Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 265 of 349
Found at i:88617815 original size:41 final size:41
Alignment explanation
Indices: 88617738--88617815 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
88617728 TTTGTATCTC
* * *
88617738 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
88617779 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
88617816 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:88626122 original size:47 final size:47
Alignment explanation
Indices: 88626056--88626176 Score: 188
Period size: 47 Copynumber: 2.6 Consensus size: 47
88626046 GCATTGGCAC
*
88626056 TAAGAGAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAG
* * *
88626103 TAGGACAAGGATGCCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAG
* *
88626150 TAAGATAAGGATATCATGTAAGACCAT
1 TAAGACAAGGATACCATGTAAGACCAT
88626177 ACCAAGGCAT
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTAG
Found at i:88626284 original size:55 final size:55
Alignment explanation
Indices: 88626156--88626352 Score: 222
Period size: 55 Copynumber: 3.6 Consensus size: 55
88626146 TTGGTAAGAT
* * * * * *
88626156 AAGGATATCATGTAAGACCATACCAAGGCATGGAATTGATAAG-CTCTATAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCATTGATGAGTCTCTATAAGGC
*
88626210 AAGGATACCACGTAAGACCATGCCAAGACATGGCATTGATGAGTCACTATAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCATTGATGAGTCTCTATAAGGC
* * * ** * *
88626265 AAAGG-TCCCATGTACGACCATGTGAAGGCATGGCATTGGTGAGT-TC-ATAAGGC
1 -AAGGATACCACGTAAGACCATGCCAAGACATGGCATTGATGAGTCTCTATAAGGC
*
88626318 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCA
88626353 ATGGTAAGTT
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.27
54 38 0.32
55 42 0.35
56 4 0.03
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (55 bp):
AAGGATACCACGTAAGACCATGCCAAGACATGGCATTGATGAGTCTCTATAAGGC
Found at i:88626339 original size:53 final size:54
Alignment explanation
Indices: 88626156--88626363 Score: 213
Period size: 53 Copynumber: 3.9 Consensus size: 54
88626146 TTGGTAAGAT
* * * * * *
88626156 AAGGATATCATGTAAGACCATACCAAGGCATGGAATTGATAAGCTCTATAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* *
88626210 AAGGATACCACGTAAGACCATGCCAAGACATGGCATTGATGAGTCACTATAAGGC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCATTGATAAGT-TCTATAAGGC
* * * ** * * *
88626265 AAAGG-TCCCATGTACGACCATGTGAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCACGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
* * *
88626318 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCACGTAAGACCATGCCAAGACATGGCATTGATAAGTTC
88626364 AAAAAGGAAA
Statistics
Matches: 128, Mismatches: 23, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
52 4 0.03
53 41 0.32
54 38 0.30
55 41 0.32
56 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCACGTAAGACCATGCCAAGACATGGCATTGATAAGTTCTATAAGGC
Found at i:88632746 original size:47 final size:45
Alignment explanation
Indices: 88632625--88632897 Score: 152
Period size: 47 Copynumber: 5.9 Consensus size: 45
88632615 GGAATTGACG
* *
88632625 GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAA
1 GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCAA
** * * *
88632670 GGCAAGGATCCCGTGTAAGACCATGTCAAGACATGGCATCGGCATT
1 GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCA-A
* ** * *
88632716 GATTAAGGA-ATCCATGTAAGACCATATCAAGATGTGCCATTGGCACTAA
1 G-TTAAGGATA-CCATGTAAGACCATGTCAAGACATGGCATCGG--C-AA
** * *** * *
88632765 GAGAAAGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAA
1 GTTAAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TCGGCAA
** * * *** * *
88632812 GACAAGGATGCCATGTAAGGCCATGTTTGGAACATGGCATTTGGTAA
1 GTTAAGGATACCATGTAAGACCATGTCAAG-ACATGGCA-TCGGCAA
* * * *
88632859 GATAAGGATATCATGTAAGACCATGCCAAGGCATGGCAT
1 GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCAT
88632898 TGATAAGCTC
Statistics
Matches: 178, Mismatches: 41, Indels: 18
0.75 0.17 0.08
Matches are distributed among these distances:
45 39 0.22
46 8 0.04
47 98 0.55
48 20 0.11
49 8 0.04
50 5 0.03
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (45 bp):
GTTAAGGATACCATGTAAGACCATGTCAAGACATGGCATCGGCAA
Found at i:88632899 original size:142 final size:140
Alignment explanation
Indices: 88632631--88632888 Score: 315
Period size: 142 Copynumber: 1.8 Consensus size: 140
88632621 GACGGTTAAG
* *
88632631 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGT
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCCCATGTAAGACCATGT
* *
88632696 CAAGACATGGCATCGGCATTGATTAAGGAATCCATGTAAGACCATATCAAGATGTGCCATTGGCA
66 CAAGACATGGCATCGGCATAGATTAAGGAATCCATGTAAGACCATACCAAGATGTGCCATTGGCA
88632761 CTAAGAGAAA
131 CTAAGAGAAA
*** * *
88632771 GATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGACAAGGATGCCATGTAAGGCCAT
1 GATACCATGTAAGACCATGTCAAG-ACATGGCA-TTGGTAAGACAAGGATCCCATGTAAGACCAT
*** * * *
88632836 GTTTGGAACATGGCATTTGGTA-AGA-TAAGGATAT-CATGTAAGACCATGCCAAG
64 GTCAAG-ACATGGCA-TCGGCATAGATTAAGGA-ATCCATGTAAGACCATACCAAG
88632889 GCATGGCATT
Statistics
Matches: 98, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
140 21 0.21
141 8 0.08
142 53 0.54
143 12 0.12
144 4 0.04
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.23
Consensus pattern (140 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATCCCATGTAAGACCATGT
CAAGACATGGCATCGGCATAGATTAAGGAATCCATGTAAGACCATACCAAGATGTGCCATTGGCA
CTAAGAGAAA
Found at i:88632991 original size:55 final size:54
Alignment explanation
Indices: 88632870--88633058 Score: 152
Period size: 55 Copynumber: 3.5 Consensus size: 54
88632860 ATAAGGATAT
* * * *
88632870 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGCTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAGCACTATAAGGAAAGGAAAC
** **
88632924 CATGTAAGACCATGCCAAGACATGGCATTGATGTGTCACTATAAGGTAAAGG-TCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATAAG-CACTATAAGG-AAAGGAAAC
* *** * ** *
88632979 CATGTAAGACCATTCCAAGGTGTGGCATT-AGTGAGTTC-ATAA-GACAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGA-TAAGCACTATAAGGA-AAGGAAAC
* *
88633032 CACGTAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
88633059 ATGGTAAGTT
Statistics
Matches: 108, Mismatches: 22, Indels: 11
0.77 0.16 0.08
Matches are distributed among these distances:
51 1 0.01
52 5 0.05
53 27 0.25
54 34 0.31
55 37 0.34
56 4 0.04
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATAAGCACTATAAGGAAAGGAAAC
Found at i:88633808 original size:31 final size:31
Alignment explanation
Indices: 88633770--88633835 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
88633760 AAAGAAATCA
*
88633770 TGAAAAACTGAAATTAGCATTAAAACAATAT
1 TGAAAAACTGAAATTAACATTAAAACAATAT
*
88633801 TGAAAAACTGAAATTAACATTAAAACAGTAT
1 TGAAAAACTGAAATTAACATTAAAACAATAT
88633832 TGAA
1 TGAA
88633836 CAGCAACAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.26
Consensus pattern (31 bp):
TGAAAAACTGAAATTAACATTAAAACAATAT
Found at i:88639445 original size:18 final size:19
Alignment explanation
Indices: 88639419--88639454 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
88639409 CCTTTTTAAT
88639419 TTTTAATTTGATTTTAGTA
1 TTTTAATTTGATTTTAGTA
*
88639438 TTTT-ATTTGCTTTTAGT
1 TTTTAATTTGATTTTAGT
88639455 TTACCTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (19 bp):
TTTTAATTTGATTTTAGTA
Found at i:88648576 original size:27 final size:26
Alignment explanation
Indices: 88648535--88648585 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
88648525 CGAGGCTGCC
*
88648535 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
*
88648561 AGATATATGTGGCGAAGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
88648586 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:88662223 original size:40 final size:40
Alignment explanation
Indices: 88662131--88662319 Score: 242
Period size: 40 Copynumber: 4.8 Consensus size: 40
88662121 TGGATGATAA
* * * * **
88662131 CCGGGCTAAGTCCCAAAGGCATCTGCT-CTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTAAAT
88662171 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
88662210 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
88662250 CCGGGCTAAGTCTCGAAGGCAATTGTGCGAGTTACT-AA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
88662288 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
88662320 AGCTATATCC
Statistics
Matches: 133, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
38 29 0.22
39 32 0.24
40 72 0.54
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:88662284 original size:80 final size:77
Alignment explanation
Indices: 88662128--88662319 Score: 242
Period size: 79 Copynumber: 2.5 Consensus size: 77
88662118 ATTTGGATGA
* * * ** *
88662128 TAACCGGGCTAAGTCCCAAAGGCATCTGCT-CTAGTGACTAGTTCCGGGCAAGTCCCGAAGGCAT
1 TAACCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTGACTAAATCCGGGCAAGTCCCGAAGGCAA
88662192 TTGTGCGAGTTAC
65 TTGTGCGAGTTAC
* * *
88662205 TAAATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCTCGAAGGC
1 T-AA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGC-AAGTCCCGAAGGC
88662270 AATTGTGCGAGTTAC
63 AATTGTGCGAGTTAC
* *
88662285 TAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
88662320 AGCTATATCC
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
77 1 0.01
78 32 0.32
79 39 0.39
80 27 0.27
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (77 bp):
TAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCAAGTCCCGAAGGCAAT
TGTGCGAGTTAC
Found at i:88670298 original size:40 final size:43
Alignment explanation
Indices: 88670164--88670316 Score: 155
Period size: 40 Copynumber: 3.7 Consensus size: 43
88670154 TGGATGATAA
* * * *
88670164 CCGGGCTAAGTCCCGAAGGCA--TCTGCTAGTGACTAGT---T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACTAAAT
88670202 CCGGGC-AAGT-CCGAAGGCATTTGTGCGAGAATTACTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG--TTACTACTAAAT
*
88670245 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT-CT-AA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACTAAAT
* *
88670285 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
88670317 AGCTATATCC
Statistics
Matches: 98, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
36 9 0.09
37 4 0.04
38 12 0.12
40 35 0.36
41 2 0.02
42 2 0.02
43 12 0.12
44 4 0.04
45 18 0.18
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (43 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACTAAAT
Found at i:88682902 original size:85 final size:85
Alignment explanation
Indices: 88682773--88682951 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
