Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 146 of 250
Found at i:47349901 original size:20 final size:21
Alignment explanation
Indices: 47349876--47349916 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
47349866 TAAAGCTTGT
47349876 AAATTA-GAAAATAAAAATAA
1 AAATTATGAAAATAAAAATAA
**
47349896 AAATTATTTAAATAAAAATAA
1 AAATTATGAAAATAAAAATAA
47349917 TTACCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTATGAAAATAAAAATAA
Found at i:47359444 original size:12 final size:12
Alignment explanation
Indices: 47359427--47359456 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
47359417 ACGTGGAGAC
47359427 TCAAGAAGACTT
1 TCAAGAAGACTT
*
47359439 TCAAGAAGATTT
1 TCAAGAAGACTT
47359451 TCAAGA
1 TCAAGA
47359457 TTGGCAGTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (12 bp):
TCAAGAAGACTT
Found at i:47359701 original size:17 final size:18
Alignment explanation
Indices: 47359681--47359714 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
47359671 TATTTTCAGT
47359681 ATTCTCTC-TTTGTAAAC
1 ATTCTCTCTTTTGTAAAC
47359698 ATTCTCTCTTTTGTAAA
1 ATTCTCTCTTTTGTAAA
47359715 ACCCTTCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.50
Consensus pattern (18 bp):
ATTCTCTCTTTTGTAAAC
Found at i:47360445 original size:19 final size:21
Alignment explanation
Indices: 47360407--47360456 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
47360397 AAAAATATAA
* *
47360407 ATTTAGAATTTTTTATAAA-T
1 ATTTTGAATTTTTGATAAATT
*
47360427 ATTTTTAATTTTTGA-AAATT
1 ATTTTGAATTTTTGATAAATT
47360447 ATTTTGAATT
1 ATTTTGAATT
47360457 ATTTTTTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (21 bp):
ATTTTGAATTTTTGATAAATT
Found at i:47360556 original size:9 final size:9
Alignment explanation
Indices: 47360542--47360580 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
47360532 ACACCAATCT
*
47360542 ATTATTAGA
1 ATTATTTGA
47360551 ATTATTTGA
1 ATTATTTGA
47360560 ATTATTTGA
1 ATTATTTGA
* *
47360569 GTTATTCGA
1 ATTATTTGA
47360578 ATT
1 ATT
47360581 GTAAAATTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.51
Consensus pattern (9 bp):
ATTATTTGA
Found at i:47361436 original size:19 final size:19
Alignment explanation
Indices: 47361399--47361437 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
47361389 ATTTGATCTT
47361399 AATTTAACAAATCTTGAATG
1 AATTTAACAAA-CTTGAATG
47361419 AATTTAAACAAA-TTGAATG
1 AATTT-AACAAACTTGAATG
47361438 TTTTCCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (19 bp):
AATTTAACAAACTTGAATG
Found at i:47361806 original size:82 final size:82
Alignment explanation
Indices: 47361666--47361831 Score: 278
Period size: 82 Copynumber: 2.0 Consensus size: 82
47361656 GATTCAATGG
* * *
47361666 TGTTTGTTGGTGTTAGTAATGCCTTAGTAATGTGTTTGATGTGTATGAAAAGTTTCAATTCATTT
1 TGTTTGTTGGTGTTAGTAATGCCTTAGTAATGTGTTTGATATGTATGAAAAGTGTCAATTAATTT
*
47361731 GGTAGCCTCCACAACCA
66 GGGAGCCTCCACAACCA
*
47361748 TGTTTGTTGGTGTTAGTAATGCCTTTGTAATGTGTTTGATATGTATGAAAAGTGTCAATTAATTT
1 TGTTTGTTGGTGTTAGTAATGCCTTAGTAATGTGTTTGATATGTATGAAAAGTGTCAATTAATTT
*
47361813 GGGAGCCTCTACAACCA
66 GGGAGCCTCCACAACCA
47361830 TG
1 TG
47361832 GACAAAGGCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 78 1.00
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (82 bp):
TGTTTGTTGGTGTTAGTAATGCCTTAGTAATGTGTTTGATATGTATGAAAAGTGTCAATTAATTT
GGGAGCCTCCACAACCA
Found at i:47362595 original size:27 final size:29
Alignment explanation
Indices: 47362544--47362607 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
47362534 CAGAATACCT
*
47362544 ATATATGCGTGGTTTTTGTTATATATATA
1 ATATATGCGTGGATTTTGTTATATATATA
47362573 ATATATGCGTGGATTTTGTTATATATATA
1 ATATATGCGTGGATTTTGTTATATATATA
*
47362602 AAATAT
1 ATATAT
47362608 ATGCTTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.33, C:0.03, G:0.16, T:0.48
Consensus pattern (29 bp):
ATATATGCGTGGATTTTGTTATATATATA
Found at i:47368327 original size:17 final size:17
Alignment explanation
Indices: 47368305--47368340 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
47368295 TCTCGGCCGT
*
47368305 GTGCGACACATGGTTAA
1 GTGCGACACACGGTTAA
47368322 GTGCGACACACGGTTAA
1 GTGCGACACACGGTTAA
47368339 GT
1 GT
47368341 TGCACGGCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (17 bp):
GTGCGACACACGGTTAA
Found at i:47369827 original size:23 final size:22
Alignment explanation
Indices: 47369798--47369840 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
47369788 TATTCAATGT
47369798 GTGGTGATAGAGTCCATTTATAG
1 GTGGTGATAGAGTCC-TTTATAG
47369821 GTGGTGATAGAGTCCTTTAT
1 GTGGTGATAGAGTCCTTTAT
47369841 GTATTTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (22 bp):
GTGGTGATAGAGTCCTTTATAG
Found at i:47369964 original size:16 final size:16
Alignment explanation
Indices: 47369926--47370002 Score: 75
Period size: 16 Copynumber: 4.7 Consensus size: 16
47369916 TTATATTGAA
* *
47369926 TGAACTGTTATTTCATA
1 TGAATTGTTATTT-ATG
*
47369943 TGAATTGTTATTTAAG
1 TGAATTGTTATTTATG
47369959 TGAATTGTCTATTCTATG
1 TGAATTGT-TATT-TATG
* *
47369977 TGAATCG-TATTCATG
1 TGAATTGTTATTTATG
47369992 TGAATTGTTAT
1 TGAATTGTTAT
47370003 CTTGTGTGAG
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
15 9 0.18
16 16 0.32
17 16 0.32
18 9 0.18
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (16 bp):
TGAATTGTTATTTATG
Found at i:47373072 original size:18 final size:17
Alignment explanation
Indices: 47373032--47373073 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
47373022 TGATTTGGGT
*
47373032 CGTGTGGGCCACACGGG
1 CGTGTGGGCCACACGAG
*
47373049 CTTGTGGGCCCACACGAG
1 CGTGTGGG-CCACACGAG
47373067 CGTGTGG
1 CGTGTGG
47373074 TATTTTGGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.12, C:0.29, G:0.43, T:0.17
Consensus pattern (17 bp):
CGTGTGGGCCACACGAG
Found at i:47374480 original size:16 final size:16
Alignment explanation
Indices: 47374448--47374492 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
47374438 TTAAGTGTAT
* *
47374448 ACTAAAAATGTATTAA
1 ACTAAAACTGTAGTAA
* *
47374464 ATTAAGACTGTAGTAA
1 ACTAAAACTGTAGTAA
47374480 ACTAAAACTGTAG
1 ACTAAAACTGTAG
47374493 CAAAATTGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (16 bp):
ACTAAAACTGTAGTAA
Found at i:47381027 original size:34 final size:34
Alignment explanation
Indices: 47380963--47381027 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
47380953 GTTTTGTATA
* *
47380963 TTTGAATTGTTATTAAATTGTTATTTTTAATATG
1 TTTGAATTGTTATTAAACTATTATTTTTAATATG
* *
47380997 TTTGGATTGTTATTTAACTATT-TTTGTTAAT
1 TTTGAATTGTTATTAAACTATTATTT-TTAAT
47381028 TTACATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
33 3 0.12
34 23 0.88
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (34 bp):
TTTGAATTGTTATTAAACTATTATTTTTAATATG
Found at i:47384333 original size:19 final size:19
Alignment explanation
Indices: 47384309--47384346 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
47384299 TATAATGTCC
47384309 ACATGCAGGCATGTATAGA
1 ACATGCAGGCATGTATAGA
47384328 ACATGCAGGCATGTATAGA
1 ACATGCAGGCATGTATAGA
47384347 GTGTTTGCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (19 bp):
ACATGCAGGCATGTATAGA
Found at i:47403518 original size:11 final size:11
Alignment explanation
Indices: 47403496--47403527 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
47403486 AATTCTAGCT
47403496 TTTATC-TTTA
1 TTTATCTTTTA
47403506 TTTATCTTTTA
1 TTTATCTTTTA
47403517 TTTATCTTTTA
1 TTTATCTTTTA
47403528 AAGTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTATCTTTTA
Found at i:47408774 original size:47 final size:47
Alignment explanation
Indices: 47408696--47409005 Score: 460
Period size: 47 Copynumber: 6.6 Consensus size: 47
47408686 CCCTTCGGGA
* * * * *
47408696 CTTATCACATTTATACACTTTCACATCCATCA-AGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACA-TCGGCCATTAGGC
* * *
47408743 CCTGTCACATATATACACGTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47408790 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47408837 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47408884 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47408933 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47408980 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
47409006 CACAATTATT
Statistics
Matches: 239, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
47 193 0.81
48 1 0.00
49 45 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47408934 original size:96 final size:96
Alignment explanation
Indices: 47408696--47409005 Score: 481
Period size: 96 Copynumber: 3.3 Consensus size: 96
47408686 CCCTTCGGGA
* * * *
47408696 CTTATCACAT-T-TATACACTTTCACATCCATCA-AGTTGGCCACTCGGCCCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACA-TTGGCCATTCGGCCTTATCACATATATA
*
47408758 CACGTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
47408790 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
47408853 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
47408884 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
47408949 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
47408980 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
47409006 CACAATTATT
Statistics
Matches: 198, Mismatches: 13, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
93 1 0.01
94 94 0.47
95 1 0.01
96 102 0.52
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47408952 original size:143 final size:141
Alignment explanation
Indices: 47408696--47409006 Score: 462
