTATATTA
1952542 TTATATTA
1 TTATATTA
1952550 TTATA
1 TTATA
1952555 AATATTTTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
6 2 0.04
7 7 0.16
8 33 0.73
9 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (8 bp):
TTATATTA
Found at i:1952505 original size:23 final size:23
Alignment explanation
Indices: 1952477--1952527 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
1952467 TTAAAATAAA
*
1952477 AATATAATACCTTATATTATTAT
1 AATATAATACATTATATTATTAT
**
1952500 AATATAATTGATTATATTATTAT
1 AATATAATACATTATATTATTAT
1952523 AATAT
1 AATAT
1952528 TAGAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (23 bp):
AATATAATACATTATATTATTAT
Found at i:1952523 original size:31 final size:30
Alignment explanation
Indices: 1952500--1952560 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 30
1952490 ATATTATTAT
1952500 AATATAATTGATTATATTATTATAATATTAGAA
1 AATATAA-T-ATTATATTATTATAATATTA-AA
1952533 AATATAATATTATATTATTATAAATATT
1 AATATAATATTATATTATTAT-AATATT
1952561 TTAATAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
31 13 0.48
32 7 0.26
33 7 0.26
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
AATATAATATTATATTATTATAATATTAAA
Found at i:1952538 original size:23 final size:23
Alignment explanation
Indices: 1952489--1952552 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
1952479 TATAATACCT
* *** *
1952489 TATATTATTATAATATAATTGAT
1 TATATTATTATAATATTAGAAAA
1952512 TATATTATTATAATATTAGAAAA
1 TATATTATTATAATATTAGAAAA
* *
1952535 TATAATATTATATTATTA
1 TATATTATTATAATATTA
1952553 TAAATATTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (23 bp):
TATATTATTATAATATTAGAAAA
Found at i:1955039 original size:16 final size:16
Alignment explanation
Indices: 1954997--1955032 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1954987 AAACAATATG
1954997 CACAAAATATAAACAA
1 CACAAAATATAAACAA
*
1955013 CACAAAATATAAGCAA
1 CACAAAATATAAACAA
1955029 CACA
1 CACA
1955033 TGATATAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.64, C:0.22, G:0.03, T:0.11
Consensus pattern (16 bp):
CACAAAATATAAACAA
Found at i:1956690 original size:3 final size:3
Alignment explanation
Indices: 1956682--1956731 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
1956672 CCTGCAAATG
* * *
1956682 TAA TAA TAA TAA TAT TAA TAA TAG TAA TAG TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1956730 TA
1 TA
1956732 TAAACCCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1957239 original size:118 final size:117
Alignment explanation
Indices: 1956970--1957383 Score: 417
Period size: 118 Copynumber: 3.6 Consensus size: 117
1956960 AAATACTGAT
* * *
1956970 GCAAGGCTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTTAGATGAGTTCTTCTCATT
1 GCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTTGGATGAGTTCTTCTCATT
** * *
1957035 ATGAACTCTCCACTGTAAATTTTGATCCACCTCCTTCTGTGATGGAATCGAA
66 ATGAACTCTCCACTAAAAATGTTGATCCACCTCATTCTGTGATGGAATCGAA
* * * * * * *
1957087 TCAAAGTTTAACAAGTTCTTCTCATTATGAACTTATCCTCCCTCATTGGACT-AGTTGTTCTCAT
1 GCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTTGGA-TGAGTTCTTCTCAT
* * *
1957151 TATGAACTCTCCATTAAAAATGTTGAGT-CACCTCATTCTAG-GGT-GAACTTGAAA
65 TATGAACTCTCCACTAAAAATGTTGA-TCCACCTCATTCT-GTGATGGAA-TCG-AA
*
1957205 GGAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTTGGATGAGTTCTTCTCATT
1 GCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTTGGATGAGTTCTTCTCATT
** * * * * *
1957270 ATGAACTCTCCACTGGAAATATTGATCCATCTCCTTCTGTGGT-GAATTTG-A
66 ATGAACTCTCCACTAAAAATGTTGATCCACCTCATTCTGTGATGGAA-TCGAA
* * *
1957321 --AA-G--GAACAAGTTCTTCTCATTATGAAC-T-TT-TTCCT-TTAGGACGAGTTATTCTCATT
1 GCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTTGGATGAGTTCTTCTCATT
1957377 ATGAACT
66 ATGAACT
1957384 TTTTGGAAAT
Statistics
Matches: 254, Mismatches: 35, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
107 25 0.10
108 5 0.02
109 2 0.01
110 1 0.00
111 24 0.09
113 1 0.00
114 2 0.01
116 4 0.02
117 91 0.36
118 99 0.39
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (117 bp):
GCAAGGTTGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTCTTTGGATGAGTTCTTCTCATT
ATGAACTCTCCACTAAAAATGTTGATCCACCTCATTCTGTGATGGAATCGAA
Found at i:1957243 original size:20 final size:21
Alignment explanation
Indices: 1957218--1957276 Score: 63
Period size: 19 Copynumber: 3.0 Consensus size: 21
1957208 AGGTTGAACA
*
1957218 AGTTCTTCTCATTATGAACTT
1 AGTTCTTCTCATTATGAACTG
*
1957239 A-TTCTTCCTC-TT-TGGA-TG
1 AGTTCTT-CTCATTATGAACTG
1957257 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
1957277 CTCCACTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
18 5 0.17
19 10 0.33
20 10 0.33
21 5 0.17
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (21 bp):
AGTTCTTCTCATTATGAACTG
Found at i:1957541 original size:136 final size:134
Alignment explanation
Indices: 1957324--1957712 Score: 596
Period size: 136 Copynumber: 2.9 Consensus size: 134
1957314 AATTTGAAAG
* * *
1957324 GAACAAGTTCTTCTCATTATGAACTT-TT-T-CCT-TTAGGACGAGTTATTCTCATTATGAACT-
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTCGGATGAGTT-TTCTCATTATGAACTC
*
1957384 T--TTTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGCCGTGAATCGAGTGAT
65 TCAATTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGCCGTGAATCGAGTGAT
1957447 AGGTC
130 AGGTC
1957452 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTCTCATTATGAACT
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCT-TCGGATGAGTT-TTCTCATTATGAACT
*
1957517 CTCAATTGGAAATGTCAATCCCTCAAGCGAGGCATCACTGATTCAAAATGCCGTGAATCGAGTGA
64 CTCAATTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGCCGTGAATCGAGTGA
1957582 TAGGTC
129 TAGGTC
*
1957588 GAACAATCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTTT-TCATTATGAACTC
1 GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCT-TCGGATGAGTTTTCTCATTATGAACTC
* * * *
1957652 TCAATTAGAAATGTCAATCCCTCAAGCAAGGCGTCACTGATTCAAAATGTCATGAATCGAG
65 TCAATTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGCCGTGAATCGAG
1957713 CAACGAAAAT
Statistics
Matches: 240, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
128 25 0.10
129 2 0.01
130 1 0.00
131 3 0.01
132 1 0.00
133 24 0.10
134 70 0.29
135 2 0.01
136 112 0.47
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (134 bp):
GAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTTCGGATGAGTTTTCTCATTATGAACTCT
CAATTGGAAATGTCAATCCCTCAAGCGAGGCGTCACTGATTCAAAATGCCGTGAATCGAGTGATA
GGTC
Found at i:1957810 original size:42 final size:41
Alignment explanation
Indices: 1957764--1957877 Score: 174
Period size: 42 Copynumber: 2.7 Consensus size: 41
1957754 ATCTTTCTCG
* * *
1957764 AAAGACTTACAGATGACCCGAAGGATTTAAGCATCATGCTTA
1 AAAGACTTACTGATGACCCGAAGGATTTAA-CATCATGATCA
*