88682763 TATTTTATTG
*
88682773 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88682838 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88682858 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88682923 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88682943 CCCATGCTC
1 CCCATGCTC
88682952 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:88684592 original size:40 final size:40
Alignment explanation
Indices: 88684560--88684908 Score: 587
Period size: 40 Copynumber: 8.8 Consensus size: 40
88684550 CCAGCATGAT
* * * *
88684560 TGCTCTTCGAGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
88684600 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
88684640 TGCTC-TCGGTACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
88684679 TGCTCTTCGGGACTTAGCCCGG--ATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
88684717 TGCTCTTCGGAACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
88684757 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
88684797 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
88684837 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
88684877 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
88684909 CTCAATTCTC
Statistics
Matches: 290, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
38 37 0.13
39 35 0.12
40 218 0.75
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:88686184 original size:37 final size:36
Alignment explanation
Indices: 88686123--88686200 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 36
88686113 TTATTACGAA
* * *
88686123 GTCTTACCCGGACATAATCTCCACACGAAGTTATCG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
*
88686159 GATCTTACCCGGACAAAATCCCCACACGTAGTCATCG
1 G-TCTTACCCGGACAAAATCCCCACACGAAGTCATCG
88686196 GTCTT
1 GTCTT
88686201 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 5 0.14
37 32 0.86
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (36 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
Found at i:88686388 original size:47 final size:47
Alignment explanation
Indices: 88686319--88686733 Score: 706
Period size: 47 Copynumber: 8.7 Consensus size: 47
88686309 CCCTTCGGGA
* * * *
88686319 CTTATCACATTTATACACTTTCACATCCATCACATTGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88686366 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
88686413 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88686460 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88686509 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88686556 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88686605 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
88686652 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
88686699 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
88686734 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 9, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
46 1 0.00
47 260 0.73
49 93 0.26
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:88686516 original size:96 final size:94
Alignment explanation
Indices: 88686319--88686733 Score: 706
Period size: 96 Copynumber: 4.4 Consensus size: 94
88686309 CCCTTCGGGA
* * * *
88686319 CTTATCACATTTATACACTTTCACATCCATCACATTGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
88686384 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
88686413 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
88686478 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
88686509 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
88686574 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
88686605 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
88686670 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* * *
88686699 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
88686734 AGAATCCTAA
Statistics
Matches: 309, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
93 1 0.00
94 119 0.39
96 189 0.61
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:88686617 original size:143 final size:143
Alignment explanation
Indices: 88686319--88686712 Score: 702
Period size: 143 Copynumber: 2.8 Consensus size: 143
88686309 CCCTTCGGGA
* * * *
88686319 CTTATCACATTTATACACTTTCACATCCATCACATTGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
88686384 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
88686447 TCGGCCATTAAGC
131 TCGGCCATTAAGC
88686460 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
88686525 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
88686590 CATCGGCCATTAGGC
129 CATCGGCCATTAAGC
88686605 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
88686670 TTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
88686713 GCATGTTCAC
Statistics
Matches: 243, Mismatches: 6, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
141 8 0.03
143 189 0.78
145 46 0.19
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAAGC
Found at i:88688677 original size:85 final size:85
Alignment explanation
Indices: 88688577--88688755 Score: 340
Period size: 85 Copynumber: 2.1 Consensus size: 85
88688567 TATTTTATTG
*
88688577 CCCATGCCCTTTATTTTATTAATCATTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCATTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88688642 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
*
88688662 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCATTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
88688727 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
88688747 CCCATGCTC
1 CCCATGCTC
88688756 ATGGCCGGCC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 92 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCATTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:88690748 original size:53 final size:53
Alignment explanation
Indices: 88690676--88690780 Score: 138
Period size: 53 Copynumber: 2.0 Consensus size: 53
88690666 TTCCTTTTTA
* * * *
88690676 AACTTACCATTGCCCTGTCTTGACATGGTATTACGTGGTATCCTTGCCTTATG
1 AACTCACCATTGCCATGTCTTGACATGGTATTACATGGGATCCTTGCCTTATG
* * * *
88690729 AACTCACCATTGGCATGTCTTGGCATGGTCTTACATGGGATCTTTGCCTTAT
1 AACTCACCATTGCCATGTCTTGACATGGTATTACATGGGATCCTTGCCTTAT
88690781 TGTAGTTTAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.37
Consensus pattern (53 bp):
AACTCACCATTGCCATGTCTTGACATGGTATTACATGGGATCCTTGCCTTATG
Found at i:88695803 original size:129 final size:128
Alignment explanation
Indices: 88695566--88695805 Score: 363
Period size: 129 Copynumber: 1.9 Consensus size: 128
88695556 AAAATTTTTG
* *
88695566 AACGAAATTTTCACAAAATCATTTCGTAAAACTATAGACCATAAAAATATAAGAAAAATAAATTT
1 AACGAAATTTTCACAAAATCATTCCCTAAAACTATAGACCATAAAAATATAAGAAAAATAAATTT
* * *
88695631 TTCTACGTCGAATTTGTGGTCTCAAAACCACTATTTTGGCTAGACCTTAAATCAGACTATTAC
66 TTCTACGTCGAATTTGTGGTCCCAAAACCAATATTTTGACTAGACCTTAAATCAGACTATTAC
* * *
88695694 AACGAAAATTTTGACAGAATCATTCCCTAAAACTATAGACCATAAAAATATAAGAAAATTAAATT
1 AACG-AAATTTTCACAAAATCATTCCCTAAAACTATAGACCATAAAAATATAAGAAAAATAAATT
* * * *
88695759 TTTCTATGTTGGATTTGTGGTCCCCAAACCAATATTTTGACTAGACC
65 TTTCTACGTCGAATTTGTGGTCCCAAAACCAATATTTTGACTAGACC
88695806 CAAAATCGGG
Statistics
Matches: 99, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
128 4 0.04
129 95 0.96
ACGTcount: A:0.41, C:0.17, G:0.11, T:0.31
Consensus pattern (128 bp):
AACGAAATTTTCACAAAATCATTCCCTAAAACTATAGACCATAAAAATATAAGAAAAATAAATTT
TTCTACGTCGAATTTGTGGTCCCAAAACCAATATTTTGACTAGACCTTAAATCAGACTATTAC
Found at i:88699190 original size:38 final size:38
Alignment explanation
Indices: 88699095--88699195 Score: 130
Period size: 38 Copynumber: 2.7 Consensus size: 38
88699085 CTTAAAGACT
* ** * *
88699095 CGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAATCC
1 CGCAGGCTTAGTGCTGGTATTATATCAGGGATAAATCC
* *
88699133 CGTAGGCTTTGTGCTGGTATTATATCAGGGATAAATCC
1 CGCAGGCTTAGTGCTGGTATTATATCAGGGATAAATCC
*
88699171 CGCAGGCCTAGTGCTGGTATTATAT
1 CGCAGGCTTAGTGCTGGTATTATAT
88699196 TCGGGCCTTC
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (38 bp):
CGCAGGCTTAGTGCTGGTATTATATCAGGGATAAATCC
Found at i:88699489 original size:43 final size:43
Alignment explanation
Indices: 88699193--88699476 Score: 469
Period size: 43 Copynumber: 6.6 Consensus size: 43
88699183 GCTGGTATTA
* * *
88699193 TATTCGGGCCTTCGTGTCTAGCAGTCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
* * *
88699236 TATTCGGGCCTTCGTTCCTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
*
88699279 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
*
88699322 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
*
88699365 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGATGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
88699408 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
* *
88699451 TATTTGGGCCTTCGTACCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
88699477 GTAATGCTGG
Statistics
Matches: 226, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 226 1.00
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTACCGGTGATGTG
Found at i:88702006 original size:9 final size:9
Alignment explanation
Indices: 88701978--88702011 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
88701968 AAACAAAATA
88701978 GAAAATTTT
1 GAAAATTTT
*
88701987 AGAAAAATTT
1 -GAAAATTTT
88701997 GAAAATTTT
1 GAAAATTTT
88702006 GAAAAT
1 GAAAAT
88702012 AGGGTTCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (9 bp):
GAAAATTTT
Found at i:88710728 original size:27 final size:28
Alignment explanation
Indices: 88710619--88710741 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
88710609 GAGATTGGCG
* * * *
88710619 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
88710648 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
88710676 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
88710704 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
88710731 CTGAGTGTGCG
1 CTAAGTGTGCG
88710742 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.26
28 49 0.56
29 15 0.17
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:88710752 original size:27 final size:27
Alignment explanation
Indices: 88710644--88710754 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 27
88710634 TAAATTGTAC
*
88710644 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
* *
88710672 AGCACTAAGTGTGCGAGTTTGATTACAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
88710700 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