Period size: 143 Copynumber: 2.2 Consensus size: 141
47408686 CCCTTCGGGA
* * * *
47408696 CTTATCACATTTATACACTTTCACATCCATCAAGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCAAGTCGGCCACTAGGCCCTATCACATATATACAC
47408761 GTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 GTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
*
47408826 GGCTATTAGGC
131 GGCCATTAGGC
* * *
47408837 CTTATCACATATATACACTTTCACATTCATCACA-TCGGCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACTTTCACATCCATCA-AGTCGGCCACTAGGCCCTATCAC--ATATATA
* * * *
47408901 CACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCAC
63 CACGTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCAC
47408966 ATCGGCCATTAGGC
128 ATCGGCCATTAGGC
* *
47408980 CTTATCACATATATATACATTCACATC
1 CTTATCACATATATACACTTTCACATC
47409007 ACAATTATTC
Statistics
Matches: 152, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
141 46 0.30
142 1 0.01
143 105 0.69
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATCCATCAAGTCGGCCACTAGGCCCTATCACATATATACAC
GTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:47411666 original size:40 final size:40
Alignment explanation
Indices: 47411609--47411888 Score: 411
Period size: 40 Copynumber: 7.0 Consensus size: 40
47411599 CGAATACACG
* * * *
47411609 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** ** *
47411649 ACACCAGCACGAATGCTCTTCGGGGTTTAGCATGGATATA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
47411689 TCACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
47411729 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
47411768 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
*
47411808 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
47411848 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
47411887 TC
1 TC
47411889 GTCGAGACCT
Statistics
Matches: 217, Mismatches: 22, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 41 0.19
40 176 0.81
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:47411822 original size:119 final size:120
Alignment explanation
Indices: 47411609--47411888 Score: 411
Period size: 119 Copynumber: 2.4 Consensus size: 120
47411599 CGAATACACG
* * * * * *
47411609 TCACTAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGA
* * * *
47411674 TTTAGCATGGATATATCACCAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
66 CTTAGCACGGATACATCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
*
47411729 TCACTAGCACGAATGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGA
* * * *
47411793 CTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
66 CTTAGCACGGATACATCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
47411848 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATC
47411889 GTCGAGACCT
Statistics
Matches: 144, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
119 110 0.76
120 34 0.24
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (120 bp):
TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACATCACCAGCACGAATGCTCTTCGGGA
CTTAGCACGGATACATCACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
Found at i:47411984 original size:38 final size:38
Alignment explanation
Indices: 47411941--47412015 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
47411931 GAATTTTAAT
*
47411941 CCGGACATAATCTCTGT-ACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
47411979 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
47412016 AACTCGGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:47414225 original size:47 final size:47
Alignment explanation
Indices: 47414147--47414456 Score: 467
Period size: 47 Copynumber: 6.6 Consensus size: 47
47414137 CCCTTCGGGA
* * * * * *
47414147 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47414194 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47414241 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47414288 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47414335 CTTATCACATATATATACACTTTCACATTCATCACATTGTCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47414384 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47414431 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
47414457 CACAATTATT
Statistics
Matches: 239, Mismatches: 22, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
47 195 0.82
49 44 0.18
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47414385 original size:96 final size:96
Alignment explanation
Indices: 47414147--47414456 Score: 488
Period size: 96 Copynumber: 3.3 Consensus size: 96
47414137 CCCTTCGGGA
* * * * *
47414147 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
47414210 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
47414241 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
47414304 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
47414335 CTTATCACATATATATACACTTTCACATTCATCACATTGTCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
47414400 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
47414431 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
47414457 CACAATTATT
Statistics
Matches: 198, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
93 1 0.01
94 96 0.48
96 101 0.51
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47414492 original size:143 final size:141
Alignment explanation
Indices: 47414147--47414456 Score: 422
Period size: 143 Copynumber: 2.2 Consensus size: 141
47414137 CCCTTCGGGA
* * * * * * * * * *
47414147 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACATTCACATTCATCACATAGGCAATTAGGCCATATCACATATATACAC
47414212 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
*
47414277 GGCTATTAGGC
131 GGCCATTAGGC
* * * *
47414288 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACATTCACATTCATCACATAGGCAATTAGGCCATATCAC--ATATATAC
* * * *
47414353 ACTTTCACATTCATCACATTGTCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
47414418 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
47414431 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACATTCACAT
47414457 CACAATTATT
Statistics
Matches: 152, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
141 47 0.31
143 105 0.69
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACATTCACATTCATCACATAGGCAATTAGGCCATATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:47416774 original size:7 final size:7
Alignment explanation
Indices: 47416758--47416798 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
47416748 ATTCTTAAGC
47416758 AAAAAA-
1 AAAAAAG
47416764 AAAAAAG
1 AAAAAAG
47416771 AAAAAAG
1 AAAAAAG
47416778 AAAAAGAG
1 AAAAA-AG
47416786 AAAAAAG
1 AAAAAAG
47416793 AAAAAA
1 AAAAAA
47416799 AAAGTGATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.18
7 20 0.61
8 7 0.21
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:47416781 original size:15 final size:15
Alignment explanation
Indices: 47416758--47416799 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
47416748 ATTCTTAAGC
47416758 AAAAA-AAAAAAAGA
1 AAAAAGAAAAAAAGA
*
47416772 AAAAAGAAAAAGAGA
1 AAAAAGAAAAAAAGA
47416787 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
47416800 AAGTGATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 5 0.20
15 20 0.80
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAAGA
Found at i:47440281 original size:23 final size:23
Alignment explanation
Indices: 47440250--47440315 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
47440240 CCTGATCAGT
47440250 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
47440272 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
47440294 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
47440316 TCGATAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:47440715 original size:15 final size:15
Alignment explanation
Indices: 47440697--47440743 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
47440687 TATATTATAT
47440697 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
47440712 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
47440727 TTCAATCAATATAAA
1 TTCAATCAATATAAA
47440742 TT
1 TT
47440744 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:47442855 original size:11 final size:11
Alignment explanation
Indices: 47442839--47442868 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
47442829 CCCAGCGACC
47442839 CTCTCTAATAT
1 CTCTCTAATAT
47442850 CTCTCTAATAT
1 CTCTCTAATAT
*
47442861 CTGTCTAA
1 CTCTCTAA
47442869 GGTGATACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.43
Consensus pattern (11 bp):
CTCTCTAATAT
Found at i:47444025 original size:42 final size:40
Alignment explanation
Indices: 47443966--47444073 Score: 119
Period size: 40 Copynumber: 2.6 Consensus size: 40
47443956 GAAACAGTTT
* *
47443966 GGCCTTAGCCCACTCAGATGCAGAATCAGATATATATAATAG
1 GGCCTTAGCCCAATCAGATGCAGAATCAGA-A-AAATAATAG
* *
47444008 GGCCTTAGCCCAATCAGATGCA-AAGTTAGAAAAATATTAG
1 GGCCTTAGCCCAATCAGATGCAGAA-TCAGAAAAATAATAG
* * *
47444048 GGCCTCAGCCCAATCAAATACAGAAT
1 GGCCTTAGCCCAATCAGATGCAGAAT
47444074 GCATATTAGA
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
40 27 0.47
41 5 0.09
42 25 0.44
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (40 bp):
GGCCTTAGCCCAATCAGATGCAGAATCAGAAAAATAATAG
Found at i:47444490 original size:17 final size:18
Alignment explanation
Indices: 47444458--47444491 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
47444448 TGGGGCCTGC
*
47444458 CTGTGTGGGCCTACACGT
1 CTGTGTGGGCCCACACGT