1957806 AAAGACTTACTGATGACCCGAAGGATTTACACATCATGATCG
1 AAAGACTTACTGATGACCCGAAGGATTTA-ACATCATGATCA
1957848 AAAGACTTACTGATGACCCGAAGGATTTAA
1 AAAGACTTACTGATGACCCGAAGGATTTAA
1957878 AAATCGAGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
41 1 0.01
42 65 0.97
43 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (41 bp):
AAAGACTTACTGATGACCCGAAGGATTTAACATCATGATCA
Found at i:1963167 original size:777 final size:777
Alignment explanation
Indices: 1961676--1964004 Score: 4260
Period size: 777 Copynumber: 3.0 Consensus size: 777
1961666 TTTTAAAAAA
1961676 TCTGATATAGGTGTCTGAGGTGTCTTCTGGGTTACATCTT-TCCCATTCCTTCTTAGACCTATGG
1 TCTGATATAGGTGTCTGAGGTGTCTTCTGGGTTACATCTTCT-CCATTCCTTCTTAGACCTATGG
* *
1961740 GCCAATCTCGAATTACCTTTCATTTTATTTCTTTATTTCTCATCTCTTTCTCATTCTTTAGCATA
65 GCCAATCTCGAATTACCTTTCCTTTTATTTCTTTATTTCTCATCTCTTTCTCATTCTTTAGCATC
* *
1961805 AGTGAAGTATCGAGAGTTAAATCTGCCATACATACTTCACATTCCTTAGTTTTTCCTTTTTT-TT
130 AGAGAAGTATCGAGAGTTAAATCTGCCATACATACTTCACATTCCTTAGTTTTGCCTTTTTTCTT
*
1961869 TTCAATGTCCTCTGATGTATGAACCTCACTTGTTTTGACACTATCAACTTCATTTT--GGTTTGA
195 TTCAATGTCCTCTGATGTATGAACTTCACTTGTTTTGACACTATCAACTTCATTTTGGGGTTTGA
*
1961932 ATCCCAATTTT-TGGATAAACAGGGATTGACTGTTAACATCCACTTCTATGAACTTATGAACCAA
260 ATCCCAATTTTCT-GATCAACAGGGATTGACTGTTAACATCCACTTCTATGAACTTATGAACCAA
* **
1961996 AAGGTCTTGAACTCGTCGTTTGAAGTTA-CTGTAATTCTCAATAAAGTGTCCTCGAATTCCAACA
324 AAGGTCTTGAACTCGTCGTTTGAAGTTACCT-TAATTCTCGATGGAGTGTCCTCGAATTCCAACA
*
1962060 TGATATTCACAAAAGACTTTCTCATTATACCATCTCGGGTAAGGAGAAAATAAAGGCTTAGCCTG
388 TGATATTCACAAAAGACTTTCTCATTATACCATCTCGGGTAAGGAGGAAATAAAGGCTTAGCCTG
*
1962125 ACATGGGGCAATAAGTTGGTCTTTGAGTAACTCAGGATATAACTTGCTGCACGAAATTGAAGGAA
453 ACATGGGGTAATAAGTTGGTCTTTGAGTAACTCAGGATATAACTTGCTGCACGAAATTGAAGGAA
* *
1962190 ACTTATGTAGAATTTCCTTTGACATCACTGTCTCCTTATAATCGTTTACTTTGCTTTCTTGAAGA
518 ACTTAGGTAGAATTTCCTTTGACATCACTGTCTCCTTACAATCGTTTACTTTGCTTTCTTGAAGA
*
1962255 CCTTGTGACTGATGACCAAAATGTTTGCTTTGAATGTTTGATCATTGACCAATATCATGAGAAAG
583 CCTTGTGACTGATGACCAAAATGTTTTCTTTGAATGTTTGATCATTGACCAATATCATGAGAAAG
* * *
1962320 ACAATAATTCAAAAAATTATCTTTCTCGACCAGTTTTGAGTTTTTGAGGAGCCTAGGTTTCCCAT
648 ACAATAATTCGAAAATTTATATTTCTCGACCAGTTTTGAGTTTTTGAGGAGCCTAGGTTTCCCAT
1962385 CTTCAAAACATA-ACAACCCTTCTGTTATAAGATCTTGGACTTTTGATCTCAGAATTATGCAATT
713 CTTCAAAACATAGA-AACCCTTCTGTTATAAGATCTTGGACTTTTGATCTCAGAATTATGCAATT
1962449 T
777 T
*
1962450 TCTGATATAGGTGTCTGAGGTGTCTTCTGGGTTACATCTTCTCCATTCCTTCTTAGACCTATGAG
1 TCTGATATAGGTGTCTGAGGTGTCTTCTGGGTTACATCTTCTCCATTCCTTCTTAGACCTATGGG
*
1962515 CCAATCTCGAATTACTTTTCCTTTTATTTCTTTATTTCTCATCTCTTTCTCATTCTTTAGCATCA
66 CCAATCTCGAATTACCTTTCCTTTTATTTCTTTATTTCTCATCTCTTTCTCATTCTTTAGCATCA
1962580 GAGAAGTATCGAGAGTTAAATCTGCCATACATACTTCACATTCCTTAGTTTTGCCTTTTTTCTTT
131 GAGAAGTATCGAGAGTTAAATCTGCCATACATACTTCACATTCCTTAGTTTTGCCTTTTTTCTTT
* *
1962645 TCAATGTCCTCTGATGTATGAACTTCACTTGTTTTGATACTATTAACTTCATTTTGGGGTTTGAA
196 TCAATGTCCTCTGATGTATGAACTTCACTTGTTTTGACACTATCAACTTCATTTTGGGGTTTGAA
* * *
1962710 TCCCAATTTTCTGATCAATAGGGATTGACTATTAACTTCCACTTCTATGAACTTATGAACCAAAA
261 TCCCAATTTTCTGATCAACAGGGATTGACTGTTAACATCCACTTCTATGAACTTATGAACCAAAA
1962775 GGTCTTGAACTCGTCGTTTGAAGTTACCTTAATTCTCGATGGAGTGTCCTCGAATTCCAACATGA
326 GGTCTTGAACTCGTCGTTTGAAGTTACCTTAATTCTCGATGGAGTGTCCTCGAATTCCAACATGA
*
1962840 TATTCACAAAAGACTTTCTCATTATACCATCTCGGGTAAGGAGGAAATAAAGACTTAGCCTGACA
391 TATTCACAAAAGACTTTCTCATTATACCATCTCGGGTAAGGAGGAAATAAAGGCTTAGCCTGACA
1962905 TGGGGTAATAAGTTGGTCTTTGAGTAACTCAGGATATAACTTGCTGCACGAAATTGAAGGAAACT
456 TGGGGTAATAAGTTGGTCTTTGAGTAACTCAGGATATAACTTGCTGCACGAAATTGAAGGAAACT
1962970 TAGGTAGAATTTCCTTTGACATCACTGTCTCCTTACAATCGTTTACTTTGCTTTCTTGAAGACCT
521 TAGGTAGAATTTCCTTTGACATCACTGTCTCCTTACAATCGTTTACTTTGCTTTCTTGAAGACCT
1963035 TGTGACTGATGACCAAAATGTTTTCTTTGAATGTTTGATCATTGACCAATATCATGAGAAAGACA
586 TGTGACTGATGACCAAAATGTTTTCTTTGAATGTTTGATCATTGACCAATATCATGAGAAAGACA
1963100 ATAATTCGAAAATTTATATTTCTCGACCAGTTTTGAGTTTTTGAGGAGCCTAGGTTTCCCATCTT
651 ATAATTCGAAAATTTATATTTCTCGACCAGTTTTGAGTTTTTGAGGAGCCTAGGTTTCCCATCTT
1963165 CAAAACATAGAAACCCTTCTGTTATAAGATCTTGGACTTTTGATCTCAGAATTATGCAATTT
716 CAAAACATAGAAACCCTTCTGTTATAAGATCTTGGACTTTTGATCTCAGAATTATGCAATTT
*
1963227 TCTGATATAGGTGTCTGAGGTGTCTTCTGGGTTACATCTTCTCCATTCGTTCTTAGACCTATGGG
1 TCTGATATAGGTGTCTGAGGTGTCTTCTGGGTTACATCTTCTCCATTCCTTCTTAGACCTATGGG
*
1963292 CCAATCTCTAATTACCTTTCCTTTTATTTCTTTATTTCTCATCTCTTTCTCATTCTTTAGCATCA
66 CCAATCTCGAATTACCTTTCCTTTTATTTCTTTATTTCTCATCTCTTTCTCATTCTTTAGCATCA
*
1963357 GAGAAGTATCGAGAGTTAAATCTGCTATACATACTTCACATTCCTTAGTTTTGCCTTTTTTCTTT
131 GAGAAGTATCGAGAGTTAAATCTGCCATACATACTTCACATTCCTTAGTTTTGCCTTTTTTCTTT
1963422 TCAATGTCCTCTGATGTATGAACTTCACTTGTTTTGACACTATCAACTTCATTTTGGGGTTTGAA
196 TCAATGTCCTCTGATGTATGAACTTCACTTGTTTTGACACTATCAACTTCATTTTGGGGTTTGAA
*
1963487 TCCCAATTTTCTGATCAACAGGGATTGACTGTTAACATCCACTTCTATGAACTTATGAACCAAAG
261 TCCCAATTTTCTGATCAACAGGGATTGACTGTTAACATCCACTTCTATGAACTTATGAACCAAAA
*
1963552 GGTCTTGAACTCGTCGTTTGAAGTTACCGTAATTCTCGATGGAGTGTCCTCGAATTCCAACATGA
326 GGTCTTGAACTCGTCGTTTGAAGTTACCTTAATTCTCGATGGAGTGTCCTCGAATTCCAACATGA
*
1963617 TATTCACAAAAGACTTTCTCATTATACCATCTCAGGTAAGGAGGAAATAAAGGCTTAGCCTGACA
391 TATTCACAAAAGACTTTCTCATTATACCATCTCGGGTAAGGAGGAAATAAAGGCTTAGCCTGACA
1963682 T-GGGTCAATAAGTTGGTCTTTGAGTAACTCAGGATATAACTTGCTGCACGAAATTGAAGGAAAC
456 TGGGGT-AATAAGTTGGTCTTTGAGTAACTCAGGATATAACTTGCTGCACGAAATTGAAGGAAAC
1963746 TTAGGTAGAATTTCCTTTGACATCACTGTCTCCTTACAATCGTTTACTTTGCTTTCTTGAAGACC
520 TTAGGTAGAATTTCCTTTGACATCACTGTCTCCTTACAATCGTTTACTTTGCTTTCTTGAAGACC
1963811 TTGTGACTGATGACCAAAATGTTTTCTTTGAATGTTTGATCATTGACCAATATCATGAGAAAGAC
585 TTGTGACTGATGACCAAAATGTTTTCTTTGAATGTTTGATCATTGACCAATATCATGAGAAAGAC
**
1963876 AATAATTCGAAAATTTATATTTCTAAACCAGTTTTGAGTTTTTGAGGAGCCTAGGTTTCCCATCT
650 AATAATTCGAAAATTTATATTTCTCGACCAGTTTTGAGTTTTTGAGGAGCCTAGGTTTCCCATCT
1963941 TCAAAACATAGAAACCCTTCTGTTATAAGATCTTGGACTTTTGATCTCAGAATTATGCAATTT
715 TCAAAACATAGAAACCCTTCTGTTATAAGATCTTGGACTTTTGATCTCAGAATTATGCAATTT
1964004 T
1 T
1964005 ATGTAGAGTG
Statistics
Matches: 1506, Mismatches: 41, Indels: 13
0.97 0.03 0.01
Matches are distributed among these distances:
774 183 0.12
775 56 0.04
776 4 0.00
777 1259 0.84
778 4 0.00
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (777 bp):
TCTGATATAGGTGTCTGAGGTGTCTTCTGGGTTACATCTTCTCCATTCCTTCTTAGACCTATGGG
CCAATCTCGAATTACCTTTCCTTTTATTTCTTTATTTCTCATCTCTTTCTCATTCTTTAGCATCA
GAGAAGTATCGAGAGTTAAATCTGCCATACATACTTCACATTCCTTAGTTTTGCCTTTTTTCTTT
TCAATGTCCTCTGATGTATGAACTTCACTTGTTTTGACACTATCAACTTCATTTTGGGGTTTGAA
TCCCAATTTTCTGATCAACAGGGATTGACTGTTAACATCCACTTCTATGAACTTATGAACCAAAA
GGTCTTGAACTCGTCGTTTGAAGTTACCTTAATTCTCGATGGAGTGTCCTCGAATTCCAACATGA
TATTCACAAAAGACTTTCTCATTATACCATCTCGGGTAAGGAGGAAATAAAGGCTTAGCCTGACA