88710727 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
88710754 A
1 A
88710755 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 29 0.38
28 47 0.62
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:88718703 original size:27 final size:28
Alignment explanation
Indices: 88718594--88718716 Score: 176
Period size: 28 Copynumber: 4.4 Consensus size: 28
88718584 GAGATTGGCG
* * * *
88718594 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
88718623 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
88718651 CTAAGTGTGCGAGTTTGATTACATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
88718679 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
88718706 CTGAGTGTGCG
1 CTAAGTGTGCG
88718717 GACTTAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.26
28 49 0.56
29 15 0.17
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:88718727 original size:27 final size:27
Alignment explanation
Indices: 88718619--88718729 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 27
88718609 TAAATTGTAC
*
88718619 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
* *
88718647 AGCACTAAGTGTGCGAGTTTGATTACAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
88718675 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
88718702 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGATTATAT
88718729 A
1 A
88718730 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 29 0.38
28 47 0.62
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:88728132 original size:44 final size:42
Alignment explanation
Indices: 88728064--88728233 Score: 119
Period size: 43 Copynumber: 4.0 Consensus size: 42
88728054 ATCCGATATG
* ** * *
88728064 TGTTTTCGTGTAAGCCCACATCTGGGACTTTGGCATCG-ACTTC
1 TGTTTTCGTGTAAGACCATGTCTGGGACATTGACATCGTA--TC
88728107 TGTTTTACGTGTAAGACCATGTCTGGGACATTGACATCGTATC
1 TGTTTT-CGTGTAAGACCATGTCTGGGACATTGACATCGTATC
* * ** * * *
88728150 T-TATTTCGTGTAAAACCTTGTCTGGGACAGCGGCATCGATGTT
1 TGT-TTTCGTGTAAGACCATGTCTGGGACATTGACATCG-TATC
* * * * * *
88728193 TGATTGCATGTAAGACCACGTCTGGGACATTGGCATTGTAT
1 TGTTTTCGTGTAAGACCATGTCTGGGACATTGACATCGTAT
88728234 ATGCTTCTCG
Statistics
Matches: 100, Mismatches: 22, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
42 30 0.30
43 42 0.42
44 27 0.27
45 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (42 bp):
TGTTTTCGTGTAAGACCATGTCTGGGACATTGACATCGTATC
Found at i:88728228 original size:43 final size:42
Alignment explanation
Indices: 88728070--88728228 Score: 131
Period size: 42 Copynumber: 3.7 Consensus size: 42
88728060 TATGTGTTTT
* * * * *
88728070 CGTGTAAGCCCACATCTGGGACTTTGGCATCGACTTCTGTTTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TTTTG-ATTA
* * * *
88728114 CGTGTAAGACCATGTCTGGGACATTGACATCGTATCTT-ATTT
1 CGTGTAAGACCACGTCTGGGACATTGGCATCG-ATTTTGATTA
* ** ** *
88728156 CGTGTAAAACCTTGTCTGGGACAGCGGCATCGATGTTTGATTG
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGAT-TTTGATTA
*
88728199 CATGTAAGACCACGTCTGGGACATTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
88728229 TGTATATGCT
Statistics
Matches: 90, Mismatches: 22, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
41 2 0.02
42 31 0.34
43 27 0.30
44 29 0.32
45 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATTTTGATTA
Found at i:88741087 original size:6 final size:6
Alignment explanation
Indices: 88741076--88741115 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
88741066 TAGGTTTCTA
* *
88741076 GAAATG GAAATG GAAAT- GAAATG AAAATT GAAATG GAAAT
1 GAAATG GAAATG GAAATG GAAATG GAAATG GAAATG GAAAT
88741116 AATCCATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (6 bp):
GAAATG
Found at i:88744809 original size:17 final size:17
Alignment explanation
Indices: 88744787--88744820 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
88744777 GCAAAGACTG
88744787 ACAAGGTAAATCCTAAC
1 ACAAGGTAAATCCTAAC
88744804 ACAAGGTAAATCCTAAC
1 ACAAGGTAAATCCTAAC
88744821 TTACTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.18
Consensus pattern (17 bp):
ACAAGGTAAATCCTAAC
Found at i:88748783 original size:27 final size:26
Alignment explanation
Indices: 88748735--88748794 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
88748725 GCGAGGCTGC
*
88748735 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
88748762 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
88748788 CAGATAT
1 CAGATAT
88748795 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:88748839 original size:71 final size:66
Alignment explanation
Indices: 88748762--88748900 Score: 188
Period size: 66 Copynumber: 2.0 Consensus size: 66
88748752 TCACCAGATA
* * *
88748762 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACAAAGCCACCAGAACAG----ATATATGTGGCG-AGCCACCAGATTGCAGCGA
88748827 GGCTGC
61 GGCTGC
* *
88748833 CAGATATTGTGACAAAGTCAGCAGAACAGATATATGTGGCGAGCCACCAGATTGCAGCGAGGCTG
1 CAGATATTGTGACAAAGCCACCAGAACAGATATATGTGGCGAGCCACCAGATTGCAGCGAGGCTG
88748898 C
66 C
88748899 CA
1 CA
88748901 AAACGCTTCC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
66 27 0.43
67 12 0.19
71 24 0.38
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (66 bp):
CAGATATTGTGACAAAGCCACCAGAACAGATATATGTGGCGAGCCACCAGATTGCAGCGAGGCTG
C
Found at i:88749667 original size:27 final size:27
Alignment explanation
Indices: 88749535--88749681 Score: 170
Period size: 27 Copynumber: 5.4 Consensus size: 27
88749525 GAGGCTAAAT
* * *
88749535 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
88749562 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
88749589 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
88749616 GGTAATTCTATACCCTACAAGGGTATTTC
1 GGTAATTC--TACCCTACAAGGGTATTTC
* *
88749645 GGTAATTCTATCCTA-TAGAGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
**
88749672 AATAATTCTA
1 GGTAATTCTA
88749682 GTACTTATCC
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
26 2 0.02
27 75 0.72
29 27 0.26
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:88749668 original size:56 final size:56
Alignment explanation
Indices: 88749536--88749681 Score: 172
Period size: 56 Copynumber: 2.6 Consensus size: 56
88749526 AGGCTAAATG
* * * *
88749536 GTAATTTTACCCCACAAGGGTATCTCGGTAATTC--TACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTATACCCTACAAGGGTATTTCA
* *
88749590 GTATTTCTACCCTACAAGGGTATTTCGGTAATTCTATACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTATACCCTACAAGGGTATTTCA
* * **
88749646 GTAATTCTATCCTA-TAGAGGTATTTCAATAATTCTA
1 GTAATTCTACCCTACAAG-GGTATTTCGGTAATTCTA
88749682 GTACTTATCC
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
54 30 0.38
55 2 0.03
56 46 0.59
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (56 bp):
GTAATTCTACCCTACAAGGGTATTTCGGTAATTCTATACCCTACAAGGGTATTTCA
Found at i:88756410 original size:70 final size:67
Alignment explanation
Indices: 88756332--88756472 Score: 167
Period size: 67 Copynumber: 2.1 Consensus size: 67
88756322 TCACTAGATA
* * * *
88756332 CAGATATTGTGGCTAGGCCACC-GAACAGATATATATCTGTGGCGAAGCCAGCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG--ATATA--TGTGGCGAAGCCAGCAGATTGCAACGA
88756396 GGCTAC
62 GGCTAC
* * *
88756402 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCATCAGATTGCAACGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCAGCAGATTGCAACGAGGCT
*
88756467 GC
66 AC
88756469 CAGA
1 CAGA
88756473 ATGCTTCCTC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
67 33 0.53
69 5 0.08
70 18 0.29
71 6 0.10
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCAGCAGATTGCAACGAGGCT
AC
Found at i:88757178 original size:54 final size:54
Alignment explanation
Indices: 88757109--88757222 Score: 176
Period size: 54 Copynumber: 2.1 Consensus size: 54
88757099 AAAAATGGTA
*
88757109 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGT
1 ATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAAT
* * *
88757162 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAAT
1 ATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAAT
*
88757216 AATTCTA
1 ATTTCTA
88757223 GTACTTATCC
Statistics
Matches: 55, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
53 4 0.07
54 51 0.93
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (54 bp):
ATTTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAAT
Found at i:88757218 original size:27 final size:27
Alignment explanation
Indices: 88757106--88757222 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 27
88757096 GAGAAAAATG
* * * * *
88757106 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
88757133 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
88757160 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
88757187 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
88757214 ATAATTCTA
1 GTAATTCTA
88757223 GTACTTATCC
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:88760673 original size:10 final size:9
Alignment explanation
Indices: 88760655--88760686 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
88760645 TAATAAATTA
88760655 ATGAAATAT
1 ATGAAATAT
88760664 ATGAAA-AT
1 ATGAAATAT
88760672 ATGAAA-AT
1 ATGAAATAT
88760680 ATGAAAT
1 ATGAAAT
88760687 TGGGACATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.73
9 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.12, T:0.28
Consensus pattern (9 bp):
ATGAAATAT
Found at i:88761342 original size:18 final size:18
Alignment explanation
Indices: 88761302--88761358 Score: 53
Period size: 18 Copynumber: 3.1 Consensus size: 18
88761292 TCTCTTTTCT
*
88761302 AATCATCCCTCATCCCTC
1 AATCATCCCTCATCACTC
*
88761320 AATCATCCCTCACTCATTC
1 AATCATCCCTCA-TCACTC
* *
88761339 -ATCATTCTCTCATCTCTC
1 AATCA-TCCCTCATCACTC
88761357 AA
1 AA
88761359 CTCACTTATC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 20 0.65
19 11 0.35
ACGTcount: A:0.25, C:0.42, G:0.00, T:0.33
Consensus pattern (18 bp):
AATCATCCCTCATCACTC
Found at i:88762798 original size:28 final size:28
Alignment explanation
Indices: 88762716--88762801 Score: 106
Period size: 28 Copynumber: 3.1 Consensus size: 28
88762706 TAGCATGGCT
*
88762716 ACCAGAAT-AGATA-TTGTGACAGAGCC
1 ACCAGAATCAGATATTTGTGGCAGAGCC
* *
88762742 ACCA-AATACAGATATTTGTGGTAGTGCC
1 ACCAGAAT-CAGATATTTGTGGCAGAGCC
*
88762770 ACCAGAATCAGATATTTGTGGCACAGCC
1 ACCAGAATCAGATATTTGTGGCAGAGCC
88762798 ACCA
1 ACCA
88762802 AAACTCTTCC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
25 3 0.06
26 4 0.08
27 5 0.10
28 35 0.70
29 3 0.06
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.22
Consensus pattern (28 bp):
ACCAGAATCAGATATTTGTGGCAGAGCC
