Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 286 of 770
Found at i:87037313 original size:3 final size:3
Alignment explanation
Indices: 87037305--87037346 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
87037295 ACCTTACCTC
87037305 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
87037347 ATTATTATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:87044709 original size:18 final size:18
Alignment explanation
Indices: 87044683--87044717 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
87044673 AATGTGTACT
*
87044683 AAATTACATAATATATAA
1 AAATAACATAATATATAA
87044701 AAATAACATAATATATA
1 AAATAACATAATATATA
87044718 GTATTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (18 bp):
AAATAACATAATATATAA
Found at i:87050966 original size:28 final size:27
Alignment explanation
Indices: 87050880--87050969 Score: 92
Period size: 27 Copynumber: 3.2 Consensus size: 27
87050870 GTGACAGAGT
*
87050880 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* ** *
87050909 CACCAGAACAGGT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
87050936 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
87050964 CACCAG
1 CACCAG
87050970 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 22 0.44
28 21 0.42
29 7 0.14
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:87051122 original size:28 final size:28
Alignment explanation
Indices: 87051075--87051139 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
87051065 AAATTAACCC
*
87051075 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
87051103 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
87051131 TAGGGGTAT
1 TAGGGGTAT
87051140 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:87052222 original size:12 final size:13
Alignment explanation
Indices: 87052203--87052235 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
87052193 GGGTTTGGCT
87052203 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
87052216 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
87052228 ATGGAGAA
1 ATGGAGAA
87052236 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:87052934 original size:46 final size:46
Alignment explanation
Indices: 87052838--87053050 Score: 207
Period size: 46 Copynumber: 4.6 Consensus size: 46
87052828 AAGTCGATTC
* * * * * *
87052838 CATGTCCTAGACATGGTCTTACACT-GACTATCATCTTGTGGCCAACG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTCTCATCTCGAGGCCGATG
*
87052885 CATGTCCCAGACATGTCTTACACTAGCT-TACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATCTCGAGGCCGATG
* * * * *
87052931 CATGTCCCAAACATGTCTTACACTAGCTCTCATCTCAATGTCGGTG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGCCGATG
* * * *
87052977 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCAATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTCGAGGCCGATG
87053025 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
87053051 TTCACAAACA
Statistics
Matches: 138, Mismatches: 22, Indels: 13
0.80 0.13 0.08
Matches are distributed among these distances:
45 1 0.01
46 72 0.52
47 42 0.30
48 22 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTCGAGGCCGATG
Found at i:87060629 original size:29 final size:29
Alignment explanation
Indices: 87060539--87060698 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
87060529 ACTCGATTTC
* * **
87060539 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
87060568 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
87060596 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
87060626 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
87060655 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
87060684 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
87060699 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:87068649 original size:29 final size:29
Alignment explanation
Indices: 87068559--87068718 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
87068549 ACTCGATTTC
* * **
87068559 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
87068588 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
87068616 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
87068646 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
87068675 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
87068704 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
87068719 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:87071659 original size:66 final size:68
Alignment explanation
Indices: 87071583--87071769 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
87071573 TAGTACCACT
*
87071583 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
87071645 CACG
65 CACG
87071649 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
87071714 ATCACG
63 ATCACG
87071720 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
87071770 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:87071694 original size:71 final size:71
Alignment explanation
Indices: 87071606--87071769 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
87071596 CGATTTGTCT
87071606 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
87071671 CTTTCA
66 CTTTCA
87071677 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
87071742 CTTTCA
66 CTTTCA
87071748 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
87071770 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:87071807 original size:71 final size:70
Alignment explanation
Indices: 87071606--87071803 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
87071596 CGATTTGTCT
* * *
87071606 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
87071671 CTTTCA
65 CTTTCA
* * *
87071677 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
87071742 CTTTCA
65 CTTTCA
* *
87071748 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
87071804 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:87079190 original size:66 final size:68
Alignment explanation
Indices: 87079114--87079300 Score: 281
Period size: 71 Copynumber: 2.7 Consensus size: 68
87079104 TAGTACCACT
*
87079114 CATGCGACCTAGC-CGATTTGTC-T-CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
1 CATGCGACCTAGCAC-ATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAAT
87079176 CACG
65 CACG
87079180 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
87079245 ATCACG
63 ATCACG
87079251 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT-ACGTAGCTCTCTTGTCTACATGG
87079301 GATACATCTC
Statistics
Matches: 114, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
66 13 0.11
67 6 0.05
68 1 0.01
69 1 0.01
71 93 0.82
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (68 bp):
CATGCGACCTAGCACATTTATCTTACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
ACG
Found at i:87079225 original size:71 final size:71
Alignment explanation