47444476 CTGTGT-GGCCCACACG
1 CTGTGTGGGCCCACACG
47444492 GCGCAAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.24
Consensus pattern (18 bp):
CTGTGTGGGCCCACACGT
Found at i:47446471 original size:47 final size:47
Alignment explanation
Indices: 47446415--47446513 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 47
47446405 GCAAATTGAT
* *
47446415 TTTAAATTAGGTTCGATTGCTTCCAATTAACTGTTTTTTTTAATAGA
1 TTTAAATTAGGTTAGATTGCTTCCAATTAACTGTTTTATTTAATAGA
*
47446462 TTTAAATTAGGTTAGATTGCTTCCAATTACCTGTTTTATTTAATAGA
1 TTTAAATTAGGTTAGATTGCTTCCAATTAACTGTTTTATTTAATAGA
*
47446509 GTTAA
1 TTTAA
47446514 GGTCAGCAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.29, C:0.10, G:0.13, T:0.47
Consensus pattern (47 bp):
TTTAAATTAGGTTAGATTGCTTCCAATTAACTGTTTTATTTAATAGA
Found at i:47448326 original size:24 final size:23
Alignment explanation
Indices: 47448274--47448326 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
47448264 AAATTCTAAA
*
47448274 ATAT-ATTTTTTAAAATAATTAT
1 ATATAATTTTTTAAAATAATCAT
*
47448296 ATCATAATTTTTTAAGATAATCAT
1 AT-ATAATTTTTTAAAATAATCAT
47448320 GATATAA
1 -ATATAA
47448327 CTTGTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 2 0.08
23 2 0.08
24 20 0.77
25 2 0.08
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (23 bp):
ATATAATTTTTTAAAATAATCAT
Found at i:47450821 original size:18 final size:19
Alignment explanation
Indices: 47450798--47450833 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
47450788 AGTTTCTGGG
47450798 TTTGGGGG-AAGTAAAAGT
1 TTTGGGGGAAAGTAAAAGT
47450816 TTTGGGGGAAAGTAAAAG
1 TTTGGGGGAAAGTAAAAG
47450834 CAAAAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.36, C:0.00, G:0.39, T:0.25
Consensus pattern (19 bp):
TTTGGGGGAAAGTAAAAGT
Found at i:47458784 original size:40 final size:40
Alignment explanation
Indices: 47458715--47458979 Score: 360
Period size: 40 Copynumber: 6.6 Consensus size: 40
47458705 ATTCCCAAGC
* * * * *
47458715 CAAATACCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCT
1 CAAATGCCTTCGGGACTTAGCCCGGATATAG-TAACTCGCA
*
47458754 CGAATGCCTTCGGGA-TATAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACT-TAGCCCGGATATAGTAACTCGCA
*
47458794 CCAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
47458834 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
47458874 CAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
47458914 CAAATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCA
47458956 -AAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
47458980 TTATCATCCA
Statistics
Matches: 207, Mismatches: 12, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
38 1 0.00
39 16 0.08
40 161 0.78
41 25 0.12
42 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:47462008 original size:50 final size:48
Alignment explanation
Indices: 47461887--47462057 Score: 197
Period size: 50 Copynumber: 3.6 Consensus size: 48
47461877 AGATGCCAAC
* * * * *
47461887 GCCATGTCCCAGACATGGTCTTACACTGGCTCACA-CATCAAAGTTGAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCTCATAATCGAGGTCGAT
*
47461935 GCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGGTCAAT
1 GCCATGTCCCAGACATGGTCTTACACTG-CTCTCATA-ATCGAGGTCGAT
* *
47461985 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACT-GCTCTCATAATCGAGGTCGAT
*
47462033 G-CATGTCTCAGACAT-GTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
47462058 AGCACACATG
Statistics
Matches: 109, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
46 10 0.09
47 14 0.13
48 39 0.36
49 2 0.02
50 43 0.39
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCATGTCCCAGACATGGTCTTACACTGCTCTCATAATCGAGGTCGAT
Found at i:47467749 original size:24 final size:24
Alignment explanation
Indices: 47467728--47467779 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
47467718 AATCAATGTC
*
47467728 AAATATATTATCCTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
*
47467752 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAATAAATGCT
47467776 AAAT
1 AAAT
47467780 CTTTTAGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:47468980 original size:13 final size:13
Alignment explanation
Indices: 47468964--47469002 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
47468954 TTATTCTATT
*
47468964 TTATTTATCTTAG
1 TTATTTATCTTAA
*
47468977 TTATTTATTTTAA
1 TTATTTATCTTAA
47468990 TTATTTTATCTTA
1 TTA-TTTATCTTA
47469003 CTTGGATTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 14 0.64
14 8 0.36
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (13 bp):
TTATTTATCTTAA
Found at i:47469670 original size:406 final size:405
Alignment explanation
Indices: 47468918--47469731 Score: 1468
Period size: 406 Copynumber: 2.0 Consensus size: 405
47468908 ATTTATCTTC
47468918 TTTATTTTCTTCCTTATTGTTCTAATCTTTGATTTATTATTCTATTTTATTTATCTTAGTTATTT
1 TTTATTTTCTTCCTTATTGTTCTAATCTTTGATTTATTATTCTATTTTATTTATCTTAGTTATTT
47468983 ATTTTAATTATTTTATCTTACTTGGATTAGTTTGCATTTTAGGTTAAGTCAAAATCCAAGTTTCT
66 ATTTTAATTATTTTATCTTACTTGGATTAGTTTGCATTTTAGGTTAAGTCAAAATCCAAGTTTCT
* *
47469048 TTCCAAACGTCTAGAGCCTTAAGTCAAATCCGGGGCTTGAACAAACTTTACTATCTGATTTCTGA
131 TTCCAAACGTCTAGAGCCTTAAGTCAAATCCGAGACTTGAACAAACTTTACTATCTGATTTCTGA
47469113 TTCATTCGTGCCGTTCCTTATCAAAAGGACTGAAAAGCAATTCAATAAACTATGTGGATGAGATT
196 TTCATTCGTGCCGTTCCTTATCAAAAGGACTGAAAAGCAATTCAATAAACTATGTGGATGAGATT
47469178 GTTATTATAATGTTAGGATGCAAATCGACTATTAAATGTTCAAATTAGGTTTAAATAAAATTCTT
261 GTTATTATAATGTTAGGATGCAAATCGACTATTAAATGTTCAAATTAGGTTTAAATAAAATTCTT
* *
47469243 TCAGGAATTTAAATTTTCTTAGATTACTTAATATTTATTTATATTGATAATATATAATACCATTT
326 TCAGGAATTTAAATTTTCTTAGATTACTTAATATCTATTTATACTGATAATATATAATACCATTT
*
47469308 TGTAAAAAAAAATAAT
391 TCT-AAAAAAAATAAT
47469324 TTTATTTTCTTCCTTATTGTTCTAATCTTTGATTTATTATTCTATTTTATTTATCTTAGTTATTT
1 TTTATTTTCTTCCTTATTGTTCTAATCTTTGATTTATTATTCTATTTTATTTATCTTAGTTATTT
* * * *
47469389 GTTTTAATTGTTTTATCTTACTTGGATTAGTTTGCATTTTAGGTTGAGTCAAAATCTAAGTTTCT
66 ATTTTAATTATTTTATCTTACTTGGATTAGTTTGCATTTTAGGTTAAGTCAAAATCCAAGTTTCT
** *
47469454 TTCTGAACGTCTAGAGCCTTAAGTCAAATCTGAGACTTGAACAAACTTTACTATCTGATTTC-GA
131 TTCCAAACGTCTAGAGCCTTAAGTCAAATCCGAGACTTGAACAAACTTTACTATCTGATTTCTG-
47469518 ATTCATTCGTGCCGTTCCTTATCAAAAGGACTGAAAAGCAATTCAATAAACTATGTGGATGAGAT
195 ATTCATTCGTGCCGTTCCTTATCAAAAGGACTGAAAAGCAATTCAATAAACTATGTGGATGAGAT
*
47469583 TGTTATTATAATGTTAGGATGCAAATCGACTATTAAATGTTCAAATTAGGTTTGAATAAAATTCT
260 TGTTATTATAATGTTAGGATGCAAATCGACTATTAAATGTTCAAATTAGGTTTAAATAAAATTCT
* *
47469648 TTCAGGAATTTAAATTTTCTTAGATTACTTATTATCTATTTATACTGATAATATATAATACTATT
325 TTCAGGAATTTAAATTTTCTTAGATTACTTAATATCTATTTATACTGATAATATATAATACCATT
47469713 TTCTAAAAAAAATAAT
390 TTCTAAAAAAAATAAT
47469729 TTT
1 TTT
47469732 CACAATAGAT
Statistics
Matches: 392, Mismatches: 15, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
405 16 0.04
406 376 0.96
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (405 bp):
TTTATTTTCTTCCTTATTGTTCTAATCTTTGATTTATTATTCTATTTTATTTATCTTAGTTATTT
ATTTTAATTATTTTATCTTACTTGGATTAGTTTGCATTTTAGGTTAAGTCAAAATCCAAGTTTCT
TTCCAAACGTCTAGAGCCTTAAGTCAAATCCGAGACTTGAACAAACTTTACTATCTGATTTCTGA
TTCATTCGTGCCGTTCCTTATCAAAAGGACTGAAAAGCAATTCAATAAACTATGTGGATGAGATT
GTTATTATAATGTTAGGATGCAAATCGACTATTAAATGTTCAAATTAGGTTTAAATAAAATTCTT
TCAGGAATTTAAATTTTCTTAGATTACTTAATATCTATTTATACTGATAATATATAATACCATTT
TCTAAAAAAAATAAT
Found at i:47469998 original size:77 final size:77
Alignment explanation
Indices: 47469871--47470023 Score: 279
Period size: 77 Copynumber: 2.0 Consensus size: 77
47469861 TAACTTTTAA
* *
47469871 TGGTAGAAAAGTTGTATGGTTAGTGGATAAATTATTGAGAAAAAATATGGTCATGTATATAATAG
1 TGGTAGAAAAGTTGTATAGTTAGTGGATAAATTATTCAGAAAAAATATGGTCATGTATATAATAG
47469936 CTAAATGAAACT
66 CTAAATGAAACT
*
47469948 TGGTAGAAAAGTTGTATAGTTAGTGGATAAATTATTCAGAAATAATATGGTCATGTATATAATAG
1 TGGTAGAAAAGTTGTATAGTTAGTGGATAAATTATTCAGAAAAAATATGGTCATGTATATAATAG
47470013 CTAAATGAAAC
66 CTAAATGAAAC
47470024 GATAATTGCC
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.33
Consensus pattern (77 bp):
TGGTAGAAAAGTTGTATAGTTAGTGGATAAATTATTCAGAAAAAATATGGTCATGTATATAATAG
CTAAATGAAACT
Found at i:47478727 original size:34 final size:34
Alignment explanation
Indices: 47478664--47478775 Score: 129
Period size: 34 Copynumber: 3.3 Consensus size: 34
47478654 AGTGCTATAT
* * **
47478664 GACATGCTTAT-ACAGATCAATACGGTAGCAAGG
1 GACATGCTTATAACAAATCAATACTGTAGCAAAA
* * *
47478697 GACATGCTTATAACATATCAATACTATAGCAATA
1 GACATGCTTATAACAAATCAATACTGTAGCAAAA
*
47478731 GACATGCTTATATCAAATCAATA-TGGTAGCAAAA
1 GACATGCTTATAACAAATCAATACT-GTAGCAAAA
47478765 GACATGCTTAT
1 GACATGCTTAT
47478776 CATGTATTTG
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
33 12 0.18
34 56 0.82
ACGTcount: A:0.40, C:0.17, G:0.16, T:0.27
Consensus pattern (34 bp):
GACATGCTTATAACAAATCAATACTGTAGCAAAA
Found at i:47485575 original size:14 final size:14
Alignment explanation
Indices: 47485539--47485575 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
47485529 AATCTATTTT
47485539 TTCCTTTTTTTCTC
1 TTCCTTTTTTTCTC
47485553 TTCAACTTTTTTTCTC
1 TTC--CTTTTTTTCTC
47485569 TTCCTTT
1 TTCCTTT
47485576 CTACTACCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
16 14 0.67
ACGTcount: A:0.05, C:0.27, G:0.00, T:0.68
Consensus pattern (14 bp):
TTCCTTTTTTTCTC
Found at i:47488563 original size:99 final size:93
Alignment explanation
Indices: 47488308--47488576 Score: 301
Period size: 94 Copynumber: 2.8 Consensus size: 93
47488298 CTTGTGTGAT
* * * *