Found at i:88764966 original size:12 final size:12
Alignment explanation
Indices: 88764949--88764973 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
88764939 CTAGACATAC
88764949 AAAATAATAATA
1 AAAATAATAATA
88764961 AAAATAATAATA
1 AAAATAATAATA
88764973 A
1 A
88764974 CATTCAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAATAATAATA
Found at i:88771016 original size:28 final size:28
Alignment explanation
Indices: 88770984--88771087 Score: 136
Period size: 28 Copynumber: 3.7 Consensus size: 28
88770974 AGTTTGCATA
*
88770984 TTGTGACAGAGTCACCAGAAACAGATAT
1 TTGTGACAGAGCCACCAGAAACAGATAT
** * **
88771012 TTGTGGTAGTGCCACCAGAATGAGATAT
1 TTGTGACAGAGCCACCAGAAACAGATAT
*
88771040 TTGTGGCAGAGCCACCAGAAACAGATAT
1 TTGTGACAGAGCCACCAGAAACAGATAT
*
88771068 TTGTGACATAGCCACCAGAA
1 TTGTGACAGAGCCACCAGAA
88771088 CGCTTCCTCC
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (28 bp):
TTGTGACAGAGCCACCAGAAACAGATAT
Found at i:88777465 original size:27 final size:27
Alignment explanation
Indices: 88777437--88777591 Score: 152
Period size: 27 Copynumber: 5.7 Consensus size: 27
88777427 TGCTATACAA
* * *
88777437 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAAATCGCACACTTAGTGCCACATAG
* *
88777464 TCAAATCGCATACTTAGTGCTACATAG
1 TCAAATCGCACACTTAGTGCCACATAG
* * * *
88777491 TTAGACTCGCACACTTAGTGCCGCATGG
1 TCA-AATCGCACACTTAGTGCCACATAG
* *
88777519 TC-ATTCGCACACTTAGTG-CATCATAT
1 TCAAATCGCACACTTAGTGCCA-CATAG
** *
88777545 TCATTTCGCACACTTAGTGCAACATAG
1 TCAAATCGCACACTTAGTGCCACATAG
88777572 TCAAATCGCACACTTAGTGC
1 TCAAATCGCACACTTAGTGC
88777592 TGTACAATTT
Statistics
Matches: 103, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
25 1 0.01
26 20 0.19
27 61 0.59
28 21 0.20
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAAATCGCACACTTAGTGCCACATAG
Found at i:88777535 original size:81 final size:80
Alignment explanation
Indices: 88777442--88777591 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 80
88777432 TACAATCAAC
* * * * *
88777442 TCGCACACTTAGTGCCA-CGTAATCAAATCGCATACTTAGTGCTACATAGTTAGACTCGCACACT
1 TCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCACACT
88777506 TAGTGCCGCATGGTCAT
64 TAGTGCCGCATGGTCAT
* **
88777523 TCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
1 TCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
88777588 GTGC
66 GTGC
88777592 TGTACAATTT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
80 18 0.30
81 42 0.70
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (80 bp):
TCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAT
Found at i:88785449 original size:26 final size:26
Alignment explanation
Indices: 88785420--88785596 Score: 124
Period size: 27 Copynumber: 6.6 Consensus size: 26
88785410 TATATTGAGC
* *
88785420 CGCACACTCAGTGCTA-TAAATCAACT
1 CGCACACTTAGTGCTACT-AATCAAAT
*
88785446 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAC-TAATCAAAT
* * *
88785473 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTAC-TAATCA-AAT
** ** *
88785501 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTAC-TAATCAAAT
* **
88785528 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-C-TAATCAAAT
* *
88785555 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTAC-TAATCAAAT
88785582 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88785597 GTACAATTTA
Statistics
Matches: 125, Mismatches: 21, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
26 14 0.11
27 87 0.70
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (26 bp):
CGCACACTTAGTGCTACTAATCAAAT
Found at i:88785476 original size:27 final size:27
Alignment explanation
Indices: 88785440--88785595 Score: 170
Period size: 27 Copynumber: 5.7 Consensus size: 27
88785430 GTGCTATAAA
* * *
88785440 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAAATCGCACACTTAGTGCCACATAG
*
88785467 TCAAATCGCACACTTAGTGCTACATAG
1 TCAAATCGCACACTTAGTGCCACATAG
* * * *
88785494 TTAGACTCGCACACTTAGTGCCGCATGG
1 TCA-AATCGCACACTTAGTGCCACATAG
* *
88785522 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAAATCGCACACTTAGTGCCA-CATAG
** *
88785549 TCATTTCGCACACTTAGTGCAACATAG
1 TCAAATCGCACACTTAGTGCCACATAG
88785576 TCAAATCGCACACTTAGTGC
1 TCAAATCGCACACTTAGTGC
88785596 TGTACAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.01
27 83 0.78
28 23 0.21
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
TCAAATCGCACACTTAGTGCCACATAG
Found at i:88785512 original size:55 final size:55
Alignment explanation
Indices: 88785420--88785596 Score: 211
Period size: 55 Copynumber: 3.3 Consensus size: 55
88785410 TATATTGAGC
* * * *
88785420 CGCACACTCAGTGCTAT-A-AATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
88785473 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** *
88785528 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
88785582 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88785597 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
53 16 0.15
54 43 0.41
55 45 0.43
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:88785539 original size:82 final size:81
Alignment explanation
Indices: 88785440--88785595 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
88785430 GTGCTATAAA
* * * *
88785440 TCAACTCGCACACTTAGTGCCA-CGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGC
1 TCAACTCGCACACTTAGTG-CATCATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGC
88785504 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
88785522 TCAATTCGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCAC
1 TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
88785587 ACTTAGTGC
66 ACTTAGTGC
88785596 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCATCATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:88789117 original size:39 final size:40
Alignment explanation
Indices: 88789063--88789269 Score: 261
Period size: 39 Copynumber: 5.3 Consensus size: 40
88789053 AACCCAAGTA
* * *
88789063 CCTTCGGGATTTAGCCGGATAT-AGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGATATAATCAACTAGCACAAATG
* * *
88789102 CCTTCGGGTCTTAGCCGGATATAGTCAA-TAGCACAAAAG
1 CCTTCGGGACTTAGCCGGATATAATCAACTAGCACAAATG
88789141 CCTTCGGGACTTAGCCCGGATATAATC-ACTA-CACAAATG
1 CCTTCGGGACTTAG-CCGGATATAATCAACTAGCACAAATG
88789180 CCTTCGGGACTTAGCCTGGATATAATCAA-TAGCA-AAATG
1 CCTTCGGGACTTAGCC-GGATATAATCAACTAGCACAAATG
*
88789219 CCTTC-GGACTTAGCCCGGAT-TAATC-ACTAGCATAAATG
1 CCTTCGGGACTTAG-CCGGATATAATCAACTAGCACAAATG
88789257 CCTTCGGGACTTA
1 CCTTCGGGACTTA
88789270 ACCCAGATAT
Statistics
Matches: 149, Mismatches: 9, Indels: 20
0.84 0.05 0.11
Matches are distributed among these distances:
36 1 0.01
37 10 0.07
38 24 0.16
39 95 0.64
40 19 0.13
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCGGATATAATCAACTAGCACAAATG
Found at i:88789279 original size:77 final size:79
Alignment explanation
Indices: 88789063--88789279 Score: 266
Period size: 77 Copynumber: 2.8 Consensus size: 79
88789053 AACCCAAGTA
* * * * *
88789063 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCACAAATGCCTTCGGGTCTT-AGCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAATC-ACT-ACACAAATGCCTTCGGGACTTAACCCGGATATA
*
88789125 GTCAATAGCACAAAAG
64 ATCAATAGCACAAAAG
* *
88789141 CCTTCGGGACTTAGCCCGGATATAATCACTACACAAATGCCTTCGGGACTTAGCCTGGATATAAT
1 CCTTCGGGACTTAGCCCGGATATAATCACTACACAAATGCCTTCGGGACTTAACCCGGATATAAT
*
88789206 CAATAGCA-AAATG
66 CAATAGCACAAAAG
* *
88789219 CCTTC-GGACTTAGCCCGGAT-TAATCACTAGCATAAATGCCTTCGGGACTTAACCCAGATAT
1 CCTTCGGGACTTAGCCCGGATATAATCACTA-CACAAATGCCTTCGGGACTTAACCCGGATAT
88789280 CATTCGAATA
Statistics
Matches: 122, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
76 9 0.07
77 42 0.34
78 41 0.34
79 28 0.23
80 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAATCACTACACAAATGCCTTCGGGACTTAACCCGGATATAAT
CAATAGCACAAAAG
Found at i:88799174 original size:39 final size:40
Alignment explanation
Indices: 88799079--88799339 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
88799069 TTGAATGATG
*
88799079 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
88799117 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
88799158 TCCGGGCTAAG-CCCGAA-GCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
88799196 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
88799235 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
88799274 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
88799313 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
88799340 AACGAGGAGC
Statistics
Matches: 201, Mismatches: 11, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
38 38 0.19
39 92 0.46
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:88799224 original size:77 final size:79
Alignment explanation
Indices: 88799079--88799339 Score: 324
Period size: 79 Copynumber: 3.3 Consensus size: 79
88799069 TTGAATGATG
* *
88799079 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAA-ATCCGGGCTAAG-TCCCGAAGGC
88799139 ATTTGTGCGAGATACTAAT
61 ATTTGTGCGAGATACTAAT
*
88799158 TCCGGGCTAAGCCCGAA-GCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
88799221 TGCGAGATACTAAT
66 TGCGAGATACTAAT
* *
88799235 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
88799300 TGCGA-ATTACT-AT
66 TGCGAGA-TACTAAT
* *
88799313 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAG-CCCGAAGGCATTTG
88799340 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 8, Indels: 19
0.86 0.04 0.10
Matches are distributed among these distances:
77 46 0.28
78 50 0.30
79 53 0.32
80 15 0.09
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:88799361 original size:79 final size:77
Alignment explanation
Indices: 88799079--88799372 Score: 289
Period size: 79 Copynumber: 3.7 Consensus size: 77
88799069 TTGAATGATG
* * **
88799079 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAG-GACTA-ATCCGGGTTAAG-TCCCGAAGGCAT
88799141 TTGTGCGAGATACTAAT
61 TTGTGCGAGATACTAAT
* *
88799158 TCCGGGCTAAGCCCGAA-GCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAG-GACTAA-TCCGGGTTAAGTCCCGAAGGCATTTG
88799221 TGCGAGATACTAAT
64 TGCGAGATACTAAT
*
88799235 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAG-GACT-AATCCGGGTTAAGTCCCGAAGGCATTTG
88799300 TGCGA-ATTACT-AT
64 TGCGAGA-TACTAAT
* * ** * *
88799313 AACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATTCCGAAGG
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGGA-CTA-ATCCGGGTTAAGTCCCGAAGG
88799373 TACGTGATTT
Statistics
Matches: 189, Mismatches: 14, Indels: 24
0.83 0.06 0.11
Matches are distributed among these distances:
77 47 0.25
78 51 0.27