Indices: 87079137--87079300 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
87079127 CGATTTGTCT
87079137 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
87079202 CTTTCA
66 CTTTCA
87079208 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
87079273 CTTTCA
66 CTTTCA
87079279 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
87079301 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:87079338 original size:71 final size:70
Alignment explanation
Indices: 87079137--87079334 Score: 276
Period size: 71 Copynumber: 2.8 Consensus size: 70
87079127 CGATTTGTCT
* * *
87079137 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
87079202 CTTTCA
65 CTTTCA
* * *
87079208 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTAT
87079273 CTTTCA
65 CTTTCA
* *
87079279 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
87079335 TACAGGGTGT
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 96 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATC
TTTCA
Found at i:87085178 original size:40 final size:40
Alignment explanation
Indices: 87085116--87085412 Score: 313
Period size: 40 Copynumber: 7.5 Consensus size: 40
87085106 CGGATGATAA
* * * *
87085116 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTCGTGCGAGTGACTATA-T
*
87085156 CCGGGCTAAGTCCCGAAGGCATTCGTACGAGCT-ACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAG-TGACTATAT
87085196 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAG-TGACTATAT
*
87085236 CCGGGCTAAGTCCCGAAGGCGTTCGTGCGAG-GTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTG-ACTATAT
* *
87085276 CCAGGCTAAGTCCCGAAGGCGTTCGTGCGAG-GTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTG-ACTATAT
* * * * *
87085316 CCAGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTATAT
* * * *
87085355 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTATAT
**
87085395 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
87085413 TACTTGGTTT
Statistics
Matches: 230, Mismatches: 20, Indels: 15
0.87 0.08 0.06
Matches are distributed among these distances:
39 46 0.20
40 180 0.78
41 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTATAT
Found at i:87085249 original size:80 final size:80
Alignment explanation
Indices: 87085155--87085377 Score: 349
Period size: 80 Copynumber: 2.8 Consensus size: 80
87085145 AGTGGCTAAT
* *
87085155 TCCGGGCTAAGTCCCGAAGGCATTCGTACGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCGTTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTC
87085220 GTGCGAGCTACTATA
66 GTGCGAGCTACTATA
* * *
87085235 TCCGGGCTAAGTCCCGAAGGCGTTCGTGCGAGGTACTATATCCAGGCTAAGTCCCGAAGGCGTTC
1 TCCGGGCTAAGTCCCGAAGGCGTTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTC
*
87085300 GTGCGAGGTACTATA
66 GTGCGAGCTACTATA
* * * *
87085315 TCCAGGCTAAGTCCCGAAGGCGTTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCGTTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATT
87085378 TGAGCTAGTG
Statistics
Matches: 131, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 21 0.16
80 110 0.84
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCGTTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTC
GTGCGAGCTACTATA
Found at i:87085329 original size:120 final size:119
Alignment explanation
Indices: 87085159--87085374 Score: 351
Period size: 120 Copynumber: 1.8 Consensus size: 119
87085149 GCTAATTCCG
*
87085159 GGCTAAGTCCCGAAGGCATTCGTACGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 GGCTAAGTCCCGAAGGCATTCGTACGAGCTACTATATCCAGGCTAAGTCCCGAAGGCATTCGTGC
87085224 GAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTCGTGCGAGGTACTATATCCA
66 GAGCTACTATA-CCGGGCTAAGTCCCGAAGGCGTTCGTGCGAGGTACTATATCCA
* * * * *
87085279 GGCTAAGTCCCGAAGGCGTTCGTGCGAGGTACTATATCCAGGCTAAGTCCCGAAGGCGTTTGTGC
1 GGCTAAGTCCCGAAGGCATTCGTACGAGCTACTATATCCAGGCTAAGTCCCGAAGGCATTCGTGC
* *
87085344 GAGTTATTATACCGGGCTAAGTCCCGAAGGC
66 GAGCTACTATACCGGGCTAAGTCCCGAAGGC
87085375 ATTTGAGCTA
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
119 20 0.23
120 68 0.77
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.23
Consensus pattern (119 bp):
GGCTAAGTCCCGAAGGCATTCGTACGAGCTACTATATCCAGGCTAAGTCCCGAAGGCATTCGTGC
GAGCTACTATACCGGGCTAAGTCCCGAAGGCGTTCGTGCGAGGTACTATATCCA
Found at i:87088012 original size:33 final size:33
Alignment explanation
Indices: 87087975--87088044 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
87087965 ACCCAAGCCT
*
87087975 ATTCGATTCACATTCGTTCCCATAGTAGTGCAC
1 ATTCGATTCACATTCGTTCCCATAGCAGTGCAC
87088008 ATTCGATTCACATTCGTTCCCATAGCAGTGCAC
1 ATTCGATTCACATTCGTTCCCATAGCAGTGCAC
87088041 ATTC
1 ATTC
87088045 TTCTTTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (33 bp):
ATTCGATTCACATTCGTTCCCATAGCAGTGCAC
Found at i:87088588 original size:284 final size:284
Alignment explanation
Indices: 87088026--87088594 Score: 892
Period size: 284 Copynumber: 2.0 Consensus size: 284
87088016 CACATTCGTT
** * *
87088026 CCCATAGCAGTGCACATTCTTCTTTATTTCACTTTTCTACTACCCACTTTTACATCTTTTACAAT
1 CCCATAGCAGTGCACATTCTTCTTTATAACACATTTCTACAACCCACTTTTACATCTTTTACAAT
* *
87088091 TTGGTCCTTTTTAGGTGTTTTCATGCAAAATCACTTAGTAAAAGATGTTAAACTCACATCAAACC
66 TTGGTCCTTTTTAGGTGTTTTCATGCAAAATCACTTAGCAAAAGATGTTAAACACACATCAAACC
* *
87088156 TTTATATTCTTCAATTAATCATCAAAACAGAAGCATGTCATGCATGGGTAAAATTTTAAACATGA
131 TTTATATTCTTCAATTAATCATCAAAAAACAAGCATGTCATGCATGGGTAAAATTTTAAACATGA
* * *
87088221 ACCATACTTCAAAAAATGGGTAGAAATTGATAGAGCATACTACGAGGACTTAAAAAATGCAAAGA
196 ACCATACTTCAAAAAATGGGTAGAAATGGATAGAGCATACTACAAGGACATAAAAAATGCAAAGA
* * *
87088286 ACATAAAAATAGGGCTCGGTTGCA
261 ACATAAAAACAAGGCTCGGATGCA
87088310 CCCATAGCAGTGCACATTCTTCTTTATAACACATTTCTACAACCCACTTTTACATCTTTTACAAT
1 CCCATAGCAGTGCACATTCTTCTTTATAACACATTTCTACAACCCACTTTTACATCTTTTACAAT
*
87088375 TTGGTCCTTTTTAGGTGTTTTCATGCAAAATCACTTAGCAAATGATGTTAAACACACATCAAA-C
66 TTGGTCCTTTTTAGGTGTTTTCATGCAAAATCACTTAGCAAAAGATGTTAAACACACATCAAACC
* * * *
87088439 TTTCATATTCTTCCATTAATCATCAAAAAACAAGCATGTTATGCATGGTTCAAATTTTAAACATG
131 TTT-ATATTCTTCAATTAATCATCAAAAAACAAGCATGTCATGCATGGGTAAAATTTTAAACATG
* * *
87088504 AACCCTACTTCAAAATATGGGTAGAAATGGATAGATCATGA-TACAAGGACAT-AAAAATGCAAA
195 AACCATACTTCAAAAAATGGGTAGAAATGGATAGAGCAT-ACTACAAGGACATAAAAAATGCAAA
87088567 GAACATAAAAACCAAGGCTCGGATGCA
259 GAACATAAAAA-CAAGGCTCGGATGCA
87088594 C
1 C
87088595 TTACTATTGA
Statistics
Matches: 260, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
283 26 0.10
284 233 0.90
285 1 0.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.31
Consensus pattern (284 bp):
CCCATAGCAGTGCACATTCTTCTTTATAACACATTTCTACAACCCACTTTTACATCTTTTACAAT
TTGGTCCTTTTTAGGTGTTTTCATGCAAAATCACTTAGCAAAAGATGTTAAACACACATCAAACC
TTTATATTCTTCAATTAATCATCAAAAAACAAGCATGTCATGCATGGGTAAAATTTTAAACATGA
ACCATACTTCAAAAAATGGGTAGAAATGGATAGAGCATACTACAAGGACATAAAAAATGCAAAGA
ACATAAAAACAAGGCTCGGATGCA