TGGGGTAATAAGTTGGTCTTTGAGTAACTCAGGATATAACTTGCTGCACGAAATTGAAGGAAACT
TAGGTAGAATTTCCTTTGACATCACTGTCTCCTTACAATCGTTTACTTTGCTTTCTTGAAGACCT
TGTGACTGATGACCAAAATGTTTTCTTTGAATGTTTGATCATTGACCAATATCATGAGAAAGACA
ATAATTCGAAAATTTATATTTCTCGACCAGTTTTGAGTTTTTGAGGAGCCTAGGTTTCCCATCTT
CAAAACATAGAAACCCTTCTGTTATAAGATCTTGGACTTTTGATCTCAGAATTATGCAATTT
Found at i:1964740 original size:27 final size:29
Alignment explanation
Indices: 1964708--1964776 Score: 92
Period size: 27 Copynumber: 2.5 Consensus size: 29
1964698 GTTTGAAAAA
*
1964708 AAATACAAATGCAAAAAATG-AAA-ATGT
1 AAATACAAATGCAAAAAATGAAAAGATGC
*
1964735 AAATACAAATG--TAAAATGAAAAGATGC
1 AAATACAAATGCAAAAAATGAAAAGATGC
1964762 AAATACAAATGCAAA
1 AAATACAAATGCAAA
1964777 TGAAAAACGT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 6 0.17
26 3 0.09
27 25 0.71
29 1 0.03
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.17
Consensus pattern (29 bp):
AAATACAAATGCAAAAAATGAAAAGATGC
Found at i:1967805 original size:16 final size:16
Alignment explanation
Indices: 1967784--1967814 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1967774 AATATGCACA
1967784 AAATATAAACAACACG
1 AAATATAAACAACACG
*
1967800 AAATATAAGCAACAC
1 AAATATAAACAACAC
1967815 ATGATATAGA
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:0.61, C:0.19, G:0.06, T:0.13
Consensus pattern (16 bp):
AAATATAAACAACACG
Found at i:1969434 original size:3 final size:3
Alignment explanation
Indices: 1969426--1969469 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
1969416 CCTGCAAATG
* *
1969426 TAA TAA TAA TAA TAT TAA TAA TAG TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1969470 TAAACCCGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1977623 original size:14 final size:14
Alignment explanation
Indices: 1977604--1977637 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
1977594 GATGAGGCAG
1977604 AAGAAGTTCATAAT
1 AAGAAGTTCATAAT
1977618 AAGAAGTTCATAAT
1 AAGAAGTTCATAAT
1977632 AAGAAG
1 AAGAAG
1977638 AACTTGAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.24
Consensus pattern (14 bp):
AAGAAGTTCATAAT
Found at i:1982002 original size:32 final size:33
Alignment explanation
Indices: 1981951--1982018 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
1981941 CAACATAGTC
* *
1981951 AGTAGTTGCATTCAGATAATGCACAGTAGAACT
1 AGTAGTTGCATTAAGATAATGCACAATAGAACT
* *
1981984 AGTA-TTGCATTAATATAATGCACAATAGAATT
1 AGTAGTTGCATTAAGATAATGCACAATAGAACT
1982016 AGT
1 AGT
1982019 CTTTCCTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 27 0.87
33 4 0.13
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.31
Consensus pattern (33 bp):
AGTAGTTGCATTAAGATAATGCACAATAGAACT
Found at i:1984248 original size:16 final size:17
Alignment explanation
Indices: 1984229--1984263 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1984219 ATTATTCCAG
*
1984229 ATTAAAT-TCTAAATAA
1 ATTAAATATATAAATAA
1984245 ATTAAATATATAAATAA
1 ATTAAATATATAAATAA
1984262 AT
1 AT
1984264 AAACAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTAAATATATAAATAA
Found at i:1986322 original size:13 final size:13
Alignment explanation
Indices: 1986304--1986338 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
1986294 TAGAAAATAA
1986304 CTTTTAAAAGTGT
1 CTTTTAAAAGTGT
1986317 CTTTTAAAAGTGT
1 CTTTTAAAAGTGT
1986330 -TGTTTAAAA
1 CT-TTTAAAA
1986339 TTTAACTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 1 0.05
13 20 0.95
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (13 bp):
CTTTTAAAAGTGT
Found at i:1987044 original size:18 final size:15
Alignment explanation
Indices: 1986999--1987039 Score: 82
Period size: 15 Copynumber: 2.7 Consensus size: 15
1986989 TAAAATTTAA
1986999 AATAAATTATTAAGT
1 AATAAATTATTAAGT
1987014 AATAAATTATTAAGT
1 AATAAATTATTAAGT
1987029 AATAAATTATT
1 AATAAATTATT
1987040 TTTAAGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (15 bp):
AATAAATTATTAAGT
Found at i:1987967 original size:21 final size:22
Alignment explanation
Indices: 1987934--1987974 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1987924 CCAGAACTGG
1987934 GAGTACCGATACT-CCTTTAAT
1 GAGTACCGATACTACCTTTAAT
* *
1987955 GAGTATCGGTACTACCTTTA
1 GAGTACCGATACTACCTTTA
1987975 TAATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (22 bp):
GAGTACCGATACTACCTTTAAT
Found at i:1991059 original size:20 final size:20
Alignment explanation
Indices: 1991034--1991071 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1991024 AGATGTTTCT
*
1991034 AGCCATTGGGGATGATTTGG
1 AGCCATTGGGGATAATTTGG
1991054 AGCCATTGGGGATAATTT
1 AGCCATTGGGGATAATTT
1991072 TTTGCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.11, G:0.34, T:0.32
Consensus pattern (20 bp):
AGCCATTGGGGATAATTTGG
Found at i:1997579 original size:21 final size:23
Alignment explanation
Indices: 1997534--1997580 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1997524 TTTAACATGG
1997534 AAAATACTAACCATCCATTCAATA
1 AAAATACTAACCATCCA-TCAATA
*
1997558 AAAATA-TAATCATCCA-CAATA
1 AAAATACTAACCATCCATCAATA
1997579 AA
1 AA
1997581 CCCATGCCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
23 9 0.41
24 6 0.27
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAATACTAACCATCCATCAATA
Found at i:1998838 original size:19 final size:19
Alignment explanation
Indices: 1998814--1998861 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
1998804 TGTAGAAATG
1998814 GTATCGATACTAAAAGGGA
1 GTATCGATACTAAAAGGGA
1998833 GTATCGATACTAAAAGGGA
1 GTATCGATACTAAAAGGGA
1998852 GTATCGATAC
1 GTATCGATAC
1998862 CATAATATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.23
Consensus pattern (19 bp):
GTATCGATACTAAAAGGGA
Found at i:1999301 original size:54 final size:54
Alignment explanation
Indices: 1999232--1999834 Score: 874
Period size: 54 Copynumber: 11.2 Consensus size: 54
1999222 AATGGCACAA
* *
1999232 TGTGTACAACTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
* * *
1999286 TGGGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTTGTATTGGCACTA
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
*
1999340 TGTGTGCAACCTAAGAAATTCATAGTAAGTTTATGAA-TTTCTGTATTGGCACTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTC-GTATTGGCACTG
* *
1999394 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGACACTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
* *
1999448 TGTGTGCAACCTAAGAAATTCATAATATGTTTAT-ACATTTTCATATTGGCACTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGA-ATTTTCGTATTGGCACTG
*
1999502 TGTGTGCAACCTAAGAAATTCATAATAAGTTTAT-ACATTTCCGTATTGGCACTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGA-ATTTTCGTATTGGCACTG
* * * *
1999556 TGTATGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTTGTATTAGCATTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