79 67 0.35
80 24 0.13
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (77 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGGACTAATCCGGGTTAAGTCCCGAAGGCATTTGTG
CGAGATACTAAT
Found at i:88817084 original size:12 final size:11
Alignment explanation
Indices: 88817048--88817090 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 11
88817038 AATTGGTCAT
88817048 GGAGAGATTGTA
1 GGAGAGATTG-A
*
88817060 GGAGGGAGTTGA
1 GGAGAGA-TTGA
88817072 GGAGAGATATGA
1 GGAGAGAT-TGA
88817084 GGAGAGA
1 GGAGAGA
88817091 ATTAAGGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 23 0.85
13 3 0.11
ACGTcount: A:0.35, C:0.00, G:0.49, T:0.16
Consensus pattern (11 bp):
GGAGAGATTGA
Found at i:88818541 original size:27 final size:27
Alignment explanation
Indices: 88818503--88818602 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 27
88818493 CATACCTGAA
*
88818503 CCCTCATATGATAAAATGATGATATTG
1 CCCTTATATGATAAAATGATGATATTG
* *
88818530 CCCTTATGTGATAAAATGACGATATTG
1 CCCTTATATGATAAAATGATGATATTG
* *
88818557 CCCTTATATGATAAAATGATGATTTTA
1 CCCTTATATGATAAAATGATGATATTG
* * *
88818584 CCATTATAGGGTAAAATGA
1 CCCTTATATGATAAAATGA
88818603 CCGAAATACC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (27 bp):
CCCTTATATGATAAAATGATGATATTG
Found at i:88818707 original size:80 final size:81
Alignment explanation
Indices: 88818589--88818775 Score: 218
Period size: 80 Copynumber: 2.3 Consensus size: 81
88818579 TTTTACCATT
* * * *
88818589 ATAGGGTAAAATGACCGA-AATACCCCCATAGGGTAAAATGA-TCAAAATACCCCTATAGGGTAA
1 ATAGGGTAAAATGA-CTATAATACCCTCATAGGATAAAATGACT-AAAATACCCCTATAAGGTAA
88818652 AATGACTATAATACCCCC
64 AATGACTATAATACCCCC
** * *
88818670 ATAGGGT-AAATGACTATAATACCCTCATAGGATAAAATGACTGTAATACCTCTGTAAGGTAAAA
1 ATAGGGTAAAATGACTATAATACCCTCATAGGATAAAATGACTAAAATACCCCTATAAGGTAAAA
* * *
88818734 TGACTGTAATACCTCT
66 TGACTATAATACCCCC
* *
88818750 GTAGGGTAAAATGACTGTAATACCCT
1 ATAGGGTAAAATGACTATAATACCCT
88818776 TGTAAAATAA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
79 2 0.02
80 63 0.70
81 25 0.28
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (81 bp):
ATAGGGTAAAATGACTATAATACCCTCATAGGATAAAATGACTAAAATACCCCTATAAGGTAAAA
TGACTATAATACCCCC
Found at i:88818779 original size:27 final size:27
Alignment explanation
Indices: 88818582--88818776 Score: 184
Period size: 27 Copynumber: 7.3 Consensus size: 27
88818572 ATGATGATTT
* * *
88818582 TACCATTATAGGGTAAAATGACCGAAA
1 TACCCTTATAGGGTAAAATGACTGTAA
** **
88818609 TACCCCCATAGGGTAAAATGA-TCAAAA
1 TACCCTTATAGGGTAAAATGACT-GTAA
* *
88818636 TACCCCTATAGGGTAAAATGACTATAA
1 TACCCTTATAGGGTAAAATGACTGTAA
** *
88818663 TACCCCCATAGGGT-AAATGACTATAA
1 TACCCTTATAGGGTAAAATGACTGTAA
* *
88818689 TACCCTCATAGGATAAAATGACTGTAA
1 TACCCTTATAGGGTAAAATGACTGTAA
88818716 TACCTCTGTA-A-GGTAAAATGACTGTAA
1 TACC-CT-TATAGGGTAAAATGACTGTAA
*
88818743 TA-CCTCTGTAGGGTAAAATGACTGTAA
1 TACCCT-TATAGGGTAAAATGACTGTAA
88818770 TACCCTT
1 TACCCTT
88818777 GTAAAATAAA
Statistics
Matches: 145, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
25 3 0.02
26 26 0.18
27 108 0.74
28 7 0.05
29 1 0.01
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (27 bp):
TACCCTTATAGGGTAAAATGACTGTAA
Found at i:88818780 original size:54 final size:53
Alignment explanation
Indices: 88818588--88818774 Score: 216
Period size: 54 Copynumber: 3.5 Consensus size: 53
88818578 ATTTTACCAT
* * * *
88818588 TATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGA-TCAAAATACCCC
1 TATAGGGTAAAATGACTGTAATACCCCCATAAGGTAAAATGACT-ATAATA-CCC
* *
88818642 TATAGGGTAAAATGACTATAATACCCCCATAGGGT-AAATGACTATAATACCC
1 TATAGGGTAAAATGACTGTAATACCCCCATAAGGTAAAATGACTATAATACCC
* * ** *
88818694 TCATAGGATAAAATGACTGTAATACCTCTGTAAGGTAAAATGACTGTAATACCTC
1 T-ATAGGGTAAAATGACTGTAATACCCCCATAAGGTAAAATGACTATAATACC-C
*
88818749 TGTAGGGTAAAATGACTGTAATACCC
1 TATAGGGTAAAATGACTGTAATACCC
88818775 TTGTAAAATA
Statistics
Matches: 115, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
52 4 0.03
53 39 0.34
54 70 0.61
55 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.25
Consensus pattern (53 bp):
TATAGGGTAAAATGACTGTAATACCCCCATAAGGTAAAATGACTATAATACCC
Found at i:88818786 original size:27 final size:27
Alignment explanation
Indices: 88818677--88818793 Score: 139
Period size: 27 Copynumber: 4.3 Consensus size: 27
88818667 CCCATAGGGT
* * *
88818677 AAATGACTATAATACC-CTCATAGGATA
1 AAATGACTGTAATACCTCT-GTAAGATA
*
88818704 AAATGACTGTAATACCTCTGTAAGGTA
1 AAATGACTGTAATACCTCTGTAAGATA
* *
88818731 AAATGACTGTAATACCTCTGTAGGGTA
1 AAATGACTGTAATACCTCTGTAAGATA
*
88818758 AAATGACTGTAATACC-CTTGTAAAATA
1 AAATGACTGTAATACCTC-TGTAAGATA
88818785 AAATGACTG
1 AAATGACTG
88818794 ATTTGTTCTA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.01
27 77 0.96
28 2 0.03
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.28
Consensus pattern (27 bp):
AAATGACTGTAATACCTCTGTAAGATA
Found at i:88818787 original size:54 final size:54
Alignment explanation
Indices: 88818677--88818793 Score: 157
Period size: 54 Copynumber: 2.2 Consensus size: 54
88818667 CCCATAGGGT
* **
88818677 AAATGACTATAATACCCTCATAGGATAAAATGACTGTAATACCTCTGTAAGGTA
1 AAATGACTGTAATACCCTCATAGGATAAAATGACTGTAATACCTCTGTAAAATA
* *
88818731 AAATGACTGTAATA-CCTCTGTAGGGTAAAATGACTGTAATACC-CTTGTAAAATA
1 AAATGACTGTAATACCCTC-ATAGGATAAAATGACTGTAATACCTC-TGTAAAATA
88818785 AAATGACTG
1 AAATGACTG
88818794 ATTTGTTCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 5 0.09
54 51 0.91
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.28
Consensus pattern (54 bp):
AAATGACTGTAATACCCTCATAGGATAAAATGACTGTAATACCTCTGTAAAATA
Found at i:88819213 original size:18 final size:18
Alignment explanation
Indices: 88819187--88819254 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
88819177 GTTTGCATTT
88819187 TGCACTGATTACTGTTAC
1 TGCACTGATTACTGTTAC
* *
88819205 TGCATTGATCA-TGGTTAC
1 TGCACTGATTACT-GTTAC
* **
88819223 TGCACTAATTACTGACAC
1 TGCACTGATTACTGTTAC
88819241 TGCTACT-ATTACTG
1 TGC-ACTGATTACTG
88819255 AAATGGGCCA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
17 1 0.03
18 35 0.88
19 4 0.10
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (18 bp):
TGCACTGATTACTGTTAC
Found at i:88823716 original size:21 final size:21
Alignment explanation
Indices: 88823683--88823724 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
88823673 GTACGAGATT
88823683 TGCAATTCAGTGCCTATATTA
1 TGCAATTCAGTGCCTATATTA
* * *
88823704 TGCACTTCGGTGCCTCTATTA
1 TGCAATTCAGTGCCTATATTA
88823725 CACTTTGATG
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:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (21 bp):
TGCAATTCAGTGCCTATATTA
Found at i:88823749 original size:21 final size:20
Alignment explanation
Indices: 88823725--88823800 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
88823715 GCCTCTATTA
*
88823725 CACTTTGATGTCTCTGATTTG
1 CACTTTGATGCCTCTG-TTTG
** *
88823746 CACTACGATGCCTCTGCTTG
1 CACTTTGATGCCTCTGTTTG
*
88823766 CACATTTG-TGCCTGTGTTTG
1 CAC-TTTGATGCCTCTGTTTG
*
88823786 CACTTTGGTGCCTCT
1 CACTTTGATGCCTCT
88823801 TTATTGCATT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
19 4 0.09
20 25 0.57
21 15 0.34
ACGTcount: A:0.12, C:0.26, G:0.21, T:0.41
Consensus pattern (20 bp):
CACTTTGATGCCTCTGTTTG
Found at i:88823777 original size:20 final size:20
Alignment explanation
Indices: 88823704--88823800 Score: 63
Period size: 20 Copynumber: 4.8 Consensus size: 20
88823694 GCCTATATTA
* *
88823704 TGCACTTCGGTGCCTCT-AT
1 TGCACTTTGGTGCCTCTGCT
* * * *
88823723 TACACTTTGATGTCTCTGATT
1 TGCACTTTGGTGCCTCTG-CT
** *
88823744 TGCACTACGATGCCTCTGCT
1 TGCACTTTGGTGCCTCTGCT
* *
88823764 TGCACATTT-GTGCCTGTGTT
1 TGCAC-TTTGGTGCCTCTGCT
88823784 TGCACTTTGGTGCCTCT
1 TGCACTTTGGTGCCTCT
88823801 TTATTGCATT
Statistics
Matches: 58, Mismatches: 16, Indels: 7
0.72 0.20 0.09
Matches are distributed among these distances:
19 16 0.28
20 26 0.45
21 16 0.28
ACGTcount: A:0.12, C:0.27, G:0.21, T:0.40
Consensus pattern (20 bp):
TGCACTTTGGTGCCTCTGCT
Found at i:88830359 original size:43 final size:43
Alignment explanation
Indices: 88830311--88830536 Score: 244
Period size: 43 Copynumber: 5.3 Consensus size: 43
88830301 TGAGACTACA
* *
88830311 TGTAAGACAATGTCTGGGACATTGGCATTGTATTGTGATTATG
1 TGTAAGACCATGTATGGGACATTGGCATTGTATTGTGATTATG
*
88830354 TGTAAGACCATGTATGGGACATTGGAATTGTATTGTGATTATG
1 TGTAAGACCATGTATGGGACATTGGCATTGTATTGTGATTATG
* *
88830397 TGTAAGACCATGTATGGGACATTGGCATCAT-TA-TATGATTACG
1 TGTAAGACCATGTATGGGACATTGGCAT--TGTATTGTGATTATG
* * * * *
88830440 TGTAAGACCATGTCTGGGACATTGGCATCGTTAAT-CGATTTTG
1 TGTAAGACCATGTATGGGACATTGGCATTG-TATTGTGATTATG
* * * * **
88830483 TGTAAGACCCTGTATGGGATAGTGGCATTG-ATATGTGATAACA
1 TGTAAGACCATGTATGGGACATTGGCATTGTAT-TGTGATTATG
88830526 TGTAAGACCAT
1 TGTAAGACCAT
88830537 ATCTAGGATA
Statistics
Matches: 153, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 147 0.96
44 3 0.02
45 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGTATGGGACATTGGCATTGTATTGTGATTATG
Found at i:88836219 original size:17 final size:18
Alignment explanation
Indices: 88836193--88836226 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
88836183 CTTATTTTTA
88836193 AATAAATTAATA-GCATT
1 AATAAATTAATATGCATT
*
88836210 AATAATTTAATATGCAT
1 AATAAATTAATATGCAT
88836227 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
AATAAATTAATATGCATT
Found at i:88845444 original size:15 final size:14
Alignment explanation
Indices: 88845426--88845480 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 14
88845416 TCTGAGATGG
*
88845426 AGAAGTCCAGAATAA
1 AGAAATCCA-AATAA
88845441 AGAAATCCAAGATAA
1 AGAAATCCAA-ATAA
88845456 AGAAATCCATAATAA
1 AGAAATCCA-AATAA
*
88845471 GGAAATCCAA
1 AGAAATCCAA
88845481 TTTACAATAC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
14 2 0.06
15 33 0.92
16 1 0.03
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (14 bp):
AGAAATCCAAATAA
Found at i:88853044 original size:81 final size:81
Alignment explanation
Indices: 88852934--88853101 Score: 187
Period size: 81 Copynumber: 2.1 Consensus size: 81
88852924 TTATTGATAA
* * *
88852934 TCTTTTGGTGAACTCTCCAATTCGCCGAAGTAC-TAACAAACCCTTAGTTCATTGAAACACTAGC
1 TCTTTTAGTGAACTCTCCAATTCGCCGAAGTACAT-ACAAACCCCTAGTTCACTGAAACACTAGC
88852998 AAACTCATTACTAATAC
65 AAACTCATTACTAATAC
* * * * * *
88853015 TCTTTTAGTGAACTC-CCTAGTTCGTCGAAGTACATGCGAACCCCTAGTTCACTGAAACATTGGC
1 TCTTTTAGTGAACTCTCC-AATTCGCCGAAGTACATACAAACCCCTAGTTCACTGAAACACTAGC
* * * *
88853079 GAATTCCTTACTGATAC
65 AAACTCATTACTAATAC
88853096 TCTTTT
1 TCTTTT
88853102 GGAGAATTTC