Found at i:87092364 original size:40 final size:40
Alignment explanation
Indices: 87092319--87092486 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
87092309 CGGAATACAA
87092319 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
87092359 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
87092399 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
87092439 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
87092479 CCGGATAT
1 CCGGATAT
87092487 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:87100405 original size:40 final size:40
Alignment explanation
Indices: 87100360--87100527 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
87100350 CGGAATACAA
87100360 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
87100400 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
87100440 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
87100480 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
87100520 CCGGATAT
1 CCGGATAT
87100528 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:87106235 original size:20 final size:20
Alignment explanation
Indices: 87106212--87106290 Score: 131
Period size: 20 Copynumber: 4.0 Consensus size: 20
87106202 TAAACATGGT
87106212 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
87106232 ATGTATGCTATGCACATGAC
1 ATGTATGATATGCACATGAC
* *
87106252 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAC
87106272 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
87106291 TGTATTCATA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:87106424 original size:24 final size:24
Alignment explanation
Indices: 87106341--87106457 Score: 152
Period size: 23 Copynumber: 5.0 Consensus size: 24
87106331 GAGGAAGTCC
87106341 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
87106365 -AAAGGGCCTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
87106388 -AAA-GGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
87106410 AAAAGGGCTTTTGCCTCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
87106434 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
87106458 ATGATAAAGA
Statistics
Matches: 82, Mismatches: 7, Indels: 7
0.85 0.07 0.07
Matches are distributed among these distances:
22 18 0.22
23 28 0.34
24 26 0.32
25 10 0.12
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:87106686 original size:31 final size:31
Alignment explanation
Indices: 87106651--87106710 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
87106641 CGTTTACAGC
*
87106651 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGACCCAGTAATATGAAATATAA
**
87106682 AAAGGCTTCGACCCAGTGTTATGAAATAT
1 AAAGGCTTCGACCCAGTAATATGAAATAT
87106711 GAAATATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTAATATGAAATATAA
Found at i:87113722 original size:20 final size:20
Alignment explanation
Indices: 87113699--87113737 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
87113689 TAAACATGGT
87113699 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
87113719 ATGTATGCTATGCACATGA
1 ATGTATGATATGCACATGA
87113738 TGTATTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:87113856 original size:46 final size:47
Alignment explanation
Indices: 87113789--87113884 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
87113779 AGGAAGTGCA
87113789 AAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
*
87113835 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
87113882 AAA
1 AAA
87113885 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 23 0.48
47 25 0.52
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
Found at i:87113867 original size:24 final size:24
Alignment explanation
Indices: 87113788--87113891 Score: 176
Period size: 23 Copynumber: 4.4 Consensus size: 24
87113778 GAGGAAGTGC
87113788 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
87113812 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
87113835 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
87113858 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
87113882 AAAAGAGGCT
1 AAAAG-GGCT
87113892 AGGCGTCCAG
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
23 46 0.60
24 27 0.35
25 4 0.05
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:87114134 original size:31 final size:31
Alignment explanation
Indices: 87114099--87114158 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
87114089 CATTTACAGT
87114099 AAAGGCTTCGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATAA
* * **
87114130 AAAGGCTTTGGCCTAGTGCTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
87114159 GAAATATGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:87116502 original size:93 final size:93
Alignment explanation
Indices: 87116343--87116514 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
87116333 GGATGGTTGA
* * *
87116343 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
87116408 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
*
87116436 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
87116501 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
87116515 TTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:87116521 original size:46 final size:46
Alignment explanation
Indices: 87116347--87116513 Score: 203
Period size: 46 Copynumber: 3.6 Consensus size: 46
87116337 GGTTGAGCAT
* * *
87116347 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGC
*** * * *
87116393 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATACGAACGC
87116438 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGC
*
87116486 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC
87116514 GTTTATGGGC
Statistics
Matches: 101, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
45 2 0.02
46 61 0.60
47 35 0.35
48 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGC
Found at i:87123483 original size:46 final size:45
Alignment explanation
Indices: 87123433--87123606 Score: 203
Period size: 46 Copynumber: 3.8 Consensus size: 45
87123423 TGGTTGAGCA
87123433 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
87123479 TCCGAACTCGTTGAGTTGAGT-CGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
87123525 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
87123571 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCA-TTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
87123607 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 14 0.13
46 78 0.72
47 8 0.07
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:87123587 original size:92 final size:93
Alignment explanation
Indices: 87123430--87123599 Score: 306
Period size: 92 Copynumber: 1.8 Consensus size: 93
87123420 GGATGGTTGA
* *
87123430 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87123495 TGAGT-CGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
*