*
1999610 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCATTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
*
1999664 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGAACTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
* *
1999718 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCATTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
* * * * ** * *
1999772 TGTGTGTAAACCCACA-TAATTCATAATAAG-TTGTGAATTACCGTATTTGCACTA
1 TGTGTG-CAACCTA-AGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
*
1999826 CGTGTGCAA
1 TGTGTGCAA
1999835 ACTATAGAGT
Statistics
Matches: 501, Mismatches: 42, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
53 6 0.01
54 472 0.94
55 22 0.04
56 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.37
Consensus pattern (54 bp):
TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
Found at i:1999993 original size:47 final size:49
Alignment explanation
Indices: 1999936--2000062 Score: 186
Period size: 47 Copynumber: 2.6 Consensus size: 49
1999926 TAGCTGTGCA
* * *
1999936 TTTGGAAGAAAGGTGCCATTAATGCAAGTTAGATG-TTAACTGTGC-TT
1 TTTGGAAGAAAGGTGCCATTAATGCAAGTTAGATGCCTAACGGTGCACT
*
1999983 TTTGGCAGAAAGGTGCCATTAATGCAAGTTAGATGCCTAACGGTGCACT
1 TTTGGAAGAAAGGTGCCATTAATGCAAGTTAGATGCCTAACGGTGCACT
**
2000032 TTTGGTTGAAAGGTGCCATTAATGCAAGTTA
1 TTTGGAAGAAAGGTGCCATTAATGCAAGTTA
2000063 ATGAGGAACA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
47 34 0.47
48 8 0.11
49 30 0.42
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.31
Consensus pattern (49 bp):
TTTGGAAGAAAGGTGCCATTAATGCAAGTTAGATGCCTAACGGTGCACT
Found at i:2003201 original size:54 final size:54
Alignment explanation
Indices: 2002617--2003200 Score: 756
Period size: 54 Copynumber: 10.8 Consensus size: 54
2002607 ATTACCAAAT
* * *
2002617 GGCACTATATGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTCC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* * *
2002671 GACACTAAGTGTGCAACCCACAGAATTCATCATATGTTGATGAACAACCGTTTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCG-TTTC
* * * * *
2002726 -GCATTATGTGTGCAACCCACAGAATTCATCATATTTTAATGAACAACTGTTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
** * *
2002779 GGCACTATGTGTGCAACCCACATAATTCATCATATGTTGATTAACAACCGTTTT
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* *
2002833 GACACTATGTGTACAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* * * ** *
2002887 GACACTATGTGTGTAACCCACGAAATTCATCATATGTTGATGAACAACTATTTT
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* * * * *
2002941 GGCATTATATGTGTAACCCACAGAATTCATCATATGTTGATGAACAAGCGTTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* * * *
2002995 AGCACTATGTGCGCAACCCATGGAATTCATCATATGTTGATGAACAACAGTTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* * * *
2003049 GGCACTATGTGTGCAACCCACTGAATTAATCATAAGTTGATGAACAATCGTTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* * * * *
2003103 AGCACTATGAGTGTAACCCACGGACTTCATCATATGTTGATGAATAACCGTTTC
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
* * *
2003157 GGCACTATGTGTGCAACCCACGGAATTCATAATAAGTTTATGAA
1 GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAA
2003201 TTTTCGTATG
Statistics
Matches: 455, Mismatches: 73, Indels: 4
0.86 0.14 0.01
Matches are distributed among these distances:
53 4 0.01
54 448 0.98
55 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (54 bp):
GGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTTTC
Found at i:2003278 original size:54 final size:54
Alignment explanation
Indices: 2003179--2003281 Score: 136
Period size: 54 Copynumber: 1.9 Consensus size: 54
2003169 GCAACCCACG
* * *
2003179 GAATTCATAATAAGTTTATGAATTTTCGTATGGGAAATTTGTGTGCAAAACTAA
1 GAATTCATAATAAGTTTATGAATTTCCGTATGGGAAAGTGGTGTGCAAAACTAA
* * *
2003233 GAATTCATAATAAGTTTATGAGTTTCCGTATTGG-TAGTGGATGTGCAAA
1 GAATTCATAATAAGTTTATGAATTTCCGTATGGGAAAGTGG-TGTGCAAA
2003282 CCGCGTAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 3 0.07
54 39 0.93
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.37
Consensus pattern (54 bp):
GAATTCATAATAAGTTTATGAATTTCCGTATGGGAAAGTGGTGTGCAAAACTAA
Found at i:2003606 original size:46 final size:46
Alignment explanation
Indices: 2003554--2003641 Score: 140
Period size: 46 Copynumber: 1.9 Consensus size: 46
2003544 TTATATGAAG
* * *
2003554 AACAATGCATAGTTGGCATGAAAGGATTCCATAAATGAAAATGTAT
1 AACAATGCATAATTGGCATGAAAGGATGCCACAAATGAAAATGTAT
*
2003600 AACAATGCATAATTGGCATGAAATGATGCCACAAATGAAAAT
1 AACAATGCATAATTGGCATGAAAGGATGCCACAAATGAAAAT
2003642 AAATAGTGGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.45, C:0.12, G:0.18, T:0.24
Consensus pattern (46 bp):
AACAATGCATAATTGGCATGAAAGGATGCCACAAATGAAAATGTAT
Found at i:2005439 original size:2 final size:2
Alignment explanation
Indices: 2005432--2005512 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
2005422 GATGTTAGAA
2005432 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2005474 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
2005513 GCTTTTGTGG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2011336 original size:10 final size:8
Alignment explanation
Indices: 2011314--2011352 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
2011304 TGAAAATTTG
2011314 GTTTTTTT
1 GTTTTTTT
2011322 GTTTTTTT
1 GTTTTTTT
2011330 GCCTTTTTTT
1 G--TTTTTTT
2011340 GTTTTTTT
1 GTTTTTTT
2011348 -TTTTT
1 GTTTTT
2011353 GAAAAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 5 0.17
8 16 0.55
10 8 0.28
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (8 bp):
GTTTTTTT
Found at i:2015024 original size:54 final size:54
Alignment explanation
Indices: 2014937--2015367 Score: 564
Period size: 54 Copynumber: 8.0 Consensus size: 54
2014927 AATGGAACTA
* * *
2014937 TGTGTGCAACTTAAGAAATTCATAATACA-TTTATGAATTTCCGTATTGACACTG
1 TGTGTGCAACCTAAGAAATTCATAATA-AGTTTATGAATTTTCGTATTGGCACTG
*
2014991 TGTGTGCAACCTAAGAAATTCATGATAAGTTTATGAATTTTCGTATTGGCACTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
* * *
2015045 TGTGTGAAACCTAAGAAATCCATAATAAGTTTATGAATTTTCGTATTGGCACTA
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
* *
2015099 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGTACTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
* * * *
2015153 TGTATGCAACCTAAGAAATTCATAATAAATTTATGAATTTTCGTATTGGCTCTA
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
** * * *
2015207 TGTGCACAACCTAAGAAATTAATAATAAGTTTATGAAGTTAT-GTATTGGCATTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAA-TTTTCGTATTGGCACTG
*
2015261 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTAATGGCACTG
1 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
* * * * * * *
2015315 TGTTTGCAAATCC-ACGTAATTCATAATAAG-CTGTGAATTATAGTATTGGCACT