47488308 CTAGTGTAAGACATGTTTGGGACATGCATCGGCCACATTATGGGAGCCAGTGTAAGACCATGTCT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTAT-GTAGTCAGTGTAAGACCATGTCT
* * * * *
47488373 GGGACATTGCATCGGCATTGAGACGAGTG
65 GGGACATGGCATCAGCATGGACACGAGAG
*
47488402 CTAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGA-GATGT-GTCAGTGTAAGACCATGTC
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-C-ATTATGTAGTCAGTGTAAGACCATGTC
* *
47488464 TGGGACATGGCATTAGCATGGACATGTGAGAG
64 TGGGACATGGCATCAGCATGGACA--CGAGAG
* * *
47488496 CTAGTGTAAGACCATGTCTGGGACATGTCGTTGGCCTCAATTTTGATAGTCAGTGTAAGACCATG
1 CTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTC-ATTATG-TAGTCAGTGTAAGACCATG
47488561 TCTGGGACATGGCATC
62 TCTGGGACATGGCATC
47488577 GACTTGATGG
Statistics
Matches: 147, Mismatches: 18, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
92 37 0.25
93 2 0.01
94 49 0.33
95 16 0.11
96 6 0.04
97 4 0.03
98 1 0.01
99 32 0.22
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (93 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTATGTAGTCAGTGTAAGACCATGTCTG
GGACATGGCATCAGCATGGACACGAGAG
Found at i:47488570 original size:49 final size:50
Alignment explanation
Indices: 47488445--47488575 Score: 160
Period size: 49 Copynumber: 2.6 Consensus size: 50
47488435 TACGAGATGT
*
47488445 GTCAGTGTAAGACCATGTCTGGGACATGGCATTAGCATGGACATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATTAGCATGCACATGTGAGA
* * * * * *
47488495 G-CTAGTGTAAGACCATGTCTGGGACATGTCGTTGGCCT-CA-ATTTTGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCATTAGCATGCACA-TGTGAGA
47488544 GTCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCAT
47488576 CGACTTGATG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
48 1 0.01
49 35 0.51
50 33 0.48
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATTAGCATGCACATGTGAGA
Found at i:47490814 original size:21 final size:23
Alignment explanation
Indices: 47490782--47490833 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
47490772 ACTTGCTTGT
*
47490782 CCACTAAGAGAGTCTATTGTTTC
1 CCACCAAGAGAGTCTATTGTTTC
*
47490805 CTACCAAGAGAGTCTATTGTTTC
1 CCACCAAGAGAGTCTATTGTTTC
47490828 CCACCA
1 CCACCA
47490834 CTCGCTACCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (23 bp):
CCACCAAGAGAGTCTATTGTTTC
Found at i:47492332 original size:25 final size:25
Alignment explanation
Indices: 47492304--47492366 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
47492294 TAGGATCATC
*
47492304 ATGACATTTCATTATCAAAATCAGA
1 ATGACATTTCATTATCAAAATCAAA
** *
47492329 ATGACATGGCATTTTCAAAATCAAA
1 ATGACATTTCATTATCAAAATCAAA
47492354 ATGAC-TTATCATT
1 ATGACATT-TCATT
47492367 TTTAGGATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (25 bp):
ATGACATTTCATTATCAAAATCAAA
Found at i:47494349 original size:11 final size:11
Alignment explanation
Indices: 47494335--47494379 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
47494325 AGATAAATAT
47494335 TATTTTATTAA
1 TATTTTATTAA
*
47494346 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
47494359 TATTTTATTAT
1 TATTTTATTAA
47494370 TATTTTATTA
1 TATTTTATTA
47494380 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:47496613 original size:38 final size:38
Alignment explanation
Indices: 47496564--47496636 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
47496554 TGACATGAAA
47496564 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
47496602 TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
47496637 ATGACAGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (38 bp):
TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:47496659 original size:84 final size:83
Alignment explanation
Indices: 47496519--47496680 Score: 254
Period size: 84 Copynumber: 1.9 Consensus size: 83
47496509 TGATATGAAA
* * *
47496519 TGTGTAAGACCATGGTTGAAAGTACCATGGCAACCTGACATGAAATGTGTAAGACCATGGTTGAA
1 TGTGTAAGACCATGGTTGAAAGTACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAA
*
47496584 AGATACCATGGCAACCTG
66 AGACACCATGGCAACCTG
47496602 TGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTG
1 TGTGTAAGACCATGGTTGAAAG-TACCATGGCAACATGACATG-AAATGAGTAAGACCATAGTTG
*
47496666 AAAGACACTATGGCA
64 AAAGACACCATGGCA
47496681 TCACGTCAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
83 23 0.32
84 49 0.68
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.22
Consensus pattern (83 bp):
TGTGTAAGACCATGGTTGAAAGTACCATGGCAACATGACATGAAATGAGTAAGACCATAGTTGAA
AGACACCATGGCAACCTG
Found at i:47498547 original size:40 final size:40
Alignment explanation
Indices: 47498477--47498655 Score: 258
Period size: 40 Copynumber: 4.5 Consensus size: 40
47498467 TATTCGGATG
* *
47498477 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
47498516 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
47498556 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
47498596 ATAT-CGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
47498635 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
47498656 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
39 60 0.47
40 67 0.53
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:47498608 original size:79 final size:80
Alignment explanation
Indices: 47498477--47498655 Score: 258
Period size: 79 Copynumber: 2.3 Consensus size: 80
47498467 TATTCGGATG
** * *
47498477 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
*
47498541 TTTGTGCTAG-TGACT
66 TTTGTGCGAGTTG-CT
*
47498556 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACTATAT-CGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
47498620 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
*
47498635 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
47498656 ATACTTGGGT
Statistics
Matches: 91, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
78 14 0.15
79 51 0.56
80 26 0.29
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:47506505 original size:40 final size:40
Alignment explanation
Indices: 47506445--47506668 Score: 279
Period size: 40 Copynumber: 5.5 Consensus size: 40
47506435 TATTCAGATG
*
47506445 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
47506485 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * * *
47506528 ATACCCAGGCTAAGTCCCGAAGGTATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
47506568 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
47506608 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
47506648 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
47506669 ATACTTGGGT
Statistics
Matches: 160, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 111 0.69
41 1 0.01
43 35 0.22
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:47506591 original size:83 final size:80
Alignment explanation
Indices: 47506452--47506668 Score: 278
Period size: 83 Copynumber: 2.7 Consensus size: 80
47506442 ATGATATTCG
* **
47506452 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
47506517 GAGTAGTTG-CTATACCCA
66 ---TAG-TGACTATACCCA
* *
47506535 GGCTAAGTCCCGAAGGTATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
* *
47506600 TAGTGACTATATCCG
66 TAGTGACTATACCCA
* * *
47506615 GGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 GGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
47506669 ATACTTGGGT
Statistics
Matches: 121, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
79 16 0.13
80 43 0.36
81 2 0.02
83 60 0.50
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
TAGTGACTATACCCA
Found at i:47514338 original size:16 final size:16
Alignment explanation
Indices: 47514317--47514347 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47514307 TATACATATA
*
47514317 TTTTGAATTTTTTATT
1 TTTTGAATATTTTATT
47514333 TTTTGAATATTTTAT
1 TTTTGAATATTTTAT
47514348 AATTTTATAT
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:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (16 bp):
TTTTGAATATTTTATT
Found at i:47514358 original size:26 final size:25
Alignment explanation
Indices: 47514314--47514363 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
47514304 ATATATACAT
* *
47514314 ATATTTTGAATTTTTTATTTTTTGA
1 ATATTTTGAATTTTATATTATTTGA
*
47514339 ATATTTTATAATTTTATATTATTTG
1 ATATTTT-GAATTTTATATTATTTG
47514364 TTGACATAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (25 bp):
ATATTTTGAATTTTATATTATTTGA
Found at i:47515569 original size:18 final size:18
Alignment explanation
Indices: 47515535--47515573 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
47515525 AAAAAATCAT
*
47515535 AATAAATATTATGAAAACA
1 AATAAATATTAT-AAAAAA
47515554 AATAAAT-TTATAAAAAA
1 AATAAATATTATAAAAAA
47515571 AAT
1 AAT
47515574 TGAGCAGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 4 0.21
19 7 0.37
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
AATAAATATTATAAAAAA
Found at i:47515699 original size:19 final size:19
Alignment explanation
Indices: 47515687--47515815 Score: 70
Period size: 19 Copynumber: 6.6 Consensus size: 19
47515677 TTTTTTGAAT
47515687 TTTATAAGTTTTTATAATA
1 TTTATAAGTTTTTATAATA
*
47515706 TTTATAAGTTTATATAA-A
1 TTTATAAGTTTTTATAATA
* *
47515724 TTT-TAAATATATTT-TATATG
1 TTTATAAGT-T-TTTATA-ATA
* * *
47515744 TTTCATATG-TTTTATTATT
1 TTT-ATAAGTTTTTATAATA
* *
47515763 TTTATAA-TTTATTAGAACTT
1 TTTATAAGTTT-TTATAA-TA
*
47515783 TTTATAAGTTTTTATGATTTA
1 TTTATAAGTTTTTAT-A-ATA
47515804 TTTATAAGTTTT
1 TTTATAAGTTTT
47515816 AAAAGTTTAT
Statistics
Matches: 83, Mismatches: 14, Indels: 24
0.69 0.12 0.20
Matches are distributed among these distances:
17 4 0.05