87123522 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87123587 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
87123600 ATTATGGGCG
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 67 0.91
93 7 0.09
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:87126923 original size:30 final size:31
Alignment explanation
Indices: 87126847--87126929 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
87126837 TCAGTCTCGA
87126847 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
87126877 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
87126908 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
87126930 ACTGTAAGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:87127256 original size:26 final size:26
Alignment explanation
Indices: 87127135--87127268 Score: 163
Period size: 25 Copynumber: 5.3 Consensus size: 26
87127125 CTGGAAGCCT
87127135 AGCCTCTTTT-AAT-AACT-GGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
87127158 AGCCCTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
87127183 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* **
87127209 A-CCCTTTCCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
87127234 AGCCTTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
87127260 AGCCCTTTT
1 AGCCCTTTT
87127269 GCACTTCCTC
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
22 5 0.05
23 5 0.05
24 4 0.04
25 50 0.53
26 30 0.32
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:87127258 original size:51 final size:51
Alignment explanation
Indices: 87127135--87127267 Score: 195
Period size: 51 Copynumber: 2.7 Consensus size: 51
87127125 CTGGAAGCCT
*
87127135 AGCCTCTTTT-AAT-AACT-GGGCA-AAGCCCTTTTCGGTAAACTGGGGCAA
1 AGCCT-TTTTCAATAAACTGGGGCATAAGCCCTTTCCGGTAAACTGGGGCAA
*
87127183 AGCCCTTTTCAATAAACTGGGGCATAA-CCCTTTCCGGTAAACTGGGGCATA
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTCCGGTAAACTGGGGCA-A
87127234 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTT
1 AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTT
87127268 TGCACTTCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
47 4 0.05
48 7 0.09
49 4 0.05
50 26 0.34
51 29 0.38
52 6 0.08
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (51 bp):
AGCCTTTTTCAATAAACTGGGGCATAAGCCCTTTCCGGTAAACTGGGGCAA
Found at i:87127347 original size:20 final size:20
Alignment explanation
Indices: 87127318--87127404 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
87127308 TTATGAATAC
*
87127318 ATCATCTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
87127338 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
*
87127358 ATCATGTGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
* *
87127378 ACCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
87127398 ATCATGT
1 ATCATGT
87127405 ATATCATATC
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
20 58 0.97
21 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:87128142 original size:27 final size:27
Alignment explanation
Indices: 87128112--87128176 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
87128102 GGGCATATTC
87128112 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
87128139 GTCACTTTACCCTACACGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
87128166 GTCTTTTTACC
1 GTCATTTTACC
87128177 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:87128250 original size:27 final size:27
Alignment explanation
Indices: 87128207--87128340 Score: 137
Period size: 27 Copynumber: 5.0 Consensus size: 27
87128197 TTTCATCCTA
* * *
87128207 CAAGGGTGTTTTGGTAAATCTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
**
87128234 CAAGGGTATTTCT-GTAATTTTGTAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
87128261 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** * *
87128288 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
87128314 CTAGTGGTATTTTGGTAATTTTACAAA
1 CAAG-GGTATTTTGGTAATTTTACAAA
87128341 CTAGGGGTGT
Statistics
Matches: 87, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
26 3 0.03
27 83 0.95
28 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:87128323 original size:54 final size:54
Alignment explanation
Indices: 87128210--87128340 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 54
87128200 CATCCTACAA
* * * * ***
87128210 GGGTGTTTTGGTAAATCTACAAATCAAGGGTATTTCTGTAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAATCAG
**
87128264 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAATC-AG
*
87128318 TGGTATTTTGGTAATTTTACAAA
1 GGGTATTTTGGTAATTTTACAAA
87128341 CTAGGGGTGT
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 65 0.98
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCGGTAATTTCACAAATCAG
Found at i:87128341 original size:27 final size:26
Alignment explanation
Indices: 87128209--87128360 Score: 128
Period size: 27 Copynumber: 5.7 Consensus size: 26
87128199 TCATCCTACA
* * * *
87128209 AGGGTGTTTTGGTAAATCTACAAATCA
1 AGGGTATTTTGGTAATTTTACAAA-CT
**
87128236 AGGGTATTTCT-GTAATTTTGTAAA-T
1 AGGGTATTT-TGGTAATTTTACAAACT
*
87128261 CAGGGGTATTTTGGTAATTTTACAAATT
1 -A-GGGTATTTTGGTAATTTTACAAACT
* *
87128289 GAGGGTATTTCGGTAATTTCACAAACT
1 -AGGGTATTTTGGTAATTTTACAAACT
87128316 AGTGGTATTTTGGTAATTTTACAAACT
1 AG-GGTATTTTGGTAATTTTACAAACT
* *
87128343 AGGGGTGTTTTGATAATT
1 A-GGGTATTTTGGTAATT
87128361 CTACCCTATA
Statistics
Matches: 102, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
26 4 0.04
27 94 0.92
28 4 0.04
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (26 bp):
AGGGTATTTTGGTAATTTTACAAACT
Found at i:87128430 original size:27 final size:27
Alignment explanation
Indices: 87128392--87128482 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
87128382 GTAATTTCAC
* * *
87128392 AATCGAGAGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
* * *
87128419 AATCAAGGGT-AAACAGCAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
87128445 AATCGAGGGTAAAACAATAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
87128472 AATCGAGGGTA
1 AATCGAGGGTA
87128483 CTTTGGTAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 21 0.40
27 32 0.60
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:87128492 original size:27 final size:27
Alignment explanation
Indices: 87128462--87128658 Score: 112
Period size: 27 Copynumber: 7.2 Consensus size: 27
87128452 GGTAAAACAA
*
87128462 TAATTCTATAAATCGAGGGTACTTTGG
1 TAATTTTATAAATCGAGGGTACTTTGG
**
87128489 TAATTTT-TACAAGTCGAGGGTA-TTTCAA
1 TAATTTTATA-AA-TCGAGGGTACTTT-GG
* * * *
87128517 TAATTTTACAAATCAGGGGGTATTTTAG
1 TAATTTTATAAATC-GAGGGTACTTTGG
* * * *
87128545 TAATTTTACAAA-CCAGGGGTATTTTAG
1 TAATTTTATAAATCGA-GGGTACTTTGG
* ***
87128572 TAATTTTGTAAATCGAGGGTAAAATGG
1 TAATTTTATAAATCGAGGGTACTTTGG
** ****
87128599 TAATTCCATAAATCGAGGGTAGAACGG
1 TAATTTTATAAATCGAGGGTACTTTGG
* * *
87128626 TAATTTTGTAAATTGGGGGTACTTTGG