1 TGTGTGC-AA-CCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACT
2015368 ACGTTTGCAA
Statistics
Matches: 330, Mismatches: 42, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
53 4 0.01
54 304 0.92
55 20 0.06
56 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (54 bp):
TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATTGGCACTG
Found at i:2015548 original size:47 final size:48
Alignment explanation
Indices: 2015481--2015608 Score: 161
Period size: 47 Copynumber: 2.7 Consensus size: 48
2015471 TAGCTGTGCA
* *
2015481 TTTGGCAGAAAGGTGTCATTAATGCAAGTTAGATG-CTAACTGTGCT-T
1 TTTGGCAGAAAGGTGACATTAATGCAAGTTAGATGTCTAACAGTG-TAT
*
2015528 TTTGGCAGAAAGGTAACATTAATGCAAGTTAGATGTCTAACAGTGTACT
1 TTTGGCAGAAAGGTGACATTAATGCAAGTTAGATGTCTAACAGTGTA-T
* * * *
2015577 TTTGGTAGAAAGGTGCCACTAATGCAGGTTAG
1 TTTGGCAGAAAGGTGACATTAATGCAAGTTAG
2015609 TTGAGGAATA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 34 0.49
48 8 0.11
49 28 0.40
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.31
Consensus pattern (48 bp):
TTTGGCAGAAAGGTGACATTAATGCAAGTTAGATGTCTAACAGTGTAT
Found at i:2024085 original size:20 final size:21
Alignment explanation
Indices: 2024060--2024111 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2024050 TTTTCCCAAT
*
2024060 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
2024080 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
2024101 TCGCAATGCGA
1 TCGCAATGCGA
2024112 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:2024125 original size:20 final size:20
Alignment explanation
Indices: 2024100--2024173 Score: 139
Period size: 20 Copynumber: 3.7 Consensus size: 20
2024090 AATTGGGAAA
2024100 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
2024120 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
2024140 ATCGCAATGCGATACTCACT
1 ATCGCAATGCGATACTGACT
2024160 ATCGCAATGCGATA
1 ATCGCAATGCGATA
2024174 ATACAAAATC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:2024229 original size:20 final size:20
Alignment explanation
Indices: 2024101--2024234 Score: 72
Period size: 20 Copynumber: 6.7 Consensus size: 20
2024091 ATTGGGAAAA
* * *
2024101 TCGCAATGCGATACTGACTA
1 TCGCAACGCGATTCTGACTT
* * *
2024121 TCGCAATGCGATACTGACTA
1 TCGCAACGCGATTCTGACTT
* * * *
2024141 TCGCAATGCGATACTCACTA
1 TCGCAACGCGATTCTGACTT
* ** **
2024161 TCGCAATGCGATAAT-ACAAAA
1 TCGCAACGCGATTCTGAC--TT
** *
2024182 TCGCAACAAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
*
2024202 TCGCAACGTGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
2024222 TCGCAACGCGATT
1 TCGCAACGCGATT
2024235 TACATAGCGT
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.02
20 82 0.84
21 12 0.12
22 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:2024815 original size:19 final size:19
Alignment explanation
Indices: 2024791--2024831 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
2024781 CGAGATAATT
*
2024791 GCAACGCGAAATAAAAATC
1 GCAACGCGAAACAAAAATC
*
2024810 GCAACGCGAAACCAAAATC
1 GCAACGCGAAACAAAAATC
2024829 GCA
1 GCA
2024832 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.27, G:0.17, T:0.07
Consensus pattern (19 bp):
GCAACGCGAAACAAAAATC
Found at i:2024873 original size:20 final size:19
Alignment explanation
Indices: 2024827--2024992 Score: 118
Period size: 20 Copynumber: 9.1 Consensus size: 19
2024817 GAAACCAAAA
*
2024827 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
2024846 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
2024865 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
*
2024885 TCGCGTTGCGATTGTC---
1 TCGCGTTGCGATTTTCATT
** **
2024901 T-G-GTCACGATAGTCATT
1 TCGCGTTGCGATTTTCATT
2024918 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
2024932 TCTCGTTGTGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
2024951 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
2024971 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
2024991 TC
1 TC
2024993 AACCAAAAGA
Statistics
Matches: 115, Mismatches: 19, Indels: 26
0.72 0.12 0.16
Matches are distributed among these distances:
14 18 0.16
15 1 0.01
16 3 0.03
17 3 0.03
18 1 0.01
19 40 0.35
20 48 0.42
21 1 0.01
ACGTcount: A:0.13, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:2024962 original size:34 final size:33
Alignment explanation
Indices: 2024880--2024967 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 33
2024870 GTTGCGATTT
* *
2024880 TCATTTCGCGTTGCGATTGTCTGGTCACGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
***
2024913 TCATTTCGCGTTGCGATTCTCTCGTTGTGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
2024946 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
2024968 ATTATCTCGT
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 34 0.69
34 15 0.31
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
Found at i:2027047 original size:42 final size:42
Alignment explanation
Indices: 2026987--2027109 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
2026977 GCCCGACTCG
* * *
2026987 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
2027029 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
2027071 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
2027110 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:2027067 original size:21 final size:21
Alignment explanation
Indices: 2027043--2027109 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
2027033 TCATTCCTCG
2027043 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
2027064 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
2027085 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
2027106 AGAG
1 AGAG
2027110 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:2028486 original size:14 final size:14
Alignment explanation
Indices: 2028467--2028502 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
2028457 ATTGTTTAAT
2028467 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
2028481 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
2028495 TGATTTGT
1 TGATTTGT
2028503 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:2028671 original size:19 final size:19
Alignment explanation
Indices: 2028609--2028662 Score: 90
Period size: 20 Copynumber: 2.8 Consensus size: 19
2028599 AAAAAGTACT
*
2028609 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
2028628 ATCGCAACGCGAAAATGAAA
1 ATCGCAACGCG-AAATGAAA
2028648 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
2028663 TAAATTCGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.46, C:0.20, G:0.20, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:2028689 original size:19 final size:19
Alignment explanation
Indices: 2028667--2028794 Score: 79