18 12 0.14
19 31 0.37
20 17 0.20
21 17 0.20
22 2 0.02
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.60
Consensus pattern (19 bp):
TTTATAAGTTTTTATAATA
Found at i:47515701 original size:10 final size:10
Alignment explanation
Indices: 47515686--47515829 Score: 70
Period size: 9 Copynumber: 14.8 Consensus size: 10
47515676 ATTTTTTGAA
47515686 TTTTATAAGT
1 TTTTATAAGT
47515696 TTTTATAA-T
1 TTTTATAAGT
*
47515705 ATTTATAAGT
1 TTTTATAAGT
* *
47515715 TTATATAA-A
1 TTTTATAAGT
*
47515724 TTTTA-AATAT
1 TTTTATAA-GT
*
47515734 ATTTTATATG-
1 -TTTTATAAGT
* *
47515744 TTTCATATG-
1 TTTTATAAGT
*
47515753 TTTTATTA-T
1 TTTTATAAGT
47515762 TTTTATAA-T
1 TTTTATAAGT
* *
47515771 TTATTAGAACT
1 TT-TTATAAGT
47515782 TTTTATAAGT
1 TTTTATAAGT
* *
47515792 TTTTATGATT
1 TTTTATAAGT
47515802 TATTTATAAG-
1 T-TTTATAAGT
*
47515812 TTTTAAAAGT
1 TTTTATAAGT
*
47515822 TTATATAA
1 TTTTATAA
47515830 ATTCTATGAA
Statistics
Matches: 101, Mismatches: 23, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
8 2 0.02
9 42 0.42
10 42 0.42
11 14 0.14
12 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.58
Consensus pattern (10 bp):
TTTTATAAGT
Found at i:47515816 original size:30 final size:30
Alignment explanation
Indices: 47515752--47515829 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 30
47515742 TGTTTCATAT
*
47515752 GTTTTATTA-TTTTTATAATTTATTAGAAC
1 GTTTTATAAGTTTTTATAATTTATTAGAAC
* * *
47515781 TTTTTATAAGTTTTTATGATTTATTTATAA-
1 GTTTTATAAGTTTTTATAATTTA-TTAGAAC
* *
47515811 GTTTTAAAAGTTTATATAA
1 GTTTTATAAGTTTTTATAA
47515830 ATTCTATGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 7 0.18
30 27 0.69
31 5 0.13
ACGTcount: A:0.33, C:0.01, G:0.08, T:0.58
Consensus pattern (30 bp):
GTTTTATAAGTTTTTATAATTTATTAGAAC
Found at i:47518249 original size:18 final size:18
Alignment explanation
Indices: 47518228--47518268 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
47518218 AATTAATTAT
47518228 AAATTAT-TAATTGATAAA
1 AAATTATATAATT-ATAAA
47518246 AAA-TATATAATTATAAA
1 AAATTATATAATTATAAA
47518263 ATAATT
1 A-AATT
47518269 TAAACATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
17 9 0.45
18 10 0.50
19 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
AAATTATATAATTATAAA
Found at i:47518703 original size:15 final size:16
Alignment explanation
Indices: 47518685--47518721 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
47518675 AAATAAATAT
47518685 ATATAATCTA-AAAAA
1 ATATAATCTATAAAAA
*
47518700 ATATAATTTATAAAAA
1 ATATAATCTATAAAAA
47518716 AT-TAAT
1 ATATAAT
47518722 AAAAAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
ATATAATCTATAAAAA
Found at i:47520389 original size:26 final size:25
Alignment explanation
Indices: 47520339--47520391 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
47520329 TATACTCTTT
* *
47520339 AAAAACTATATTTTCATAATGTAAA
1 AAAAACTATATTTTCACAATATAAA
47520364 AAAAACTATATATTGT-ACAATATAAA
1 AAAAACTATAT-TT-TCACAATATAAA
47520390 AA
1 AA
47520392 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 12 0.50
27 1 0.04
ACGTcount: A:0.57, C:0.08, G:0.04, T:0.32
Consensus pattern (25 bp):
AAAAACTATATTTTCACAATATAAA
Found at i:47533538 original size:14 final size:15
Alignment explanation
Indices: 47533519--47533548 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
47533509 CTTACTTTAG
47533519 TTACTTTAGT-ACTT
1 TTACTTTAGTCACTT
47533533 TTACTTTAGTCACTT
1 TTACTTTAGTCACTT
47533548 T
1 T
47533549 AGTAAAACTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (15 bp):
TTACTTTAGTCACTT
Found at i:47533540 original size:23 final size:23
Alignment explanation
Indices: 47533496--47533552 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
47533486 AGGAACTTTG
47533496 TACTTTAGTTACACTTACTTTAGT
1 TACTTTAG-TACACTTACTTTAGT
**
47533520 TACTTTAGTACTTTTACTTTAGT
1 TACTTTAGTACACTTACTTTAGT
*
47533543 CACTTTAGTA
1 TACTTTAGTA
47533553 AAACTGTTCG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 22 0.73
24 8 0.27
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.51
Consensus pattern (23 bp):
TACTTTAGTACACTTACTTTAGT
Found at i:47536358 original size:29 final size:29
Alignment explanation
Indices: 47536305--47536407 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 29
47536295 TGTATGGCAA
* * **
47536305 ACCGTGTAGGTCACACGGCCATGTGGTTG
1 ACCGTGTGGGTCACACGACTGTGTGGTTG
* *
47536334 ACCGTGTGGGTCACACGATTGTGTGGTAG
1 ACCGTGTGGGTCACACGACTGTGTGGTTG
* *
47536363 ACCGTGTGGGTTACATGACTGTGTGGTTG
1 ACCGTGTGGGTCACACGACTGTGTGGTTG
* *
47536392 GCCGTGTGGGCCACAC
1 ACCGTGTGGGTCACAC
47536408 AAGCATGTGG
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.16, C:0.21, G:0.37, T:0.26
Consensus pattern (29 bp):
ACCGTGTGGGTCACACGACTGTGTGGTTG
Found at i:47542184 original size:40 final size:40
Alignment explanation
Indices: 47542138--47542355 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
47542128 CGGATGATAA
* * *
47542138 CCGGGCTAAGTCCCGAATGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
47542178 CTGGGCTAAGCCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
47542218 CCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTAACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
47542258 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
47542298 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
47542338 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
47542356 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 17 0.11
40 143 0.89
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:47543876 original size:34 final size:34
Alignment explanation
Indices: 47543833--47543931 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 34
47543823 ACAGTCAAAT
*
47543833 GCAGTTTGGGCCTAAGCCCATTTCAGTTTCAGTA
1 GCAGTTTGGGCCTTAGCCCATTTCAGTTTCAGTA
* * *
47543867 GCAGTTTGGGTCTTAGCCCATTTTAGTTTTAGTA
1 GCAGTTTGGGCCTTAGCCCATTTCAGTTTCAGTA
* ** *
47543901 GCAATTCAGGCCTTAGCCCATTTCGGTTTCA
1 GCAGTTTGGGCCTTAGCCCATTTCAGTTTCA
47543932 ATATCAGATA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (34 bp):
GCAGTTTGGGCCTTAGCCCATTTCAGTTTCAGTA
Found at i:47545153 original size:20 final size:20
Alignment explanation
Indices: 47545111--47545151 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
47545101 ACGTCAACTG
* *
47545111 ATTTTGGAAAAGAGAGGAAA
1 ATTTTGGAAAAGAAAAGAAA
47545131 ATTTTGGGAAAAGAAAAGAAA
1 ATTTT-GGAAAAGAAAAGAAA
47545152 TTAAATTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.54, C:0.00, G:0.27, T:0.20
Consensus pattern (20 bp):
ATTTTGGAAAAGAAAAGAAA
Found at i:47545476 original size:50 final size:50
Alignment explanation
Indices: 47545401--47545501 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
47545391 CGCTGAACAA
47545401 GTATAAAGCTTAAGTCAGAAAAATTCCAAAATTTGCCAAAGCTAAGGCTT
1 GTATAAAGCTTAAGTCAGAAAAATTCCAAAATTTGCCAAAGCTAAGGCTT
47545451 GTATAAAGCTTAAGTCAGAAAAATTCCAAAATTTGCCAAAGCTAAGGCTT
1 GTATAAAGCTTAAGTCAGAAAAATTCCAAAATTTGCCAAAGCTAAGGCTT
47545501 G
1 G
47545502 AACTTGGAAC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.26
Consensus pattern (50 bp):
GTATAAAGCTTAAGTCAGAAAAATTCCAAAATTTGCCAAAGCTAAGGCTT
Found at i:47553765 original size:23 final size:23
Alignment explanation
Indices: 47553735--47553781 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
47553725 TAAGTTAGAA
*
47553735 AAATTCCAAAATTTGCCAAAGCT
1 AAATTCCAAAAATTGCCAAAGCT
47553758 AAATTCCAAAAATTGCCAAAGCT
1 AAATTCCAAAAATTGCCAAAGCT
47553781 A
1 A
47553782 GGCTCGAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (23 bp):
AAATTCCAAAAATTGCCAAAGCT
Found at i:47555107 original size:23 final size:23
Alignment explanation
Indices: 47555061--47555111 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
47555051 GAACATGTTG
* *
47555061 AGTTATGACATATTGAATGAAAA
1 AGTTGTGACATATTGAAGGAAAA
* *
47555084 AGTTGTGACATGTTGAAGGTAAA
1 AGTTGTGACATATTGAAGGAAAA
47555107 A-TTGT
1 AGTTGT
47555112 AAAAAAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.39, C:0.04, G:0.24, T:0.33
Consensus pattern (23 bp):
AGTTGTGACATATTGAAGGAAAA
Found at i:47556296 original size:37 final size:37
Alignment explanation
Indices: 47556246--47556390 Score: 218
Period size: 37 Copynumber: 3.9 Consensus size: 37
47556236 ACCTTTAGCT
* * * *
47556246 CGGACGTAATCTCCACATGAAGTTATCGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
*
47556283 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
*
47556320 CAGACATAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
* *
47556357 TGGACATAATCTCCACACGTAGTCATCGAGTCTT
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTT
47556391 TAGAGCTCGG
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (37 bp):
CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:47556587 original size:47 final size:47
Alignment explanation
Indices: 47556509--47556967 Score: 760
Period size: 47 Copynumber: 9.7 Consensus size: 47
47556499 CCCTTCGGGA
* * * * * *
47556509 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47556556 CCTGTCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47556603 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47556650 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47556697 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47556744 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47556790 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47556837 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47556886 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