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
80 2 0.03
81 69 0.96
82 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (81 bp):
TCTTTTAGTGAACTCTCCAATTCGCCGAAGTACATACAAACCCCTAGTTCACTGAAACACTAGCA
AACTCATTACTAATAC
Found at i:88856812 original size:34 final size:34
Alignment explanation
Indices: 88856760--88856825 Score: 105
Period size: 34 Copynumber: 1.9 Consensus size: 34
88856750 TAGATGAGCC
*
88856760 AATTGATGAGTACGATGGGAGATATTAAAAGGCA
1 AATTGATGAGTACAATGGGAGATATTAAAAGGCA
* *
88856794 AATTGATGTGTATAATGGGAGATATTAAAAGG
1 AATTGATGAGTACAATGGGAGATATTAAAAGG
88856826 AAGGGAAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.29, T:0.27
Consensus pattern (34 bp):
AATTGATGAGTACAATGGGAGATATTAAAAGGCA
Found at i:88860702 original size:40 final size:40
Alignment explanation
Indices: 88860654--88860961 Score: 535
Period size: 40 Copynumber: 7.7 Consensus size: 40
88860644 GCAAACACAT
* * *
88860654 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
88860694 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
88860734 TTGCCTTCGGGTCATAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
88860774 TTGCCTTCAGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
88860814 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
88860854 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
88860894 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGTATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
88860934 TTGCCTTCTGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
88860962 TCCAATGCTC
Statistics
Matches: 255, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 255 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:88866378 original size:27 final size:27
Alignment explanation
Indices: 88866340--88866394 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
88866330 ATTTCACAAG
88866340 AATGTTCATTCTTGATTATAGACTTGT
1 AATGTTCATTCTTGATTATAGACTTGT
88866367 AATGTTCATTCTTGATTATAGACTTGT
1 AATGTTCATTCTTGATTATAGACTTGT
88866394 A
1 A
88866395 CTCTTAGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.11, G:0.15, T:0.47
Consensus pattern (27 bp):
AATGTTCATTCTTGATTATAGACTTGT
Found at i:88871788 original size:98 final size:98
Alignment explanation
Indices: 88871619--88871819 Score: 393
Period size: 98 Copynumber: 2.1 Consensus size: 98
88871609 CAGTATATTA
88871619 TTGAAAACAAATGCGCATCCCAGTGGCTAGCAGGATGCTGGGCAACCTGGAGGTCCAAGGTTCAA
1 TTGAAAACAAATGCGCATCCCAGTGGCTAGCAGGATGCTGGGCAACCTGGAGGTCCAAGGTTCAA
88871684 ACAGCGTTATGTGCAAAACGGGGTTTATTTTTG
66 ACAGCGTTATGTGCAAAACGGGGTTTATTTTTG
88871717 TTGAAAACAAATGCGCATCCCAGTGGCTAGCAGGATGCTGGGCAACCTGGAGGTCCAAGGTTCAA
1 TTGAAAACAAATGCGCATCCCAGTGGCTAGCAGGATGCTGGGCAACCTGGAGGTCCAAGGTTCAA
88871782 ACAGCGTTATGTGCAAAACGGGGTTTATTTTTG
66 ACAGCGTTATGTGCAAAACGGGGTTTATTTTTG
*
88871815 CTGAA
1 TTGAA
88871820 CGCGCGTGGG
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 102 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (98 bp):
TTGAAAACAAATGCGCATCCCAGTGGCTAGCAGGATGCTGGGCAACCTGGAGGTCCAAGGTTCAA
ACAGCGTTATGTGCAAAACGGGGTTTATTTTTG
Found at i:88873430 original size:25 final size:25
Alignment explanation
Indices: 88873401--88873448 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
88873391 TTATAATATG
* *
88873401 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
88873426 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
88873449 GTTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:88873515 original size:20 final size:20
Alignment explanation
Indices: 88873492--88873549 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
88873482 TAAACATGGT
88873492 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
88873512 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
88873532 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
88873550 GTGTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:88873532 original size:11 final size:11
Alignment explanation
Indices: 88873496--88873549 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
88873486 CATGGTATGT
88873496 ATGATATGCAC
1 ATGATATGCAC
* *
88873507 ATGACATG--T
1 ATGATATGCAC
88873516 ATGATATGCAC
1 ATGATATGCAC
*
88873527 ATGATATG--T
1 ATGATATGCAC
88873536 ATGATATGCAC
1 ATGATATGCAC
88873547 ATG
1 ATG
88873550 GTGTATTCAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.45
11 18 0.55
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:88873719 original size:24 final size:23
Alignment explanation
Indices: 88873600--88873718 Score: 202
Period size: 23 Copynumber: 5.1 Consensus size: 23
88873590 AGGAAGTGCA
88873600 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
88873623 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
88873646 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
88873669 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
* *
88873692 AAAAGGGCTTTTGCCCCAATTATT
1 -AAAGGGCTTATGCCCCAGTTATT
88873716 AAA
1 AAA
88873719 AAAGGCTAGG
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
23 70 0.77
24 21 0.23
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:88875975 original size:17 final size:19
Alignment explanation
Indices: 88875933--88875976 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
88875923 ATGAAATTTT
*
88875933 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
88875952 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
88875970 AA-TATTA
1 AATTATTA
88875977 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:88878478 original size:20 final size:20
Alignment explanation
Indices: 88878455--88878492 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
88878445 TAAACATGGT
88878455 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
88878475 ATGTATGATATGCACATG
1 ATGTATGATATGCACATG
88878493 GTGTATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:88878655 original size:25 final size:24
Alignment explanation
Indices: 88878542--88878659 Score: 170
Period size: 23 Copynumber: 5.0 Consensus size: 24
88878532 GAGGAAGTGC
88878542 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
88878566 -AAAGGGTTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
88878589 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
88878612 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
88878636 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
88878660 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 44 0.51
24 31 0.36
25 11 0.13
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:88902559 original size:40 final size:39
Alignment explanation
Indices: 88902447--88902629 Score: 201
Period size: 39 Copynumber: 4.6 Consensus size: 39
88902437 CGGATGATAA
* *
88902447 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-T
* * * *
88902487 CCGGGCTAA-ACCTGAAGGCAATTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AT
* * *
88902526 CCGGGCTAAGTCCCGAAGGCATTGGTGCCAGTTATTGAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
* *
88902565 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AT
88902605 CCGGG-TCAAGTCCCGAAGGCATTTG
1 CCGGGCT-AAGTCCCGAAGGCATTTG
88902630 AGCAAGTAGT
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 1 0.01
39 65 0.54
40 54 0.45
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:88902583 original size:79 final size:78
Alignment explanation
Indices: 88902443--88902627 Score: 239
Period size: 79 Copynumber: 2.3 Consensus size: 78
88902433 TATTCGGATG
* *
88902443 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACTAATTCCGGGCTAAACCTGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCCAGTAACTAA-TCCGGGCTAAACCTGAAGGCAA
*
88902508 TTGTGCGAGTTATT
65 TTGTGCGAGTTACT
* * * **
88902522 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCCAGTTATTGAA-CCGGGCTAAGTCTCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCCAGTAACT-AATCCGGGCTAAACCT-GAAGGCA
*
88902586 TTTGTGCGAGTTACT
64 ATTGTGCGAGTTACT
88902601 ATAACCGGG-TCAAGTCCCGAAGGCATT
1 ATAACCGGGCT-AAGTCCCGAAGGCATT
88902628 TGAGCAAGTA
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
78 12 0.13
79 79 0.85
80 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTGGTGCCAGTAACTAATCCGGGCTAAACCTGAAGGCAAT
TGTGCGAGTTACT
Found at i:88902661 original size:79 final size:76
Alignment explanation
Indices: 88902443--88902662 Score: 228
Period size: 79 Copynumber: 2.8 Consensus size: 76
88902433 TATTCGGATG
* *
88902443 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTAACTAATTCCGGGCTAAA-CCTGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT-ATTAA-T-CGGGCTAAATCC-GAAGGCA
*
88902507 ATTGTGCGAGTTATT
62 ATTGTGCGAGTTACT
* * * * * *
88902522 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCCAGTTATTGAACCGGGCTAAGTCTCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TATT-AATCGGGCTAAATC-CGAAGGCAA
88902587 TTGTGCGAGTTACT
63 TTGTGCGAGTTACT
* *
88902601 ATAACCGGG-TCAAGTCCCGAAGGCATTTGAGCAAGTAGTTATATCTGGCTAAATTCCGAAGG
1 ATAACCGGGCT-AAGTCCCGAAGGCATTTGTGCAAGTA-TTA-ATCGGGCTAAA-TCCGAAGG
88902663 TACTTGGGTT
Statistics
Matches: 118, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
78 12 0.10
79 100 0.85
80 6 0.05
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (76 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTATTAATCGGGCTAAATCCGAAGGCAATTG
TGCGAGTTACT
Found at i:88905007 original size:40 final size:40
Alignment explanation
Indices: 88904911--88905094 Score: 214
Period size: 40 Copynumber: 4.5 Consensus size: 40
88904901 TATTCGGATG
*
88904911 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGT--G-CTAGTTGCT
*
88904954 ATA-CGCGGGCTAAGTCCCGAAGACATTTGTGCTAG-TGACT
1 ATATC-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* **
88904994 ATATCCGAGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
88905034 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
88905074 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
88905095 ATACTTGGGT
Statistics
Matches: 124, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 15 0.12
40 77 0.62
41 4 0.03
42 1 0.01
43 27 0.22
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:88909551 original size:30 final size:30
Alignment explanation
Indices: 88909515--88909576 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
88909505 CAAGTAGCCG
88909515 AAGCTAGCTTAAATCGCACACTTAGTGCCA
1 AAGCTAGCTTAAATCGCACACTTAGTGCCA
* * *
88909545 AAGCTAGTTTAAATTGTACACTTAGTGCCA
1 AAGCTAGCTTAAATCGCACACTTAGTGCCA
88909575 AA
1 AA
88909577 ACTTCCAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (30 bp):