Period size: 19 Copynumber: 7.5 Consensus size: 19
2028657 CGAAATTAAA
*
2028667 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
2028686 TTCGCATTGCGA--TTC--
1 TTCGCATTGCGATTTTCAT
* * *
2028701 -CCCCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
2028719 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
2028733 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
2028752 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
2028768 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
2028785 TTCGCATTGC
1 TTCGCATTGC
2028795 AATAGTAGTT
Statistics
Matches: 79, Mismatches: 15, Indels: 30
0.64 0.12 0.24
Matches are distributed among these distances:
14 25 0.32
16 10 0.13
17 10 0.13
19 34 0.43
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:2028713 original size:33 final size:32
Alignment explanation
Indices: 2028671--2028794 Score: 178
Period size: 33 Copynumber: 3.8 Consensus size: 32
2028661 ATTAAATTCG
2028671 CGTTGCGATTTTCATTTCGCATTGCGATTCCCC
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCC
**
2028704 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCC
*
2028737 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CC
2028770 CGTTGCGATTTTCATTTCGCATTGC
1 CGTTGCGATTTTCATTTCGCATTGC
2028795 AATAGTAGTT
Statistics
Matches: 83, Mismatches: 4, Indels: 8
0.87 0.04 0.08
Matches are distributed among these distances:
31 3 0.04
33 77 0.93
35 3 0.04
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCC
Found at i:2028760 original size:66 final size:66
Alignment explanation
Indices: 2028664--2028794 Score: 235
Period size: 66 Copynumber: 2.0 Consensus size: 66
2028654 ACGCGAAATT
*
2028664 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCCCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCCCGTTGCGATTTTCATTTCGCATTGC
2028729 G
66 G
* *
2028730 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCCCGTTGCGATTTTCATTTCGCATTGC
2028795 AATAGTAGTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.16, C:0.24, G:0.19, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCCCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:2029974 original size:2 final size:2
Alignment explanation
Indices: 2029927--2029954 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2029917 TGTTTTTCTT
2029927 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2029955 ATTTTTTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2033259 original size:12 final size:12
Alignment explanation
Indices: 2033215--2033274 Score: 51
Period size: 10 Copynumber: 5.3 Consensus size: 12
2033205 GCTTCAATTA
*
2033215 ATATTATTATAT
1 ATATTATAATAT
2033227 -TA-TATAATAT
1 ATATTATAATAT
2033237 -T-TTA-AAT-T
1 ATATTATAATAT
2033245 ATATTATAATAT
1 ATATTATAATAT
2033257 ATATATATATATAT
1 ATAT-TATA-ATAT
2033271 ATAT
1 ATAT
2033275 ATATTCACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
8 1 0.03
9 4 0.10
10 13 0.32
11 5 0.12
12 5 0.12
13 4 0.10
14 8 0.20
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATTATAATAT
Found at i:2033260 original size:2 final size:2
Alignment explanation
Indices: 2033244--2033278 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
2033234 TATTTTAAAT
2033244 TA TA T- TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2033279 TCACATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2034564 original size:14 final size:14
Alignment explanation
Indices: 2034532--2034569 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
2034522 TATATGCATA
2034532 TTATTATTATATTCT
1 TTATT-TTATATTCT
2034547 TTATTTTA-ATTACT
1 TTATTTTATATT-CT
2034561 TTATTTTAT
1 TTATTTTAT
2034570 TCCCTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 13 0.62
15 5 0.24
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.68
Consensus pattern (14 bp):
TTATTTTATATTCT
Found at i:2034576 original size:14 final size:13
Alignment explanation
Indices: 2034535--2034585 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
2034525 ATGCATATTA
*
2034535 TTATTATATT-CT
1 TTATTTTATTACT
2034547 TTATTTTAATTACT
1 TTATTTT-ATTACT
*
2034561 TTATTTTATTCCCT
1 TTATTTTATT-ACT
2034575 TTATATTTATT
1 TTAT-TTTATT
2034586 TTATTCCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
12 6 0.18
13 6 0.18
14 15 0.45
15 6 0.18
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTTTATTACT
Found at i:2034596 original size:19 final size:20
Alignment explanation
Indices: 2034560--2034597 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2034550 TTTTAATTAC
2034560 TTTATTTTATTCCCTTTATA
1 TTTATTTTATTCCCTTTATA
2034580 TTTATTTTATT-CCTTTAT
1 TTTATTTTATTCCCTTTAT
2034598 TTACTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.18, C:0.13, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTATTTTATTCCCTTTATA
Found at i:2034600 original size:4 final size:4
Alignment explanation
Indices: 2034578--2034724 Score: 84
Period size: 4 Copynumber: 34.2 Consensus size: 4
2034568 ATTCCCTTTA
** *
2034578 TATT TATTT TATT CCTT TATT TACTTT TATT TATT TATT GTTTT TATT
1 TATT TA-TT TATT TATT TATT TA--TT TATT TATT TATT -TATT TATT
* *
2034626 TATT TATT TATT TATT ATATG TATAT TACTAT TATTT TCTT TATT T-TT
1 TATT TATT TATT TATT -TATT TAT-T TA-T-T TA-TT TATT TATT TATT
* * *
2034674 ATATCT T-TT TATT TTTT TATT TCTT TAATT TAAT T-TT TATTT TATT
1 -TAT-T TATT TATT TATT TATT TATT T-ATT TATT TATT TA-TT TATT
2034720 TATT T
1 TATT T
2034725 TGTTCACTTG
Statistics
Matches: 112, Mismatches: 17, Indels: 28
0.71 0.11 0.18
Matches are distributed among these distances:
3 6 0.05
4 72 0.64
5 23 0.21
6 11 0.10
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:2034704 original size:17 final size:16
Alignment explanation
Indices: 2034578--2034700 Score: 77
Period size: 17 Copynumber: 7.1 Consensus size: 16
2034568 ATTCCCTTTA
*
2034578 TATTTATTTTATTCCTT
1 TATTT-TTTTATTTCTT
*
2034595 TATTTACTTTTATTTATT
1 TATTT--TTTTATTTCTT
*
2034613 TATTGTTTTTATTTATT
1 TATT-TTTTTATTTCTT
* *
2034630 TATTTATTTATTATATGT
1 TATTTTTTTATT-TCT-T
* *
2034648 ATATTACTATTATTTTCTT
1 -TATT-TTTTTA-TTTCTT
*
2034667 TATTTTTATATCTT-TT
1 TATTTTTTTAT-TTCTT
2034683 TATTTTTTTATTTCTT
1 TATTTTTTTATTTCTT
2034699 TA
1 TA
2034701 ATTTAATTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 19
0.73 0.10 0.16
Matches are distributed among these distances:
15 2 0.02
16 24 0.28
17 28 0.33
18 18 0.21
19 6 0.07
20 5 0.06
21 2 0.02
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.72
Consensus pattern (16 bp):
TATTTTTTTATTTCTT
Found at i:2034762 original size:22 final size:23
Alignment explanation
Indices: 2034737--2034779 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
2034727 TTCACTTGTT
*
2034737 TTTATCTTTTTTTA-TTATTTTC
1 TTTATCTCTTTTTATTTATTTTC