47556933 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
47556968 AGAATCCTAA
Statistics
Matches: 391, Mismatches: 17, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
46 47 0.12
47 297 0.76
49 47 0.12
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47560629 original size:45 final size:45
Alignment explanation
Indices: 47560565--47560655 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
47560555 AATATATGTA
47560565 TAAATTATGATTTATCAAATACCCCCACACTTAAGCGTTTGCTTG
1 TAAATTATGATTTATCAAATACCCCCACACTTAAGCGTTTGCTTG
47560610 TAAATTATGATTTATCAAATACCCCCACACTTAAGCGTTTGCTTG
1 TAAATTATGATTTATCAAATACCCCCACACTTAAGCGTTTGCTTG
47560655 T
1 T
47560656 CCTCAAGCAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (45 bp):
TAAATTATGATTTATCAAATACCCCCACACTTAAGCGTTTGCTTG
Found at i:47565851 original size:47 final size:47
Alignment explanation
Indices: 47565793--47566188 Score: 650
Period size: 47 Copynumber: 8.4 Consensus size: 47
47565783 CAGCCAAGAC
47565793 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
47565840 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
*
47565887 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
47565934 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
47565983 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
47566030 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
47566077 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* * * * * *
47566124 AGTGTATATATGTGAT-AGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
* *
47566170 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
47566189 TCCCGAAGGG
Statistics
Matches: 332, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 39 0.12
47 247 0.74
49 46 0.14
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
Found at i:47566049 original size:143 final size:141
Alignment explanation
Indices: 47565793--47566188 Score: 668
Period size: 143 Copynumber: 2.8 Consensus size: 141
47565783 CAGCCAAGAC
47565793 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
47565858 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
47565923 ATGAATGTGAA
131 ATGAATGTGAA
47565934 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
*
47565999 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATG
64 AAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATG
47566064 TGATGAATGTGAA
129 TGATGAATGTGAA
* *
47566077 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT-A
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * * * *
47566141 GGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
47566189 TCCCGAAGGG
Statistics
Matches: 241, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
140 40 0.17
141 61 0.25
143 140 0.58
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (141 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAA
Found at i:47566364 original size:37 final size:37
Alignment explanation
Indices: 47566307--47566385 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
47566297 CCGAGCTCTA
* *
47566307 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
**
47566344 AAGACCCGATAACTTTGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
47566381 AAGAC
1 AAGAC
47566386 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:47569067 original size:50 final size:50
Alignment explanation
Indices: 47568971--47569076 Score: 124
Period size: 50 Copynumber: 2.1 Consensus size: 50
47568961 ATTCGAACAC
* * * * *
47568971 CACATAAATACTTACCTATATGACCGGATATACCAAATTCATTATATCAT
1 CACATAAATACATACCTATAAGACCGAATATACCAAACTCAATATATCAT
* * *
47569021 TACATAAGTACATACCTATAAGACCGAATATA-CAAGGCTCAATATATCAT
1 CACATAAATACATACCTATAAGACCGAATATACCAA-ACTCAATATATCAT
47569071 CACATA
1 CACATA
47569077 TGGCTAGTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
49 3 0.07
50 43 0.93
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (50 bp):
CACATAAATACATACCTATAAGACCGAATATACCAAACTCAATATATCAT
Found at i:47578072 original size:39 final size:39
Alignment explanation
Indices: 47578046--47578131 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
47578036 GGGACTTTAG
*
47578046 GCCCGGATAT-ATTCCAGCACGTAGCCTGCGGACCTCAA
1 GCCCAGATATGATTCCAGCACGTAGCCTGCGGACCTCAA
* * *
47578084 GTCCAGATATGTTTCCAGCACGTAGCCTACGGACCTCAA
1 GCCCAGATATGATTCCAGCACGTAGCCTGCGGACCTCAA
*
47578123 GCCCGGATA
1 GCCCAGATA
47578132 AGTTTCCAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
38 8 0.20
39 33 0.80
ACGTcount: A:0.24, C:0.33, G:0.23, T:0.20
Consensus pattern (39 bp):
GCCCAGATATGATTCCAGCACGTAGCCTGCGGACCTCAA
Found at i:47578137 original size:39 final size:39
Alignment explanation
Indices: 47578057--47578139 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
47578047 CCCGGATATA
* * *
47578057 TTCCAGCACGTAGCCTGCGGACCTCAAGTCCAGATATGT
1 TTCCAGCACGTAGCCTACGGACCTCAAGCCCAGATAAGT
*
47578096 TTCCAGCACGTAGCCTACGGACCTCAAGCCCGGATAAGT
1 TTCCAGCACGTAGCCTACGGACCTCAAGCCCAGATAAGT
47578135 TTCCA
1 TTCCA
47578140 AATATCATGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.22
Consensus pattern (39 bp):
TTCCAGCACGTAGCCTACGGACCTCAAGCCCAGATAAGT
Found at i:47578809 original size:21 final size:21
Alignment explanation
Indices: 47578785--47578825 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
47578775 TGCATATTCT
*
47578785 AATTTCATTAACTAATTTACG
1 AATTTCATAAACTAATTTACG
47578806 AATTTCATAAACTAATTTAC
1 AATTTCATAAACTAATTTAC
47578826 TAAATCAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.41
Consensus pattern (21 bp):
AATTTCATAAACTAATTTACG
Found at i:47585698 original size:15 final size:13
Alignment explanation
Indices: 47585669--47585695 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47585659 GTTCGACAGG
47585669 GACACGCCCGTGT
1 GACACGCCCGTGT
47585682 GACACGCCCGTGT
1 GACACGCCCGTGT
47585695 G
1 G
47585696 TGATTTCTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:47588386 original size:15 final size:15
Alignment explanation
Indices: 47588363--47588397 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
47588353 GAATAAATTA
* *
47588363 TATTATATTATTTTT
1 TATTTTATTATATTT
47588378 TATTTTATTATATTT
1 TATTTTATTATATTT
47588393 TATTT
1 TATTT
47588398 AAGATTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTTATTATATTT
Found at i:47591163 original size:45 final size:45
Alignment explanation
Indices: 47591099--47591188 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
47591089 AGTAGAATTG
47591099 GTTTGGGAATCAAGAAAGTGTGATTATGCACTAATTTTTGAGATT
1 GTTTGGGAATCAAGAAAGTGTGATTATGCACTAATTTTTGAGATT
47591144 GTTTGGGAATCAAGAAAGTGTGATTATGCACTAATTTTTGAGATT
1 GTTTGGGAATCAAGAAAGTGTGATTATGCACTAATTTTTGAGATT
47591189 ATCTATGCAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.38
Consensus pattern (45 bp):
GTTTGGGAATCAAGAAAGTGTGATTATGCACTAATTTTTGAGATT
Found at i:47591871 original size:21 final size:20
Alignment explanation
Indices: 47591837--47591905 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 20
47591827 AAATCTATAA
* *
47591837 TTTAAGGGAATTTTAAATAT
1 TTTAAAGGATTTTTAAATAT
*
47591857 TTTAAAGGTATTTTTATATATT
1 TTTAAAGG-ATTTTTAAATA-T
*
47591879 TTTAATGGATTTTTAAATCAT
1 TTTAAAGGATTTTTAAAT-AT
47591900 TTTAAA
1 TTTAAA
47591906 ATTAGCCCCG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
20 7 0.17
21 24 0.60
22 9 0.22
ACGTcount: A:0.36, C:0.01, G:0.10, T:0.52
Consensus pattern (20 bp):
TTTAAAGGATTTTTAAATAT
Found at i:47594701 original size:21 final size:21
Alignment explanation
Indices: 47594675--47594714 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47594665 CATGACATAA
47594675 TTATATGGATAA-GTTGCTATG
1 TTATATGGA-AATGTTGCTATG
*
47594696 TTATATTGAAATGTTGCTA
1 TTATATGGAAATGTTGCTA
47594715 CACATGCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (21 bp):
TTATATGGAAATGTTGCTATG
Found at i:47596030 original size:21 final size:20
Alignment explanation
Indices: 47596006--47596044 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47595996 TGAATTGATT
47596006 AAATGTGTGATTAAATTAGTG
1 AAATGTGT-ATTAAATTAGTG
* *
47596027 AAATTTGTATTAATTTAG
1 AAATGTGTATTAAATTAG
47596045 ATCAAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.38, C:0.00, G:0.18, T:0.44
Consensus pattern (20 bp):
AAATGTGTATTAAATTAGTG
Found at i:47599511 original size:24 final size:24
Alignment explanation
Indices: 47599461--47599515 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
47599451 TAGGAAGAAA
* **
47599461 ATGGTTGTTTGATATGTTTTTGAT
1 ATGGTTATTTGATATGTTTAAGAT
* *
47599485 ATGGTTATTTGGTATGTTTAAGGT
1 ATGGTTATTTGATATGTTTAAGAT
47599509 AT-GTTAT
1 ATGGTTAT
47599516 ATCAATGAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (24 bp):
ATGGTTATTTGATATGTTTAAGAT
Found at i:47600714 original size:20 final size:19
Alignment explanation
Indices: 47600689--47600729 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
47600679 TCATAATCAG
47600689 ACAAATTGAAAAAACATGAA
1 ACAAA-TGAAAAAACATGAA
* *
47600709 ACAAATGCATAAACATGAA
1 ACAAATGAAAAAACATGAA
47600728 AC
1 AC
47600730 CCACCCATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.61, C:0.15, G:0.10, T:0.15
Consensus pattern (19 bp):
ACAAATGAAAAAACATGAA
Found at i:47601752 original size:16 final size:16
Alignment explanation
Indices: 47601731--47601763 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
47601721 TTAGGGCACA
47601731 CACCCTTGTGGCCACC
1 CACCCTTGTGGCCACC
47601747 CACCCTTGTGGCCACC
1 CACCCTTGTGGCCACC
47601763 C
1 C