AAGCTAGCTTAAATCGCACACTTAGTGCCA
Found at i:88916702 original size:30 final size:30
Alignment explanation
Indices: 88916668--88916729 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
88916658 CAAGTAGTCG
88916668 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
*
88916698 AAGCTAGTTTAAATCGTACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
88916728 AA
1 AA
88916730 ACTTCTGATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:88930689 original size:27 final size:27
Alignment explanation
Indices: 88930607--88930691 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
88930597 CAAAACAATC
* * * *
88930607 ATTTTACACTATAGGGGTATGTCTGTC
1 ATTTTACACTACAAGGGTATTTCTGTA
*
88930634 ATTTTACACTACAAGGGTATTTCGGTA
1 ATTTTACACTACAAGGGTATTTCTGTA
*
88930661 ATTTTACACTACAAGGGTATTTCTATA
1 ATTTTACACTACAAGGGTATTTCTGTA
88930688 ATTT
1 ATTT
88930692 ATCTTTATTA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.41
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATTTCTGTA
Found at i:88932543 original size:80 final size:79
Alignment explanation
Indices: 88932459--88932630 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
88932449 GGACTAAGAT
*
88932459 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
88932523 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
88932539 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
88932604 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
88932618 CCGAAGGCATTTG
1 CCGAAGGCATTTG
88932631 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:88932610 original size:39 final size:39
Alignment explanation
Indices: 88932406--88932628 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
88932396 TTGAATGCTG
* * * * *
88932406 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
88932446 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
88932485 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
88932526 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
88932566 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
88932605 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
88932629 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:88932648 original size:79 final size:80
Alignment explanation
Indices: 88932486--88932663 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
88932476 AGATACAAAT
* * * *
88932486 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
88932551 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
88932566 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
88932630 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
88932645 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
88932664 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:88934185 original size:28 final size:28
Alignment explanation
Indices: 88934152--88934215 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
88934142 TGGCCCCTTT
*
88934152 AGGCCCAATCTCGTTTACATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
*
88934180 AGGCCCAATCTCGTTCATATGGCCCATC
1 AGGCCCAATCTCGTTCACATGGCCCATC
88934208 AGGCCCAA
1 AGGCCCAA
88934216 CTACTTCCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCTCGTTCACATGGCCCATC
Found at i:88943273 original size:17 final size:18
Alignment explanation
Indices: 88943251--88943284 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88943241 TTACATTGAA
88943251 GTGTTTT-AGTGAAAACT
1 GTGTTTTCAGTGAAAACT
*
88943268 GTGTTTTCATTGAAAAC
1 GTGTTTTCAGTGAAAAC
88943285 CCTTCTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (18 bp):
GTGTTTTCAGTGAAAACT
Found at i:88944395 original size:29 final size:29
Alignment explanation
Indices: 88944345--88944420 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
88944335 CATTAATCCC
* *
88944345 AATCATATTCATATGGCCCATTAGGCCCA
1 AATCACATTCATATGGCCCATTAGGACCA
* * *
88944374 AATGACCTTTATATGGCCCATTAGGACCA
1 AATCACATTCATATGGCCCATTAGGACCA
88944403 AATCACATTCATATGGCC
1 AATCACATTCATATGGCC
88944421 TGCTAGGCCC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (29 bp):
AATCACATTCATATGGCCCATTAGGACCA
Found at i:88944427 original size:29 final size:28
Alignment explanation
Indices: 88944330--88944444 Score: 104
Period size: 29 Copynumber: 4.0 Consensus size: 28
88944320 TACCTGTTTC
** * *
88944330 TGGCCCATTAATCCCAATCATATTCATA
1 TGGCCCATTAGGCCAAATCACATTCATA
* * *
88944358 TGGCCCATTAGGCCCAAATGACCTTTATA
1 TGGCCCATTAGG-CCAAATCACATTCATA
88944387 TGGCCCATTAGGACCAAATCACATTCATA
1 TGGCCCATTAGG-CCAAATCACATTCATA
*** * *
88944416 TGGCCTGCTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCAAATCACATTCATA
88944444 T
1 T
88944445 TCATGCTCAC
Statistics
Matches: 70, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
28 25 0.36
29 45 0.64
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCAAATCACATTCATA
Found at i:88944682 original size:16 final size:16
Alignment explanation
Indices: 88944656--88944697 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
88944646 TAGCCAAACC
*
88944656 TTCGGCTTTTCGACAT
1 TTCGACTTTTCGACAT
* *
88944672 TTCTACTTTTCGGCAT
1 TTCGACTTTTCGACAT
88944688 TTCGACTTTT
1 TTCGACTTTT
88944698 GCCGATACAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.12, C:0.24, G:0.14, T:0.50
Consensus pattern (16 bp):
TTCGACTTTTCGACAT
Found at i:88948089 original size:39 final size:40
Alignment explanation
Indices: 88948046--88948213 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
88948036 CTCGTTGAAG
* * * *
88948046 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
88948085 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
88948125 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
88948165 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
88948205 TGCCTTCGG
1 TGCCTTCGG
88948214 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:88948226 original size:40 final size:40
Alignment explanation
Indices: 88948083--88948213 Score: 201
Period size: 40 Copynumber: 3.3 Consensus size: 40
88948073 TAACTCATAC
* *
88948083 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
88948123 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
88948163 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
88948203 AATGCCTTCGG
1 AATGCCTTCGG
88948214 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 3 0.04
40 79 0.96
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:88948226 original size:80 final size:80
Alignment explanation
Indices: 88948046--88948266 Score: 229
Period size: 80 Copynumber: 2.8 Consensus size: 80
88948036 CTCGTTGAAG
* * * * * * * *
88948046 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
*
88948110 TAAAACTCGCACGAA
66 TAAAACTCGCACAAA
*
88948125 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTAACCCGGA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGGA
88948187 -ATTAATAACTCGCACAAA
63 TATTAA-AACTCGCACAAA
** * *
88948205 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAGAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
88948267 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 14, Indels: 17
0.79 0.09 0.11
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 34 0.29
80 72 0.61
81 9 0.08
82 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGGATAT
TAAAACTCGCACAAA
Found at i:88956049 original size:39 final size:40
Alignment explanation
Indices: 88956006--88956172 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
88955996 CTCGTTGAAG
* * * *
88956006 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
88956045 TGCCTT-GGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
88956084 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
88956124 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
88956164 TGCCTTCGG
1 TGCCTTCGG
88956173 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
38 19 0.17
39 18 0.17
40 68 0.62
41 3 0.03
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:88956185 original size:40 final size:40
Alignment explanation
Indices: 88956043--88956172 Score: 192
Period size: 40 Copynumber: 3.3 Consensus size: 40
88956033 TAACTCATAC
* *
88956043 AATGCCTT-GGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
88956082 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
88956122 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
88956162 AATGCCTTCGG
1 AATGCCTTCGG
88956173 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 11 0.14
40 70 0.86
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:88961980 original size:25 final size:26
Alignment explanation
Indices: 88961924--88961980 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
88961914 TTTAATTAAA
* * *
88961924 TAAAAATTATTAATGATTCAATAAACT
1 TAAAAATTA-TAATAATTAAATAAAAT
*
88961951 AAAAAATTA-AATAATTAAATAAAAT
1 TAAAAATTATAATAATTAAATAAAAT
88961976 TAAAA
1 TAAAA
88961981 TTTAGGAGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 17 0.68
27 8 0.32
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (26 bp):
TAAAAATTATAATAATTAAATAAAAT
Found at i:88962835 original size:22 final size:20
Alignment explanation
Indices: 88962796--88962842 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 20
88962786 TATAAAGTTG
88962796 ATAATAATTAATATATATT-
1 ATAATAATTAATATATATTA
88962815 ATAATAGATATAATTATATATTA
1 ATAATA-AT-TAA-TATATATTA
88962838 ATAAT
1 ATAAT
88962843 TATCATCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 3 0.12
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
ATAATAATTAATATATATTA
Found at i:88966226 original size:42 final size:42
Alignment explanation
Indices: 88966179--88966263 Score: 152
Period size: 42 Copynumber: 2.0 Consensus size: 42
88966169 AAAACGGGAT
* *
88966179 TGCGGATTAAATCTCTTTTGTTTAGCTTCTAACAACGCTAAG
1 TGCGGATTAAATCCCTTTTGATTAGCTTCTAACAACGCTAAG
88966221 TGCGGATTAAATCCCTTTTGATTAGCTTCTAACAACGCTAAG
1 TGCGGATTAAATCCCTTTTGATTAGCTTCTAACAACGCTAAG
88966263 T
1 T
88966264 ATTCATCCTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.20, G:0.16, T:0.36
Consensus pattern (42 bp):
TGCGGATTAAATCCCTTTTGATTAGCTTCTAACAACGCTAAG
Found at i:88970506 original size:27 final size:27
Alignment explanation
Indices: 88970476--88970653 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
88970466 ATATTGAGTC
* * * *
88970476 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
88970503 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88970530 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
88970558 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