1 TAATTTTATAAATCGAGGGTACTTTGG
87128653 TAATTT
1 TAATTT
87128659 GGTAAATTAA
Statistics
Matches: 133, Mismatches: 29, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
26 2 0.02
27 88 0.66
28 39 0.29
29 4 0.03
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (27 bp):
TAATTTTATAAATCGAGGGTACTTTGG
Found at i:87128519 original size:55 final size:54
Alignment explanation
Indices: 87128459--87128592 Score: 144
Period size: 55 Copynumber: 2.4 Consensus size: 54
87128449 GAGGGTAAAA
* * **
87128459 CAATAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACAAGTC-GAGGGTATTT
1 CAATAATTTTATAAATCGAGGGTACTTTAGTAA-TTTTACAAACCAG-GGGTATTT
* * *
87128514 CAATAATTTTACAAATCAGGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTT
1 CAATAATTTTATAAATC-GAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTT
* * *
87128569 TAGTAATTTTGTAAATCGAGGGTA
1 CAATAATTTTATAAATCGAGGGTA
87128593 AAATGGTAAT
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
54 6 0.09
55 45 0.69
56 14 0.22
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (54 bp):
CAATAATTTTATAAATCGAGGGTACTTTAGTAATTTTACAAACCAGGGGTATTT
Found at i:87130405 original size:12 final size:12
Alignment explanation
Indices: 87130390--87130429 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
87130380 TGAAACTGGA
*
87130390 GGTACAACAGGT
1 GGTACAACAGGG
*
87130402 GGTATAACAGGG
1 GGTACAACAGGG
*
87130414 GGTACAATAGGG
1 GGTACAACAGGG
87130426 GGTA
1 GGTA
87130430 GAGGTTGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.10, G:0.40, T:0.17
Consensus pattern (12 bp):
GGTACAACAGGG
Found at i:87130776 original size:21 final size:21
Alignment explanation
Indices: 87130752--87130791 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
87130742 AACTGTAGCT
*
87130752 CTTTTATGATCTTCTGTTCAG
1 CTTTTATGAGCTTCTGTTCAG
87130773 CTTTTATGAGCTTCTGTTC
1 CTTTTATGAGCTTCTGTTC
87130792 GACGTATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.20, G:0.15, T:0.53
Consensus pattern (21 bp):
CTTTTATGAGCTTCTGTTCAG
Found at i:87137819 original size:40 final size:40
Alignment explanation
Indices: 87137745--87137887 Score: 151
Period size: 40 Copynumber: 3.6 Consensus size: 40
87137735 CCACACCAAG
* * * * * * *
87137745 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAC
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
87137785 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
87137825 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
**
87137865 GCCTTCGGGTCTTAATCCGGATA
1 GCCTTCGGGTCTTAGCCCGGATA
87137888 AAATTTTCAG
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:87159828 original size:39 final size:39
Alignment explanation
Indices: 87159724--87159996 Score: 431
Period size: 39 Copynumber: 7.0 Consensus size: 39
87159714 CAAGACACCA
* *
87159724 GAAATGCATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTA
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
87159763 GAAATGTATCC-GGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
87159801 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * **
87159840 GAAATGTATCCGGGCTAAAGTCTCGCAGGCTTCCTATTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
87159879 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTACTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
87159918 GAAATGTATACGGGCTAAAGTCCCGCAGGCTTCTTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * *
87159957 GAAATGTATCCGAGCTAAAGTCCCGTAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
87159996 G
1 G
87159997 TAATATAATT
Statistics
Matches: 216, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
38 37 0.17
39 179 0.83
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.25
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:87163217 original size:23 final size:24
Alignment explanation
Indices: 87163167--87163221 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
87163157 CTTATCATAA
* * *
87163167 GAAGCTCACACAGAGCCATTTCGG
1 GAAGCTTACAAAGAGCCATATCGG
87163191 GAAGCTTACAAAGAGCC-TATCGG
1 GAAGCTTACAAAGAGCCATATCGG
87163214 GAAGCTTA
1 GAAGCTTA
87163222 TTTAGGATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.33, C:0.24, G:0.25, T:0.18
Consensus pattern (24 bp):
GAAGCTTACAAAGAGCCATATCGG
Found at i:87171007 original size:12 final size:12
Alignment explanation
Indices: 87170992--87171016 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87170982 TTATCCTCAC
87170992 TTTTTTATTATT
1 TTTTTTATTATT
87171004 TTTTTTATTATT
1 TTTTTTATTATT
87171016 T
1 T
87171017 ACTTAGTTAT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTATTATT
Found at i:87173148 original size:45 final size:45
Alignment explanation
Indices: 87173096--87173228 Score: 221
Period size: 45 Copynumber: 3.0 Consensus size: 45
87173086 CGATTTCATT
* *
87173096 TCACCGGCATTATAGCCTACTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
87173141 TCACCGGCATTATAACCTGCTAGGCTTAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
87173186 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
87173229 CCGTACAATA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 81 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:87175002 original size:27 final size:27
Alignment explanation
Indices: 87174967--87175030 Score: 94
Period size: 28 Copynumber: 2.4 Consensus size: 27
87174957 AGCATGGCTT
*
87174967 CCAGAACAGATAAT-GTGACAGAGTCA
1 CCAGAACAGATAATCGTGACAGAGCCA
*
87174993 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATCGTGACAGAGCCA
87175021 CCAGAACAGA
1 CCAGAACAGA
87175031 AATATATGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 5 0.15
27 14 0.41
28 15 0.44
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.12
Consensus pattern (27 bp):
CCAGAACAGATAATCGTGACAGAGCCA
Found at i:87176097 original size:27 final size:27
Alignment explanation
Indices: 87176066--87176283 Score: 172
Period size: 27 Copynumber: 8.0 Consensus size: 27
87176056 GAATACTTTA
*
87176066 GTTTACCAAATTACCAAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCTTG
*
87176093 GTTTACAAAATTACCAAAATACCCCTG
1 GTTTACAAAATTACCAAAATACCCTTG
** * * *
87176120 GTTTGTAAATTTACTAAAATACCCTTT
1 GTTTACAAAATTACCAAAATACCCTTG
* *
87176147 GTTTATAAAATTACCAAAATACCCCTG
1 GTTTACAAAATTACCAAAATACCCTTG
* *
87176174 ATTTACAAAGTTA-CAGAAATACCCTTG
1 GTTTACAAAATTACCA-AAATACCCTTG
* * *
87176201 ACTTT-CTAAAAATTA-TAGAAATACCATTG
1 -GTTTAC--AAAATTACCA-AAATACCCTTG
***
87176230 GTTTACAAAATTATTGAAATACCCTTG
1 GTTTACAAAATTACCAAAATACCCTTG
** * * *
87176257 GTTTGTAGATTTACCAAAACACCCTTG
1 GTTTACAAAATTACCAAAATACCCTTG
87176284 TAGGATGAAA
Statistics
Matches: 153, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.01
27 125 0.82
28 7 0.05
29 19 0.12
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
GTTTACAAAATTACCAAAATACCCTTG
Found at i:87177183 original size:26 final size:26