47601764 GTGTGGCTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.12, C:0.52, G:0.18, T:0.18
Consensus pattern (16 bp):
CACCCTTGTGGCCACC
Found at i:47616498 original size:12 final size:12
Alignment explanation
Indices: 47616481--47616506 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47616471 TGGTACATGG
47616481 CCTACCACACGA
1 CCTACCACACGA
47616493 CCTACCACACGA
1 CCTACCACACGA
47616505 CC
1 CC
47616507 GTGTGGCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.54, G:0.08, T:0.08
Consensus pattern (12 bp):
CCTACCACACGA
Found at i:47619792 original size:12 final size:13
Alignment explanation
Indices: 47619775--47619806 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
47619765 ATAAAACATT
47619775 TCAAAAC-ATGCA
1 TCAAAACTATGCA
47619787 TCAAAACTATGCA
1 TCAAAACTATGCA
47619800 -CAAAACT
1 TCAAAACT
47619807 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:47620434 original size:44 final size:42
Alignment explanation
Indices: 47620334--47620441 Score: 103
Period size: 44 Copynumber: 2.5 Consensus size: 42
47620324 GAAGCCTCTA
* * *
47620334 TCCCAGACAGGGTCTTACACGAAATCAGATACGATGCCGATG
1 TCCCAGACACGGTCTTACACGAAATCAAATACAATGCCGATG
* * *
47620376 TTCTAGACATGGTCTTACACGTAAATTTCAAAT-CAATGCC-AGTG
1 TCCCAGACACGGTCTTACACG-AAA--TCAAATACAATGCCGA-TG
*
47620420 TCCCAGACACGGTCTTAGACGA
1 TCCCAGACACGGTCTTACACGA
47620442 TAATTTAGAT
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
42 18 0.34
43 5 0.09
44 25 0.47
45 5 0.09
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (42 bp):
TCCCAGACACGGTCTTACACGAAATCAAATACAATGCCGATG
Found at i:47626917 original size:12 final size:13
Alignment explanation
Indices: 47626902--47626933 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
47626892 ATAACACATT
47626902 TCAAAAC-ATGCA
1 TCAAAACTATGCA
47626914 TCAAAACTATGCA
1 TCAAAACTATGCA
47626927 -CAAAACT
1 TCAAAACT
47626934 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:47627555 original size:42 final size:42
Alignment explanation
Indices: 47627465--47627612 Score: 140
Period size: 42 Copynumber: 3.4 Consensus size: 42
47627455 TCCCAGATGT
* * ** *
47627465 GGTCTTACATGTAATTCAATATCGCA-GCCTCTGTCCCAGACAG
1 GGTCTTACACGAAATTCAA-ATCG-ATGCCAGTGTCCCAGACAC
* *
47627508 GGTCTTACACGAAA-TCAAATACGATGCC-GATGTTCCAGACAT
1 GGTCTTACACGAAATTCAAAT-CGATGCCAG-TGTCCCAGACAC
*
47627550 AGTCTTACACGTAAATTTCAAATCGATGCCAGTGTCCCAGACAC
1 GGTCTTACACG-AAA-TTCAAATCGATGCCAGTGTCCCAGACAC
47627594 GGTCTTACACGATAATTCA
1 GGTCTTACACGA-AATTCA
47627613 GATCAATACC
Statistics
Matches: 88, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
41 3 0.03
42 29 0.33
43 20 0.23
44 29 0.33
45 7 0.08
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGAAATTCAAATCGATGCCAGTGTCCCAGACAC
Found at i:47627590 original size:44 final size:42
Alignment explanation
Indices: 47627438--47627605 Score: 137
Period size: 42 Copynumber: 3.9 Consensus size: 42
47627428 TATTCACAGA
* *** * *
47627438 CAAATACAATGCCGATGTCCCAGATGTGGTCTTACATGTAATT
1 CAAATACGATGCCGATGTCCCAGACACGGTCTTACACG-AAAT
** *
47627481 C-AATATCGCA-GCCTCTGTCCCAGACAGGGTCTTACACGAAAT
1 CAAATA-CG-ATGCCGATGTCCCAGACACGGTCTTACACGAAAT
* **
47627523 CAAATACGATGCCGATGTTCCAGACATAGTCTTACACGTAAATTT
1 CAAATACGATGCCGATGTCCCAGACACGGTCTTACACG-AAA--T
47627568 CAAAT-CGATGCC-AGTGTCCCAGACACGGTCTTACACGA
1 CAAATACGATGCCGA-TGTCCCAGACACGGTCTTACACGA
47627606 TAATTCAGAT
Statistics
Matches: 101, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
41 1 0.01
42 33 0.33
43 33 0.33
44 28 0.28
45 6 0.06
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
CAAATACGATGCCGATGTCCCAGACACGGTCTTACACGAAAT
Found at i:47629820 original size:13 final size:13
Alignment explanation
Indices: 47629802--47629827 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47629792 GCTCGGCAGG
47629802 GACACGCCCGTGT
1 GACACGCCCGTGT
47629815 GACACGCCCGTGT
1 GACACGCCCGTGT
47629828 TCAATTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:47632049 original size:39 final size:41
Alignment explanation
Indices: 47631914--47632067 Score: 215
Period size: 42 Copynumber: 3.8 Consensus size: 41
47631904 CTTCGTTTTC
** * *
47631914 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACAT-ATCACAT-A
*
47631957 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATA-TCACATA
47631998 TCGATGCCATAGCCCAGCTATGGTC-T-CACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATCACATA
47632037 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
47632068 GAATAACATA
Statistics
Matches: 101, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
39 31 0.31
40 7 0.07
41 6 0.06
42 56 0.55
43 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (41 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATCACATA
Found at i:47632052 original size:81 final size:84
Alignment explanation
Indices: 47631914--47632067 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 84
47631904 CTTCGTTTTC
** *
47631914 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAGCTATGG
1 TCGATGCCATAGCCCAACTATGGTCTTACACATCATCACATAATGATGCCATAGCCCAGCTATGG
47631979 TCTTACACATATTCATATA
66 TCTTACACATATTCATATA
*
47631998 TCGATGCCATAGCCCAGCTATGGTC-T-CACAT-ATCACAT-ATCGATGCCATAGCCCAGCTATG
1 TCGATGCCATAGCCCAACTATGGTCTTACACATCATCACATAAT-GATGCCATAGCCCAGCTATG
47632059 GTCTTACAC
65 GTCTTACAC
47632068 GAATAACATA
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
80 2 0.03
81 35 0.54
82 5 0.08
83 1 0.02
84 22 0.34
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (84 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATCATCACATAATGATGCCATAGCCCAGCTATGG
TCTTACACATATTCATATA
Found at i:47632099 original size:46 final size:46
Alignment explanation
Indices: 47632024--47632156 Score: 160
Period size: 47 Copynumber: 2.8 Consensus size: 46
47632014 GCTATGGTCT
* * *
47632024 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATA
1 CACATATCACA-CT-GATGCCATATCCCAGATATGGTCTTACAC-AATA
* * *
47632073 -ACATATCTCACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 CACATATCACACTGATGCCATATCCCAGATATGGTCTTACACAATA
*
47632118 GCATATATCACACTGATGCCATATCCCAGATATGGTCTT
1 -CACATATCACACTGATGCCATATCCCAGATATGGTCTT
47632157 GTACGGAAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
45 3 0.04
46 26 0.35
47 36 0.49
48 9 0.12
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (46 bp):
CACATATCACACTGATGCCATATCCCAGATATGGTCTTACACAATA
Found at i:47632214 original size:31 final size:31
Alignment explanation
Indices: 47632179--47632327 Score: 212
Period size: 31 Copynumber: 4.8 Consensus size: 31
47632169 CTTGTCACTT
*
47632179 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
47632210 GTAGCCGGTA-CTACCACTTTTCATTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
47632241 GTAGCC-AGAGCTACCACTTTTCACTGATTAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
47632272 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
47632303 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
47632328 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
30 1 0.01
31 101 0.97
32 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:47632409 original size:50 final size:51
Alignment explanation
Indices: 47632303--47632431 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
47632293 CACTGATCAG
* * *
47632303 GTAGCTGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
*
47632354 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCA-TTTGTCATTGATCAGATAAGT
47632404 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
47632432 TGCCATGGTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCATTTGTCATTGATCAGATAAGT
Found at i:47646788 original size:18 final size:17
Alignment explanation
Indices: 47646762--47646796 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
47646752 CGTGTGGCTT
47646762 ACCTATGTGGGCCCACAC
1 ACCTATGT-GGCCCACAC
*
47646780 ACCTGTGTGGCCCACAC
1 ACCTATGTGGCCCACAC
47646797 GACCCAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.20, C:0.40, G:0.23, T:0.17
Consensus pattern (17 bp):
ACCTATGTGGCCCACAC
Found at i:47649287 original size:18 final size:19
Alignment explanation
Indices: 47649247--47649287 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
47649237 GGCAGCTTAT
*
47649247 AAAATTTTTAACAGATTAT
1 AAAATTTTTAACAGATTAC
*
47649266 AAAATTTTTAATAGATT-C
1 AAAATTTTTAACAGATTAC
47649284 AAAA
1 AAAA
47649288 ACAAAGGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (19 bp):
AAAATTTTTAACAGATTAC
Found at i:47649288 original size:19 final size:19
Alignment explanation
Indices: 47649243--47649282 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
47649233 CAATGGCAGC
47649243 TTATAAAATTTTTAACAGA
1 TTATAAAATTTTTAACAGA
*
47649262 TTATAAAATTTTTAATAGA
1 TTATAAAATTTTTAACAGA
47649281 TT
1 TT
47649283 CAAAAACAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (19 bp):
TTATAAAATTTTTAACAGA
Found at i:47656040 original size:48 final size:48
Alignment explanation
Indices: 47655987--47656163 Score: 196
Period size: 48 Copynumber: 3.7 Consensus size: 48
47655977 CTCGCACACT
* *
47655987 AAGTGCCAATATCATTGCCCGCAA-CCAACTCAATATATCTCACACCCG
1 AAGTGCCAATATCATGGCCCG-AAGCCAAATCAATATATCTCACACCCG
* * * *
47656035 AAGTGCTAATATCATGGCCTGAAGCCAAATGAATATATCTCATACCCG
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAATATATCTCACACCCG
* * * * **
47656083 AAGTGCTAATATCATGGCCCGAAGCCAAGTCAATGA-AGCTCGCACCTT
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAAT-ATATCTCACACCCG
* *