2034759 TTTATCTCTTTTTATTTATTT
1 TTTATCTCTTTTTATTTATTT
2034780 CATTTTCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTATCTCTTTTTATTTATTTTC
Found at i:2034770 original size:23 final size:22
Alignment explanation
Indices: 2034737--2034779 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
2034727 TTCACTTGTT
2034737 TTTATCTTTTTT-TATTATTTTC
1 TTTATCTTTTTTAT-TTATTTTC
2034759 TTTATCTCTTTTTATTTATTT
1 TTTATCT-TTTTTATTTATTT
2034780 CATTTTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 11 0.58
24 1 0.05
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (22 bp):
TTTATCTTTTTTATTTATTTTC
Found at i:2034780 original size:22 final size:22
Alignment explanation
Indices: 2034737--2034807 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
2034727 TTCACTTGTT
*
2034737 TTTATCTTTTTTTA-TTATTTTC
1 TTTATCTCTTTTTATTTA-TTTC
2034759 TTTATCTCTTTTTATTTATTTC
1 TTTATCTCTTTTTATTTATTTC
* *
2034781 ATTT-TCCCTTTAT-TTTATCTTC
1 -TTTATCTCTTTTTATTTAT-TTC
2034803 TTTAT
1 TTTAT
2034808 TTCAGTTATT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 8 0.19
22 28 0.67
23 6 0.14
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTATCTCTTTTTATTTATTTC
Found at i:2047421 original size:75 final size:76
Alignment explanation
Indices: 2047330--2047486 Score: 280
Period size: 75 Copynumber: 2.1 Consensus size: 76
2047320 TATGTTGCAT
*
2047330 TTTCGTATCAGTACTTTGTGTACTTTAGGCACTATGTGTGCATCCATGGTATTCATAATGAG-TT
1 TTTCGTATCAATACTTTGTGTACTTTAGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTT
2047394 GTGAATTACCA
66 GTGAATTACCA
* *
2047405 TTTCGTATCAATACTTTGTGTACTTTCGGCACTATGTGTGCATCCATTGTATTCATAATGAGTTT
1 TTTCGTATCAATACTTTGTGTACTTTAGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTT
2047470 GTGAATTACCA
66 GTGAATTACCA
2047481 TTTCGT
1 TTTCGT
2047487 TATATTATTA
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
75 59 0.76
76 19 0.24
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.42
Consensus pattern (76 bp):
TTTCGTATCAATACTTTGTGTACTTTAGGCACTATGTGTGCATCCATGGTATTCATAATGAGTTT
GTGAATTACCA
Found at i:2048329 original size:31 final size:31
Alignment explanation
Indices: 2048294--2048397 Score: 84
Period size: 31 Copynumber: 3.2 Consensus size: 31
2048284 AGTCGGTGCC
2048294 GAACCTATACAAGGAATTACCAACAGCGATT
1 GAACCTATACAAGGAATTACCAACAGCGATT
* * * *
2048325 GAACCTACCAGAGATAAGGAATTACCAATCGGTG-TT
1 GAACCT-----ATACAAGGAATTACCAA-CAGCGATT
* * *
2048361 GAACCTATACAAGGAATTACCAGCAGGGACT
1 GAACCTATACAAGGAATTACCAACAGCGATT
2048392 GAACCT
1 GAACCT
2048398 GCCCGAGTCT
Statistics
Matches: 56, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
30 3 0.05
31 27 0.48
36 23 0.41
37 3 0.05
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.19
Consensus pattern (31 bp):
GAACCTATACAAGGAATTACCAACAGCGATT
Found at i:2048379 original size:67 final size:67
Alignment explanation
Indices: 2048271--2048397 Score: 200
Period size: 67 Copynumber: 1.9 Consensus size: 67
2048261 TATTAGGTCC
* *
2048271 ATAAGGAATTACCAGTCGGTGCCGAACCTATACAAGGAATTACCAACAGCGATTGAACCTACCAG
1 ATAAGGAATTACCAATCGGTGCCGAACCTATACAAGGAATTACCAACAGCGACTGAACCTACCAG
2048336 AG
66 AG
** * *
2048338 ATAAGGAATTACCAATCGGTGTTGAACCTATACAAGGAATTACCAGCAGGGACTGAACCT
1 ATAAGGAATTACCAATCGGTGCCGAACCTATACAAGGAATTACCAACAGCGACTGAACCT
2048398 GCCCGAGTCT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (67 bp):
ATAAGGAATTACCAATCGGTGCCGAACCTATACAAGGAATTACCAACAGCGACTGAACCTACCAG
AG
Found at i:2049313 original size:20 final size:20
Alignment explanation
Indices: 2049285--2049323 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2049275 CACTTCGGAA
*
2049285 TTTCTAGAGCAATTCTATTG
1 TTTCCAGAGCAATTCTATTG
*
2049305 TTTCCAGAGTAATTCTATT
1 TTTCCAGAGCAATTCTATT
2049324 ATTTGCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTCCAGAGCAATTCTATTG
Found at i:2056445 original size:21 final size:21
Alignment explanation
Indices: 2056421--2056477 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
2056411 AATATTTATG
*
2056421 GATGACTTCACCGACTCAGGC
1 GATGATTTCACCGACTCAGGC
*
2056442 GATGATTTCACCGTCTCAGGC
1 GATGATTTCACCGACTCAGGC
2056463 GATGATTTCAACCGA
1 GATGATTTC-ACCGA
2056478 TGCCTCGATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 28 0.88
22 4 0.12
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (21 bp):
GATGATTTCACCGACTCAGGC
Found at i:2065412 original size:23 final size:23
Alignment explanation
Indices: 2065383--2065449 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
2065373 TGCCACATAA
*
2065383 TTGTCCCGGAGGACCACATAGGT
1 TTGTCCCGAAGGACCACATAGGT
* **
2065406 TTGTCCCAAAGGACCACATAATT
1 TTGTCCCGAAGGACCACATAGGT
*
2065429 TTGTACCGAAGGACCACATAG
1 TTGTCCCGAAGGACCACATAG
2065450 AACCCTCGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (23 bp):
TTGTCCCGAAGGACCACATAGGT
Found at i:2072535 original size:14 final size:14
Alignment explanation
Indices: 2072516--2072550 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
2072506 ACTAAATTTT
2072516 TAGGTTTAGCCATA
1 TAGGTTTAGCCATA
2072530 TAGGTTTAGCCATA
1 TAGGTTTAGCCATA
2072544 TAGGTTT
1 TAGGTTT
2072551 TTTAAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (14 bp):
TAGGTTTAGCCATA
Found at i:2082894 original size:57 final size:57
Alignment explanation
Indices: 2082788--2082947 Score: 196
Period size: 57 Copynumber: 2.8 Consensus size: 57
2082778 CTTTTGGGAT
* * * * * **
2082788 GATTGAGCACCTCTATACTTCAAT-ATAAAAATGGCACCTCTGTGAATTAATGAAAC
1 GATTGAGCACCTCTATGCATCAATCTTTAAACTGGCACCTCTGTGAATTAAAAAAAC
* * * *
2082844 GATTGAGCACCTCTATGCATCGATCTTTGAACTGGCACCTCTGTGCATTAAAAAAAT
1 GATTGAGCACCTCTATGCATCAATCTTTAAACTGGCACCTCTGTGAATTAAAAAAAC
* *
2082901 GATTGAGCATCTCTGTGCATCAATCTTTAAACTGGCACCTCTGTGAA
1 GATTGAGCACCTCTATGCATCAATCTTTAAACTGGCACCTCTGTGAA
2082948 GTTACCACCA
Statistics
Matches: 87, Mismatches: 16, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
56 21 0.24
57 66 0.76
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (57 bp):
GATTGAGCACCTCTATGCATCAATCTTTAAACTGGCACCTCTGTGAATTAAAAAAAC
Found at i:2105677 original size:17 final size:17
Alignment explanation
Indices: 2105652--2105685 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2105642 ATTTTTAAAG
2105652 TTTAGGATAAATAACAT
1 TTTAGGATAAATAACAT
*
2105669 TTTATGATAAATAACAT
1 TTTAGGATAAATAACAT
2105686 ATATGTTCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (17 bp):
TTTAGGATAAATAACAT
Found at i:2105711 original size:21 final size:21
Alignment explanation
Indices: 2105657--2105717 Score: 85
Period size: 21 Copynumber: 3.0 Consensus size: 21
2105647 TAAAGTTTAG
2105657 GATAAATAAC-AT-T-TT-AT
1 GATAAATAACTATATGTTCAT
2105674 GATAAATAACATATATGTTCAT
1 GATAAATAAC-TATATGTTCAT
2105696 GATAAATAACTATATGTTCAT
1 GATAAATAACTATATGTTCAT