Alignment explanation
Indices: 87177154--87177226 Score: 121
Period size: 26 Copynumber: 2.8 Consensus size: 26
87177144 GAGGAAGTGC
*
87177154 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
87177180 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
87177206 AAAAGGGCCTT-TGCCCCAGTT
1 AAAAGGG-CTTATGCCCCAGTT
87177227 ATAAAAGAGG
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 42 0.93
27 3 0.07
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:87177480 original size:31 final size:31
Alignment explanation
Indices: 87177445--87177504 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
87177435 CGTTTACAGT
*
87177445 AAAGGCTTTGGCCCAGTAATATGAAATATAA
1 AAAGGCTTCGGCCCAGTAATATGAAATATAA
**
87177476 AAAGGCTTCGGCCCAGTGTTATGAAATAT
1 AAAGGCTTCGGCCCAGTAATATGAAATAT
87177505 GAAATATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATAA
Found at i:87179709 original size:24 final size:24
Alignment explanation
Indices: 87179677--87179750 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
87179667 ACACAGTTCA
*
87179677 CCCTAATCAGCTCCTAAATTCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
*
87179701 CCCTGATCAGCTCCTAAATCCTCT
1 CCCTAATCAGCTCCTAAATCCTCT
* * *
87179725 CCCTTATCAACTCCTAAATCTTCT
1 CCCTAATCAGCTCCTAAATCCTCT
87179749 CC
1 CC
87179751 AGACAGACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.23, C:0.41, G:0.04, T:0.32
Consensus pattern (24 bp):
CCCTAATCAGCTCCTAAATCCTCT
Found at i:87186055 original size:27 final size:26
Alignment explanation
Indices: 87186020--87186131 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
87186010 AGCATGGCTG
** *
87186020 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
87186046 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
87186074 CCAGAACAAAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
87186101 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
87186128 CCAG
1 CCAG
87186132 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:87189290 original size:29 final size:29
Alignment explanation
Indices: 87189257--87189314 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
87189247 GTGACGAGAT
87189257 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
87189286 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
87189315 CGCACTGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:87193739 original size:25 final size:25
Alignment explanation
Indices: 87193711--87193813 Score: 107
Period size: 25 Copynumber: 4.1 Consensus size: 25
87193701 ACGAACTGTG
* *
87193711 AATCGGTATGGTCTCTCAAGCTATA
1 AATCGGTATGCTCTCACAAGCTATA
** *
87193736 AATCGGTATGCTCTCATGAGCTGTA
1 AATCGGTATGCTCTCACAAGCTATA
* * * * *
87193761 AATTGGTATACTTTCACGAGCTGTA
1 AATCGGTATGCTCTCACAAGCTATA
*
87193786 AATCGGTATGCTCTCACAAACTATA
1 AATCGGTATGCTCTCACAAGCTATA
87193811 AAT
1 AAT
87193814 TAGTAATCTC
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.32
Consensus pattern (25 bp):
AATCGGTATGCTCTCACAAGCTATA
Found at i:87193769 original size:50 final size:50
Alignment explanation
Indices: 87193706--87193801 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
87193696 CTCATACGAA
* ** *
87193706 CTGTGAATCGGTATGGTCTCTCAAGCTATAAATCGGTATGCTCTCATGAG
1 CTGTAAATCGGTATACTCTCACAAGCTATAAATCGGTATGCTCTCATGAG
* * * *
87193756 CTGTAAATTGGTATACTTTCACGAGCTGTAAATCGGTATGCTCTCA
1 CTGTAAATCGGTATACTCTCACAAGCTATAAATCGGTATGCTCTCA
87193802 CAAACTATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 38 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
CTGTAAATCGGTATACTCTCACAAGCTATAAATCGGTATGCTCTCATGAG
Found at i:87193832 original size:50 final size:48
Alignment explanation
Indices: 87193722--87193834 Score: 120
Period size: 50 Copynumber: 2.3 Consensus size: 48
87193712 ATCGGTATGG
* ** * * *
87193722 TCTCTCA-AGCTATAAATCGGTATGCTCTCATGAGCTGTAAATTGGTA
1 TCTCTCAGAGCTGTAAATCGGTATGCTCTCACAAACTATAAATTAGTA
*
87193769 TACTTTCACGAGCTGTAAATCGGTATGCTCTCACAAACTATAAATTAGTAA
1 T-CTCTCA-GAGCTGTAAATCGGTATGCTCTCACAAACTATAAATTAGT-A
87193820 TCTCTCATGAGCTGT
1 TCTCTCA-GAGCTGT
87193835 GGTATGTCCA
Statistics
Matches: 53, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
47 1 0.02
48 5 0.09
50 45 0.85
51 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (48 bp):
TCTCTCAGAGCTGTAAATCGGTATGCTCTCACAAACTATAAATTAGTA
Found at i:87194268 original size:46 final size:46
Alignment explanation
Indices: 87194164--87194258 Score: 163
Period size: 47 Copynumber: 2.0 Consensus size: 46
87194154 GCACATAATT
* *
87194164 CAACTAATTTAATCCAAACATATTTTTGCAAAATTACCATTTTTTC
1 CAACCAATTTAATCCAAACATATTTTTGCAAAATTACCATTTTCTC
87194210 CAACCAATTTAATCCAAAACATATTTTTGCAAAATTACCATTTTCTC
1 CAACCAATTTAATCC-AAACATATTTTTGCAAAATTACCATTTTCTC
87194257 CA
1 CA
87194259 TACTTTTAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
46 14 0.30
47 32 0.70
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (46 bp):
CAACCAATTTAATCCAAACATATTTTTGCAAAATTACCATTTTCTC
Found at i:87194649 original size:24 final size:24
Alignment explanation
Indices: 87194617--87194666 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
87194607 GATTAAGCTA
87194617 CAGTGATCCCGAAAACATAAAAAT
1 CAGTGATCCCGAAAACATAAAAAT
87194641 CAGTGATCCCGAAAACATAAAAAT
1 CAGTGATCCCGAAAACATAAAAAT
87194665 CA
1 CA
87194667 TCAAAAACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.22, G:0.12, T:0.16
Consensus pattern (24 bp):
CAGTGATCCCGAAAACATAAAAAT
Found at i:87197975 original size:48 final size:48
Alignment explanation
Indices: 87197904--87198009 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
87197894 CAAGATAAAT
* * *
87197904 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
87197952 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
87198000 ATGTGTATAT
1 ATATGTATAT
87198010 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:87198193 original size:37 final size:37
Alignment explanation
Indices: 87198143--87198214 Score: 126
Period size: 37 Copynumber: 1.9 Consensus size: 37
87198133 GAAATATATT
*
87198143 CCGGGTAAGACCCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
87198180 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
87198215 TCGAGCTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.22, C:0.21, G:0.35, T:0.22
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:87199975 original size:43 final size:43
Alignment explanation
Indices: 87199907--87200114 Score: 366
Period size: 43 Copynumber: 4.9 Consensus size: 43
87199897 GCATGAAACT
*
87199907 CGGTGATGTGTATTC-GGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
**
87199949 CAATGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
87199992 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
87200035 CGGTGATATGTATTC-GGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