47656131 AAGTGCCAATATTATGGCTCGAAGCCAAATCAA
1 AAGTGCCAATATCATGGCCCGAAGCCAAATCAA
47656164 AGTATCCCCT
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
47 2 0.02
48 106 0.97
49 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCCCGAAGCCAAATCAATATATCTCACACCCG
Found at i:47656155 original size:96 final size:96
Alignment explanation
Indices: 47655987--47656160 Score: 219
Period size: 96 Copynumber: 1.8 Consensus size: 96
47655977 CTCGCACACT
* * *
47655987 AAGTGCCAATATCATTGCCCGCAACCAACTCAATATATCTCACACCCGAAGTGCTAATATCATGG
1 AAGTGCCAATATCATGGCCCGCAACCAACTCAATATAGCTCACACCCGAAGTGCCAATATCATGG
47656052 CCTGAAGCCAAATGAATATATCTCATACCCG
66 CCTGAAGCCAAATGAATATATCTCATACCCG
* * * ** *
47656083 AAGTGCTAATATCATGGCCCG-AAGCCAAGTCAATGA-AGCTCGCACCTTAAGTGCCAATATTAT
1 AAGTGCCAATATCATGGCCCGCAA-CCAACTCAAT-ATAGCTCACACCCGAAGTGCCAATATCAT
47656146 GG-CTCGAAGCCAAAT
64 GGCCT-GAAGCCAAAT
47656161 CAAAGTATCC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
95 4 0.06
96 61 0.92
97 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (96 bp):
AAGTGCCAATATCATGGCCCGCAACCAACTCAATATAGCTCACACCCGAAGTGCCAATATCATGG
CCTGAAGCCAAATGAATATATCTCATACCCG
Found at i:47662976 original size:13 final size:13
Alignment explanation
Indices: 47662958--47662985 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47662948 ACAGCTCGGT
47662958 AAGCTCATATGAA
1 AAGCTCATATGAA
47662971 AAGCTCATATGAA
1 AAGCTCATATGAA
47662984 AA
1 AA
47662986 TAAGAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (13 bp):
AAGCTCATATGAA
Found at i:47663294 original size:48 final size:48
Alignment explanation
Indices: 47663241--47663369 Score: 152
Period size: 48 Copynumber: 2.7 Consensus size: 48
47663231 CTCGCACACT
* * * *
47663241 AAGTGCCAATATCATGGCTCAAAGCCAACTCAATCTATCTCA-CACCAA
1 AAGTGCCAATATCATGGCTCGAAGCCAAATCAATCAAGCT-AGCACCAA
* * * * **
47663289 AAGTGCTAATATCTTGGCCCGAAGCCAAATCAATGAAGCTAGCACCCG
1 AAGTGCCAATATCATGGCTCGAAGCCAAATCAATCAAGCTAGCACCAA
47663337 AAGTGCCAATATCATGGCTCGAAGCCAAATCAA
1 AAGTGCCAATATCATGGCTCGAAGCCAAATCAA
47663370 AGTATCCCCT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.01
48 66 0.99
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.19
Consensus pattern (48 bp):
AAGTGCCAATATCATGGCTCGAAGCCAAATCAATCAAGCTAGCACCAA
Found at i:47663896 original size:29 final size:27
Alignment explanation
Indices: 47663848--47663909 Score: 70
Period size: 29 Copynumber: 2.2 Consensus size: 27
47663838 TTTTCATTTA
*
47663848 TTTCACATTTTAACCACTAAATTTACACT
1 TTTCACAATTTAACCACT-AATTTACA-T
* * *
47663877 TTTCACAATTTAGCCCCTAATTTGCAT
1 TTTCACAATTTAACCACTAATTTACAT
47663904 TTTCAC
1 TTTCAC
47663910 TAAAAATCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 7 0.24
28 7 0.24
29 15 0.52
ACGTcount: A:0.29, C:0.26, G:0.03, T:0.42
Consensus pattern (27 bp):
TTTCACAATTTAACCACTAATTTACAT
Found at i:47668549 original size:40 final size:40
Alignment explanation
Indices: 47668487--47668742 Score: 331
Period size: 40 Copynumber: 6.4 Consensus size: 40
47668477 AAGCCAAGTA
* * * * *
47668487 CCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
47668526 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47668566 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
47668606 CCTTCGGAACTTAGCCCGGATACAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
47668646 CCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47668686 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
47668727 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
47668743 TGGTTATCAT
Statistics
Matches: 193, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
39 12 0.06
40 156 0.81
41 21 0.11
42 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47676786 original size:40 final size:40
Alignment explanation
Indices: 47676718--47676942 Score: 276
Period size: 40 Copynumber: 5.6 Consensus size: 40
47676708 ATTCCCAGGC
* * * * *
47676718 CAAATACCTTCGGGATTTA-ACCGGATATAGCT-ACTTGCT
1 CAAATGCCTTCGGGACTTAGCCCGGATATAG-TAACTCGCA
* *
47676757 CGAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
47676797 CCAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
47676837 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
47676877 CAAATGCCTTTGGGACTTAGCCCGGA-ACTAGTCACTAGTGA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCG-CA
*
47676918 AAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
47676943 TTATCATCCA
Statistics
Matches: 165, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 17 0.10
40 124 0.75
41 24 0.15
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:47678865 original size:40 final size:40
Alignment explanation
Indices: 47678814--47678958 Score: 168
Period size: 40 Copynumber: 3.6 Consensus size: 40
47678804 AACTATTGAT
*
47678814 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAT
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
* *
47678854 TATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGAC
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
** * * * *
47678894 TATATCCATGCTAAGACCCGAAGGTATCTGTGCGAGTTG-C
1 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGAC
* *
47678934 TATATCC-GGCTAAATCCTGAAGGCA
1 TATATCCGGGCTAAGTCCCGAAGGCA
47678959 CTTGAGTTTG
Statistics
Matches: 88, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 13 0.15
40 73 0.83
41 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAC
Found at i:47678939 original size:80 final size:79
Alignment explanation
Indices: 47678806--47678957 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 79
47678796 GCTGTCACAA
* * * * * * *
47678806 CTATTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CTATTGACTATATCCAGGCTAAGACCCGAAGGCATCTGTGCGAGTGACTATATCC-GGCTAAATC
47678871 CCGAAGGCTTTTGTG
65 CCGAAGGCTTTTGTG
* *
47678886 CTATTGACTATATCCATGCTAAGACCCGAAGGTATCTGTGCGAGTTG-CTATATCCGGCTAAATC
1 CTATTGACTATATCCAGGCTAAGACCCGAAGGCATCTGTGCGAG-TGACTATATCCGGCTAAATC
*
47678950 CTGAAGGC
65 CCGAAGGC
47678958 ACTTGAGTTT
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
79 15 0.25
80 44 0.72
81 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (79 bp):
CTATTGACTATATCCAGGCTAAGACCCGAAGGCATCTGTGCGAGTGACTATATCCGGCTAAATCC
CGAAGGCTTTTGTG
Found at i:47683786 original size:46 final size:46
Alignment explanation
Indices: 47683731--47684233 Score: 686
Period size: 46 Copynumber: 11.0 Consensus size: 46
47683721 GCTTTCTGAA
*
47683731 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
47683777 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
47683823 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
47683869 ATGAAATGTGTAAGACCATGGTTGAAAGATATCATGGTAACAAGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
47683915 ATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACAAGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
47683961 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACAAGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
47684007 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
47684053 ATAAAATGTGTAAGACCATGGTTGAAAGATACAATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** ** * *
47684098 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * *
47684144 ATGAAATGAAAAAGACCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
47684190 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
47684234 TCAAAGATAA
Statistics
Matches: 414, Mismatches: 41, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 36 0.09
46 378 0.91
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:47684535 original size:16 final size:17
Alignment explanation
Indices: 47684514--47684546 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
47684504 ATGATGGAGC
47684514 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
47684530 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
47684547 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:47689005 original size:17 final size:18
Alignment explanation
Indices: 47688983--47689019 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
47688973 GCTTACCCAT
47688983 GTGGGGCCCACA-AGCCC
1 GTGGGGCCCACACAGCCC
*
47689000 GTGGGGCCTACACAGCCC
1 GTGGGGCCCACACAGCCC
47689018 GT
1 GT
47689020 TTCGGCCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.16, C:0.38, G:0.35, T:0.11
Consensus pattern (18 bp):
GTGGGGCCCACACAGCCC
Found at i:47691520 original size:60 final size:61
Alignment explanation
Indices: 47691402--47691520 Score: 161
Period size: 60 Copynumber: 2.0 Consensus size: 61
47691392 CTATTCAGAA
* *
47691402 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGT
1 ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT
* * * *
47691463 ATCAGAG-TATACTGGGCC-TAGCCCATATCAGTGTCAATCTGGGCCGTAGCCTATTACA
1 ATCAGAGTTA-ACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACA
47691521 AGTCGAGATA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
60 36 0.71
61 15 0.29
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (61 bp):
ATCAGAGTTAACTGGGCCTTAGCCCATATCAATATCAATCTGGGCCATAGCCCATTACAGT
Found at i:47696614 original size:16 final size:16
Alignment explanation
Indices: 47696593--47696623 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47696583 TTTAAAATGT
*
47696593 TAATTTGGTAATTAGG
1 TAATTTGGAAATTAGG
47696609 TAATTTGGAAATTAG
1 TAATTTGGAAATTAG
47696624 AAATGAAAAG
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:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (16 bp):
TAATTTGGAAATTAGG
Done.