88970585 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
88970612 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88970639 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88970654 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:88970615 original size:82 final size:81
Alignment explanation
Indices: 88970497--88970652 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
88970487 TGCTATATAA
* *
88970497 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
88970562 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
88970579 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
88970643 CACTTAGTGC
65 CACTTAGTGC
88970653 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:88977522 original size:27 final size:27
Alignment explanation
Indices: 88977492--88977669 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
88977482 ATATTGAGTC
* * * *
88977492 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
88977519 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88977546 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
88977574 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
88977601 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
88977628 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
88977655 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
88977670 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:88977631 original size:82 final size:81
Alignment explanation
Indices: 88977513--88977668 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
88977503 TGCTATATAA
* *
88977513 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
88977578 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
88977595 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
88977659 CACTTAGTGC
65 CACTTAGTGC
88977669 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:88980348 original size:46 final size:47
Alignment explanation
Indices: 88980249--88980365 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 47
88980239 TTTGTGTGCT
* * * *
88980249 AGTGTAAGACCATGTTTGGGACATGACATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATGACATCGGCATCGAGACGAAAGCC
* *
88980297 AGTGTAAGACATGTCTGGGACATG-CATCGGCCTCGAGA-TATAAGCC
1 AGTGTAAGACATGTCTGGGACATGACATCGGCATCGAGACGA-AAGCC
88980343 AGTGTAAGACATGTCTGGGACAT
1 AGTGTAAGACATGTCTGGGACAT
88980366 CATTGGTTAC
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
45 1 0.02
46 38 0.61
47 14 0.23
48 9 0.15
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGACATCGGCATCGAGACGAAAGCC
Found at i:88994426 original size:45 final size:45
Alignment explanation
Indices: 88994362--88994451 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
88994352 AATTTGCAAA
88994362 ACTGTTACAGATTTATAGTTGTACCATGAATGCTCTTCTGTGATT
1 ACTGTTACAGATTTATAGTTGTACCATGAATGCTCTTCTGTGATT
88994407 ACTGTTACAGATTTATAGTTGTACCATGAATGCTCTTCTGTGATT
1 ACTGTTACAGATTTATAGTTGTACCATGAATGCTCTTCTGTGATT
88994452 CTTCATGTCT
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:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (45 bp):
ACTGTTACAGATTTATAGTTGTACCATGAATGCTCTTCTGTGATT
Found at i:88996208 original size:46 final size:48
Alignment explanation
Indices: 88996136--88996238 Score: 120
Period size: 46 Copynumber: 2.2 Consensus size: 48
88996126 GACAGGACAG
* * * *
88996136 GACAGAAATGAGCCATATAAGTCCATATCA-GT-TATATGGCTTTAGA
1 GACAGGAATGAGCCATATAAGCCCATATCATATATATATGGCATTAGA
* * * *
88996182 GACAGGAATGAGCCGTGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATATAAGCCCATATCATATATATATGGCATTAGA
88996230 GACAGGAAT
1 GACAGGAAT
88996239 AATTCATGTA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 25 0.53
47 1 0.02
48 21 0.45
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATATAAGCCCATATCATATATATATGGCATTAGA
Found at i:88997703 original size:82 final size:80
Alignment explanation
Indices: 88997571--88997728 Score: 221
Period size: 82 Copynumber: 1.9 Consensus size: 80
88997561 TATACATACG
*
88997571 TGCCCTTGTTCGTACTTCGATACCCCTGAATTGCACATCTGTGCCACTGTTTGTACTTCAGTACC
1 TGCCCTTGTTCGTACTTCGATACCCCTGAATTGCACATATGTGCCACTGTTTGTACTTCAGTACC
88997636 CATGAATTGCACATAA
66 CATGAA-TGCACATAA
* **
88997652 TGCCCTTGTTTGTACTTC-ATCACCCCCTGAATTGCACATATGTGTCC-CTGTTTGTACTTTGGT
1 TGCCCTTGTTCGTACTTCGAT-A-CCCCTGAATTGCACATATGTG-CCACTGTTTGTACTTCAGT
*
88997715 ACCCTTGAATGCAC
63 ACCCATGAATGCAC
88997729 TTTTGTACCC
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 2 0.03
81 23 0.33
82 42 0.61
83 2 0.03
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.35
Consensus pattern (80 bp):
TGCCCTTGTTCGTACTTCGATACCCCTGAATTGCACATATGTGCCACTGTTTGTACTTCAGTACC
CATGAATGCACATAA
Found at i:88997724 original size:41 final size:40
Alignment explanation
Indices: 88997564--88997754 Score: 156
Period size: 41 Copynumber: 4.7 Consensus size: 40
88997554 GTTGAACTAT
* * * *
88997564 ACATACGTGCCCTTGTTCGTACTTCGATACCCCTGAATTGC
1 ACATATGTGCCC-TGTTTGTACTTTGGTACCCCTGAATTGC
* ** *
88997605 ACATCTGTGCCACTGTTTGTACTTCAGTACCCATGAATTGC
1 ACATATGTGCC-CTGTTTGTACTTTGGTACCCCTGAATTGC
* **
88997646 ACATA-ATGCCCTTGTTTGTAC-TTCATCACCCCCTGAATTGC
1 ACATATGTGCCC-TGTTTGTACTTTGGT-A-CCCCTGAATTGC
*
88997687 ACATATGTGTCCCTGTTTGTACTTTGGTACCCTTGAA-TGC
1 ACATATGTG-CCCTGTTTGTACTTTGGTACCCCTGAATTGC
* * *
88997727 ACTTTTGTACCCTGTTTAG-ACTTTGGTA
1 ACATATGTGCCCTGTTT-GTACTTTGGTA
88997755 ATTCTGAGTC
Statistics
Matches: 123, Mismatches: 19, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
39 20 0.16
40 24 0.20
41 60 0.49
42 13 0.11
43 6 0.05
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.37
Consensus pattern (40 bp):
ACATATGTGCCCTGTTTGTACTTTGGTACCCCTGAATTGC
Found at i:89000976 original size:17 final size:17
Alignment explanation
Indices: 89000956--89000991 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
89000946 TTCTTGAACG
89000956 ATGAATGAACTCTTTGA
1 ATGAATGAACTCTTTGA
89000973 ATGAATGAACTCTTTGA
1 ATGAATGAACTCTTTGA
89000990 AT
1 AT
89000992 TGGAGTTATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (17 bp):
ATGAATGAACTCTTTGA
Found at i:89005062 original size:27 final size:27
Alignment explanation
Indices: 89005032--89005230 Score: 222
Period size: 27 Copynumber: 7.4 Consensus size: 27
89005022 TACTAAAATG
** *
89005032 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
** * *
89005059 CCCTCGATTTATGGAATTACTGTTTCA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
89005086 CCCTCGAATTACAAAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
*
89005113 CCCTCGATTTATAGAATTACCAG-TTTA
1 CCCTCGATTTACAGAATTACC-GTTTTA
89005140 CCCTCGATTTACAGAATTACCGTTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* * * *
89005167 TCCTCAATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAGAATTACCGTTTTA
* *
89005194 CCTTC-AGTTTACAAAATTACCGTTTTA
1 CCCTCGA-TTTACAGAATTACCGTTTTA
89005221 CCCTCGATTT
1 CCCTCGATTT
89005231 TGAAATTACT
Statistics
Matches: 145, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
26 2 0.01
27 141 0.97
28 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CCCTCGATTTACAGAATTACCGTTTTA
Found at i:89005128 original size:81 final size:81
Alignment explanation
Indices: 89005032--89005240 Score: 262
Period size: 81 Copynumber: 2.6 Consensus size: 81
89005022 TACTAAAATG
*
89005032 CCCTCGATTTGTAGAATTACCATTTTACCCTCGATTTATGGAATTACTGTTTCACCCTCGAA-TT
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATGGAATTACTGTTTCACCCTC-AATTT
*
89005096 ACAAAATTACCGTTTTA
65 ACAAAATTACCATTTTA
* ** * * *
89005113 CCCTCGATTTATAGAATTACCAGTTTACCCTCGATTTACAGAATTACCGTTTTATCCTCAATTTA
1 CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATGGAATTACTGTTTCACCCTCAATTTA
89005178 CAAAATTACCATTTTA
66 CAAAATTACCATTTTA
* * * * *
89005194 CCTTC-AGTTTACAAAATTACCGTTTTACCCTCGATTT-TGAAATTACT
1 CCCTCGA-TTTATAGAATTACCATTTTACCCTCGATTTATGGAATTACT
89005241 AAAATACCCC
Statistics
Matches: 109, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
80 9 0.08
81 100 0.92
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (81 bp):
CCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATGGAATTACTGTTTCACCCTCAATTTA
CAAAATTACCATTTTA
Found at i:89005425 original size:81 final size:81
Alignment explanation
Indices: 89005261--89005428 Score: 248
Period size: 81 Copynumber: 2.1 Consensus size: 81
89005251 TGTAGGATAG
*
89005261 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAA
* **
89005326 CACCCCTAGTTTGTAA
66 CACCCCTAATTTACAA
* *
89005342 AATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAGTA-CCCTCAATTTGTAAAATTACCAAA
1 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAA
* *
89005406 ATACCCTTAATTTACAA
65 ACACCCCTAATTTACAA
89005423 AATTAC
1 AATTAC
89005429 AGAAAAACCC
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
80 4 0.05
81 74 0.95
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAA
CACCCCTAATTTACAA
Found at i:89005428 original size:27 final size:27
Alignment explanation
Indices: 89005233--89005411 Score: 254
Period size: 27 Copynumber: 6.6 Consensus size: 27
89005223 CTCGATTTTG
* **
89005233 AAATTACTAAAATACCCCT-GTAGGATA
1 AAATTACCAAAATACCCCTAGTTTG-TA
*
89005260 GAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
89005287 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
89005314 AAATTACCAAAACACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
89005341 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
89005368 AAATTACCGAAGTA-CCCTCAATTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTA
89005395 AAATTACCAAAATACCC
1 AAATTACCAAAATACCC
89005412 TTAATTTACA
Statistics
Matches: 137, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
26 4 0.03
27 128 0.93
28 5 0.04
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:89005438 original size:27 final size:27
Alignment explanation
Indices: 89005340--89005496 Score: 104
Period size: 27 Copynumber: 5.7 Consensus size: 27
89005330 CCTAGTTTGT
* * **
89005340 AAAATTACCA-AAATACCCCTAGTTTGT
1 AAAATTA-CAGAAATACCCTTAATTTAC
* * * **
89005367 AAAATTACCGAAGTACCCTCAATTTGT
1 AAAATTACAGAAATACCCTTAATTTAC
89005394 AAAATTACCA-AAATACCCTTAATTTAC
1 AAAATTA-CAGAAATACCCTTAATTTAC
* *
89005421 AAAATTACAGAAAAACCCTTGACTTT-C
1 AAAATTACAGAAATACCCTT-AATTTAC
* * **
89005448 TAAAAATTATAGAAATACCATTGGTTTAC
1 --AAAATTACAGAAATACCCTTAATTTAC
*
89005477 AAAATTACTGAAATACCCTT
1 AAAATTACAGAAATACCCTT
89005497 GTTTTGTAGA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
26 3 0.03
27 74 0.72
28 8 0.08
29 18 0.17
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACAGAAATACCCTTAATTTAC
Done.