87200077 CGGTGATATGTATTCGGGTCTTCGTGCCTAGCAGGCTT
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTT
87200115 AATGCGGTGA
Statistics
Matches: 158, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
42 54 0.34
43 104 0.66
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (43 bp):
CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:87200064 original size:85 final size:86
Alignment explanation
Indices: 87199907--87200114 Score: 366
Period size: 85 Copynumber: 2.4 Consensus size: 86
87199897 GCATGAAACT
*
87199907 CGGTGATGTGTATTC-GGCCTTCGTGCCTAGCAGGCTTCGTGCCAATGATATGTATTCGGGCCTT
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAATGATATGTATTCGGGCCTT
87199971 CGTGCCTAGCAGGCTTCGTGC
66 CGTGCCTAGCAGGCTTCGTGC
**
87199992 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATATGTATTC-GGCCTT
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAATGATATGTATTCGGGCCTT
87200056 CGTGCCTAGCAGGCTTCGTGC
66 CGTGCCTAGCAGGCTTCGTGC
*
87200077 CGGTGATATGTATTCGGGTCTTCGTGCCTAGCAGGCTT
1 CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTT
87200115 AATGCGGTGA
Statistics
Matches: 118, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
85 78 0.66
86 40 0.34
ACGTcount: A:0.12, C:0.25, G:0.31, T:0.31
Consensus pattern (86 bp):
CGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAATGATATGTATTCGGGCCTT
CGTGCCTAGCAGGCTTCGTGC
Found at i:87200343 original size:29 final size:28
Alignment explanation
Indices: 87200305--87200386 Score: 87
Period size: 28 Copynumber: 2.9 Consensus size: 28
87200295 AAATTCCGTT
87200305 AACCGAGCACTATGTGTGCGAGATCAGT-
1 AACCGAGCACTATGTGTGCGAGATC-GTC
** * * *
87200333 AATTGAGGCACTGTGTGT-CGAGTTCTTC
1 AACCGA-GCACTATGTGTGCGAGATCGTC
87200361 AACCGAGCACTATGTGTGCGAGATCG
1 AACCGAGCACTATGTGTGCGAGATCG
87200387 GTCAGTGGGC
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
27 11 0.27
28 20 0.49
29 10 0.24
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (28 bp):
AACCGAGCACTATGTGTGCGAGATCGTC
Found at i:87203791 original size:48 final size:48
Alignment explanation
Indices: 87203720--87203825 Score: 176
Period size: 48 Copynumber: 2.2 Consensus size: 48
87203710 CAAGATAAAT
* * *
87203720 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
87203768 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
87203816 ATGTGTATAT
1 ATATGTATAT
87203826 ATTGTGGCCG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:87204005 original size:36 final size:37
Alignment explanation
Indices: 87203958--87204028 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
87203948 GAAATATATT
*
87203958 CCGGGTAAGA-CCGATGGCTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
*
87203994 CCGGGTAAGACCCGATGACTACGTGTGGGGATTAT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTAT
87204029 TCGAGCTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 10 0.31
37 22 0.69
ACGTcount: A:0.23, C:0.20, G:0.35, T:0.23
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
Found at i:87210255 original size:16 final size:16
Alignment explanation
Indices: 87210234--87210269 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
87210224 GTAGATCGGT
*
87210234 AAATCCTAAAAAGCCG
1 AAATCCTAAAAAGCCA
*
87210250 AAATCCTGAAAAGCCA
1 AAATCCTAAAAAGCCA
87210266 AAAT
1 AAAT
87210270 GTCGAAAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.22, G:0.11, T:0.14
Consensus pattern (16 bp):
AAATCCTAAAAAGCCA
Found at i:87214814 original size:28 final size:28
Alignment explanation
Indices: 87214721--87214827 Score: 92
Period size: 28 Copynumber: 3.8 Consensus size: 28
87214711 CTATAAATAC
* *
87214721 GATTCAGGCCTAGT-GGCCATATGAATGT
1 GATT-AGGCCTAATGGGCCATATGAAAGT
* **
87214749 GATTTGGGCCTAATGGGCCGCAT-AAATGT
1 GA-TTAGGCCTAATGGGCCATATGAAA-GT
* * *
87214778 GAATGGGCCTAATGGGCCATATGAAAGA
1 GATTAGGCCTAATGGGCCATATGAAAGT
*
87214806 GATTAGGCCTAGTGGGCCATAT
1 GATTAGGCCTAATGGGCCATAT
87214828 ATATAGGTAT
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 48 0.76
29 15 0.24
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (28 bp):
GATTAGGCCTAATGGGCCATATGAAAGT
Found at i:87216989 original size:72 final size:68
Alignment explanation
Indices: 87216893--87217025 Score: 169
Period size: 68 Copynumber: 1.9 Consensus size: 68
87216883 TGATTAAACT
*
87216893 TAATCACTTTAATATTAAAATAATAGAATAT-TTATCTACAAGATAAACAATAAATTAAATTTAA
1 TAATAACTTTAATATTAAAATAATA-AA-ATCTTAT-T--AAGATAAACAATAAATTAAATTTAA
87216957 TAGTAAGA
61 TAGTAAGA
* ** *
87216965 TAATAACTTTAATATTAAATTAATAAAATCTTATTAAGATAAGTATTAAATTAAATTTAAT
1 TAATAACTTTAATATTAAAATAATAAAATCTTATTAAGATAAACAATAAATTAAATTTAAT
87217026 CTTAAAACTT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
68 23 0.42
70 3 0.05
71 6 0.11
72 23 0.42
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (68 bp):
TAATAACTTTAATATTAAAATAATAAAATCTTATTAAGATAAACAATAAATTAAATTTAATAGTA
AGA
Found at i:87221929 original size:43 final size:43
Alignment explanation
Indices: 87221780--87221992 Score: 218
Period size: 43 Copynumber: 5.0 Consensus size: 43
87221770 CATAAGCTTG
* * * * * *
87221780 TACAATGCC-ATATCCCAAATATGGTCTTACATGTTATCA-TA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* * * * *
87221821 TATCGATGCCACTGTCACAGACAGGGTCTTACACG-AATTA-ATA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA-A
* *
87221864 TACGATGCCAATGTCCCAGACATGGTCTTACACATAATCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
* * * *
87221907 TACAATGCCAATATCCCTGACATGGACTTACGCGTAATCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
*
87221950 TACAATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
87221993 CTCGATAACA
Statistics
Matches: 140, Mismatches: 27, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
41 2 0.01
42 37 0.26
43 100 0.71
44 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.26
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
Found at i:87227149 original size:46 final size:46
Alignment explanation
Indices: 87227006--87227173 Score: 200
Period size: 46 Copynumber: 3.7 Consensus size: 46
87226996 CGCCCCTAAT
* * *
87227006 TGAATTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
* * *
87227052 TGAACTCGGACTCAACTCAACGAGTTCAGATGCTAGTT-GCAT--TTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGA--C-A-TTCGCATCCATAAG
* *
87227098 CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
87227144 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
87227174 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 1 0.01
45 2 0.02
46 81 0.80
47 2 0.02
48 1 0.01
49 5 0.05
50 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
Found at i:87232629 original size:46 final size:46
Alignment explanation
Indices: 87232473--87232641 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
87232463 CGCCTCTAAT
* * * * *
87232473 TGAATTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