2105717 G
1 G
2105718 CAAGGATAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.26
19 2 0.05
20 1 0.03
21 14 0.36
22 12 0.31
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (21 bp):
GATAAATAACTATATGTTCAT
Found at i:2107919 original size:42 final size:42
Alignment explanation
Indices: 2107860--2107943 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
2107850 TTAAGAATGA
2107860 GAATTTACAAGACTAAGAATTTCATCTGAGACGCACCAGCAT
1 GAATTTACAAGACTAAGAATTTCATCTGAGACGCACCAGCAT
2107902 GAATTTACAAGACTAAGAATTTCATCTGAGACGCACCAGCAT
1 GAATTTACAAGACTAAGAATTTCATCTGAGACGCACCAGCAT
2107944 TTTTGTGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (42 bp):
GAATTTACAAGACTAAGAATTTCATCTGAGACGCACCAGCAT
Found at i:2109904 original size:21 final size:21
Alignment explanation
Indices: 2109878--2109922 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2109868 TCTAGTTTTC
*
2109878 TTCTTTTAAAATTTTTTACTT
1 TTCTTTTAAAAGTTTTTACTT
**
2109899 TTCTTTTTCAAGTTTTTACTT
1 TTCTTTTAAAAGTTTTTACTT
2109920 TTC
1 TTC
2109923 AATTTTTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.13, G:0.02, T:0.67
Consensus pattern (21 bp):
TTCTTTTAAAAGTTTTTACTT
Found at i:2115536 original size:20 final size:19
Alignment explanation
Indices: 2115511--2115555 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
2115501 TAATCATATA
2115511 TTTTTTTATTATGT-TTTTC
1 TTTTTTT-TTATGTATTTTC
*
2115530 TTATTTTTTTATTTATTTTC
1 TT-TTTTTTTATGTATTTTC
2115550 TTTTTT
1 TTTTTT
2115556 AAATCTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.82
Consensus pattern (19 bp):
TTTTTTTTTATGTATTTTC
Found at i:2115556 original size:12 final size:11
Alignment explanation
Indices: 2115509--2115616 Score: 56
Period size: 11 Copynumber: 8.8 Consensus size: 11
2115499 CCTAATCATA
*
2115509 TATTTTTTTAT
1 TATTTTTTTTT
* *
2115520 TATGTTTTTCT
1 TATTTTTTTTT
2115531 TATTTTTTTATT
1 TATTTTTTT-TT
2115543 TATTTTCTTTTT
1 TATTTT-TTTTT
2115555 TAAATCTAATTAGTTTTT
1 T--AT-T--TT--TTTTT
*
2115573 TA-TTCTTTTT
1 TATTTTTTTTT
2115583 TATTTTATTTATT
1 TATTTT-TTT-TT
*
2115596 TATTATTTTTTC
1 TATT-TTTTTTT
2115608 TATTTTTTT
1 TATTTTTTT
2115617 GGTTTGTTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
10 7 0.09
11 24 0.31
12 19 0.25
13 12 0.16
14 5 0.06
15 1 0.01
16 1 0.01
17 2 0.03
18 6 0.08
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.76
Consensus pattern (11 bp):
TATTTTTTTTT
Found at i:2115611 original size:16 final size:16
Alignment explanation
Indices: 2115570--2115614 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
2115560 CTAATTAGTT
2115570 TTTTATTCT-TTTTTA
1 TTTTATTCTATTTTTA
2115585 TTTTATT-TATTTATTA
1 TTTTATTCTATTT-TTA
2115601 TTTT-TTCTATTTTT
1 TTTTATTCTATTTTT
2115615 TTGGTTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 1 0.04
15 14 0.52
16 12 0.44
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTATTCTATTTTTA
Found at i:2115614 original size:26 final size:27
Alignment explanation
Indices: 2115509--2115614 Score: 71
Period size: 26 Copynumber: 4.0 Consensus size: 27
2115499 CCTAATCATA
*
2115509 TATTTTTTTATTATGT-TTTTCT-TATTT
1 TATTTATTTATTAT-TCTTTTCTAT-TTT
* ** *
2115536 T-TTTATTTATT-TTCTTTTTTAAATC
1 TATTTATTTATTATTCTTTTCTATTTT
* * *
2115561 TAATTAGTTTTTTATTCTTTTTTA-TTT
1 TATTTA-TTTATTATTCTTTTCTATTTT
2115588 TATTTATTTATTATT-TTTTCTATTTT
1 TATTTATTTATTATTCTTTTCTATTTT
2115614 T
1 T
2115615 TTGGTTTGTT
Statistics
Matches: 61, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
24 1 0.02
25 14 0.23
26 24 0.39
27 12 0.20
28 10 0.16
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (27 bp):
TATTTATTTATTATTCTTTTCTATTTT
Found at i:2119442 original size:42 final size:39
Alignment explanation
Indices: 2119390--2119516 Score: 121
Period size: 42 Copynumber: 3.1 Consensus size: 39
2119380 TTTTCTAACA
* * *
2119390 AAATAGTTATTATAAGTGTAAATATAAACACTATTTTGATGT
1 AAATAATTATTCTAAGTGTAAAT-T-AACACT-TTTTAATGT
* * *
2119432 AAATAATTATTCCAAGTGTAAATTAA-ACTTTTTTATGC
1 AAATAATTATTCTAAGTGTAAATTAACACTTTTTAATGT
**
2119470 AAATAATTATTCTAAGAATAAATTTGAACACTGTTTTAATGT
1 AAATAATTATTCTAAGTGTAAA-TT-AACACT-TTTTAATGT
2119512 AAATA
1 AAATA
2119517 TGAACATTGT
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
38 26 0.37
39 5 0.07
40 4 0.06
41 4 0.06
42 32 0.45
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.40
Consensus pattern (39 bp):
AAATAATTATTCTAAGTGTAAATTAACACTTTTTAATGT
Found at i:2121800 original size:22 final size:22
Alignment explanation
Indices: 2121772--2121846 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
2121762 TCGAGATCCA
2121772 ACTTAGTGAAATACTTGGCATT
1 ACTTAGTGAAATACTTGGCATT
*
2121794 ACTTAGTTGACCAAATAAC-T--C-TAA
1 ACTTAG-TG---AAAT-ACTTGGCAT-T
2121818 ACTTAGTGAAATACTTGGCATT
1 ACTTAGTGAAATACTTGGCATT
2121840 ACTTAGT
1 ACTTAGT
2121847 TGACCAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 20
0.65 0.03 0.32
Matches are distributed among these distances:
19 2 0.05
20 5 0.12
22 14 0.34
23 6 0.15
24 7 0.17
26 5 0.12
27 2 0.05
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.35
Consensus pattern (22 bp):
ACTTAGTGAAATACTTGGCATT
Found at i:2121838 original size:46 final size:46
Alignment explanation
Indices: 2121771--2121862 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
2121761 CTCGAGATCC
2121771 AACTTAGTGAAATACTTGGCATTACTTAGTTGACCAAATAACTCTA
1 AACTTAGTGAAATACTTGGCATTACTTAGTTGACCAAATAACTCTA
2121817 AACTTAGTGAAATACTTGGCATTACTTAGTTGACCAAATAACTCTA
1 AACTTAGTGAAATACTTGGCATTACTTAGTTGACCAAATAACTCTA
2121863 CAATTAGAGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (46 bp):
AACTTAGTGAAATACTTGGCATTACTTAGTTGACCAAATAACTCTA
Found at i:2125704 original size:39 final size:39
Alignment explanation
Indices: 2125605--2125814 Score: 197
Period size: 39 Copynumber: 5.4 Consensus size: 39
2125595 TCTATAACTT
* ** ** * *
2125605 GTAAGTCCTTGCCATAAGCTCCTCGATTTTATGCTCATG
1 GTAAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAGG
* * *
2125644 GTAAGTCTTTACCGTAGGCTCCTCGGCTTTGTGCTCAGG
1 GTAAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAGG
* * * **
2125683 GTAAGTCCTTATCGCAAGCTCCTAGACTTTGTGCTTTGG
1 GTAAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAGG
* * *
2125722 GTAAGTCCTTACCACAGGCTCCTCGGC-TTGTGCTTAGG
1 GTAAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAGG
* * * * * *
2125760 GTAATTCCTTACCACATGCTCCTCTGCTTTATGCACAGG
1 GTAAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAGG
2125799 GTAAGTCCTTACCGCA
1 GTAAGTCCTTACCGCA
2125815 TGTCCTTATG
Statistics
Matches: 140, Mismatches: 30, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
38 34 0.24
39 106 0.76
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (39 bp):
GTAAGTCCTTACCGCAAGCTCCTCGGCTTTGTGCTCAGG
Done.