* * * *
87232519 TGAACTCGGACTGAACTCAACGAGTTCGGATGCCTAGTT-ACAT--TTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAG
*
87232566 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
87232612 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
87232642 TGCTCAACCA
Statistics
Matches: 99, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 54 0.55
47 28 0.28
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAG
Found at i:87236068 original size:79 final size:81
Alignment explanation
Indices: 87235967--87236151 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
87235957 ACGACTCGCT
** * *
87235967 CAAATGCCTTCGGGACGAAGCCCGG-TTATAGTGACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCTTC-GGATCCTAACCC
* *
87236030 GGGTTTAGTAACTT-GCA
64 GGATATAGTAACTTAGCA
* **
87236047 CAAATGCCTTCGGG-CTTAGCCCGGATTTATTAACTCGCACGAATGCCTTCGGATCCTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
*
87236111 ATATAGTCACTTAGCA
66 ATATAGTAACTTAGCA
87236127 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
87236152 CATCATTCGA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCTTCGGATCCTAACCCGG
ATATAGTAACTTAGCA
Found at i:87236151 original size:40 final size:39
Alignment explanation
Indices: 87235960--87236151 Score: 163
Period size: 40 Copynumber: 4.8 Consensus size: 39
87235950 GGATATAACG
* ** * *
87235960 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGGTTATAGTG
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
87236000 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* * *
87236040 ACTTGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
87236079 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
87236119 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
87236152 CATCATTCGA
Statistics
Matches: 121, Mismatches: 24, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 79 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:87238602 original size:41 final size:41
Alignment explanation
Indices: 87238556--87238644 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
87238546 CTGACTTGGG
* *
87238556 TCACACGG-CTAGCCACACACCCATGTGGCAGCCCGTGTGCC
1 TCACACGGTC-AGCCACACACCCATGTGCCAGCCAGTGTGCC
* * *
87238597 TCACACAGTCGGCCACACTCCCATGTGCCAGCCAGTGTGCC
1 TCACACGGTCAGCCACACACCCATGTGCCAGCCAGTGTGCC
87238638 TCACACG
1 TCACACG
87238645 ACCAGTAGAC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 40 0.98
42 1 0.02
ACGTcount: A:0.20, C:0.42, G:0.22, T:0.16
Consensus pattern (41 bp):
TCACACGGTCAGCCACACACCCATGTGCCAGCCAGTGTGCC
Found at i:87242396 original size:6 final size:6
Alignment explanation
Indices: 87242378--87242434 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
87242368 AAGAAACATT
* *
87242378 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
87242427 ATCAGA AT
1 ATCAGA AT
87242435 GTGAATGCAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
5 3 0.07
6 34 0.81
7 3 0.07
8 2 0.05
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:87242884 original size:27 final size:27
Alignment explanation
Indices: 87242836--87243193 Score: 325
Period size: 27 Copynumber: 13.3 Consensus size: 27
87242826 GGGGCAAAAT
* *
87242836 GGTAATTTTACCCCAC-GAGGGT-TTCTC
1 GGTAATTCTACCCTACAG-GGGTATT-TC
87242863 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
87242890 AGT-ATTCCTACCCTACAAGGGTATTTC
1 GGTAATT-CTACCCTACAGGGGTATTTC
*
87242917 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** *
87242944 AGTAATTCTACCCTACAAAGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
87242971 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
87242998 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
87243025 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** **
87243052 GGTAATT-T-CACAAACCAATGGTATTTC
1 GGTAATTCTAC-CCTA-CAGGGGTATTTC
* ** * *
87243079 GGTAATTTTA-CAAACTAGGGATATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* ** *
87243106 GGTAATTTTA-CAAACTAGGGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
*
87243133 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
87243160 AGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
87243187 GATAATT
1 GGTAATT
87243194 TTACAAATCG
Statistics
Matches: 288, Mismatches: 33, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.00
26 7 0.02
27 270 0.94
28 10 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:87243235 original size:108 final size:107
Alignment explanation
Indices: 87242908--87243274 Score: 284
Period size: 108 Copynumber: 3.4 Consensus size: 107
87242898 TACCCTACAA
** ** * *
87242908 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAA-TTCTACCCTA-CAAAGGTATTTT
1 GGGTATTTTGGTAATTCTA-CCTACAGGGGTATTTCAGTAATTTC-A-CAAACCAAGGGTATTTC
* ** * * * * **
87242971 GATAATTCTACCCTAC-AGGGGTATTTCGATAATTCTACCCTAC-AG
63 GATAATTTTA-CAAACGAGGGATATTTGGGTAATTTTA-CAAACTAG
* * * *
87243016 GGGTATTTTGGTAATTCTACCCTACAAGGGTATTTCGGTAATTTCACAAACCAATGGTATTTCGG
1 GGGTATTTTGGTAATTCTA-CCTACAGGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTCGA
* *
87243081 TAATTTTACAAACTAGGGATATTTTGGTAATTTTACAAACTAG
65 TAATTTTACAAACGAGGGATATTTGGGTAATTTTACAAACTAG
* ** *
87243124 GGGTATTTTGGTAATTCTACCTTACAGGGGTATTTCAGTAATTTTACCTTA-CAGGGGTATTTCG
1 GGGTATTTTGGTAATTCTACC-TACAGGGGTATTTCAGTAATTTCA-CAAACCAAGGGTATTTCG
** *
87243188 ATAATTTTACAAATCGA-GGATATTTGGGTAATTTTTTAAA-TCGG
64 ATAATTTTACAAA-CGAGGGATATTTGGGTAATTTTACAAACT-AG
* * *
87243232 GGGTACTTTGGTAAATT-TA-CAACTGGGGGTATTTCAGTAATTT
1 GGGTATTTTGGT-AATTCTACCTAC-AGGGGTATTTCAGTAATTT
87243275 GGTAAACTAA
Statistics
Matches: 215, Mismatches: 34, Indels: 21
0.80 0.13 0.08
Matches are distributed among these distances:
106 2 0.01
107 30 0.14
108 172 0.80
109 11 0.05
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.38
Consensus pattern (107 bp):
GGGTATTTTGGTAATTCTACCTACAGGGGTATTTCAGTAATTTCACAAACCAAGGGTATTTCGAT
AATTTTACAAACGAGGGATATTTGGGTAATTTTACAAACTAG
Found at i:87246270 original size:27 final size:29
Alignment explanation
Indices: 87246240--87246295 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
87246230 TAGGGCAAGA
87246240 AATGA-ATTTAATGA-G-TGTTGGAGCATG
1 AATGACATTTAA-GAGGATGTTGGAGCATG
*
87246267 AATGACATTTAAGAGGATGTTGGTGCATG
1 AATGACATTTAAGAGGATGTTGGAGCATG
87246296 GTCAAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 7 0.28
28 7 0.28
29 11 0.44
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.32
Consensus pattern (29 bp):
AATGACATTTAAGAGGATGTTGGAGCATG
Found at i:87252996 original size:29 final size:29
Alignment explanation
Indices: 87252964--87253024 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 29
87252954 CTTGTCCACA
* **
87252964 ATGTGTTATGCGTCTGTTTATTAACATAT
1 ATGTGTTATGCGGCCATTTATTAACATAT
*
87252993 A--TGTTATGTGGCCATTTATTAACATAT
1 ATGTGTTATGCGGCCATTTATTAACATAT
87253020 ATGTG
1 ATGTG
87253025 GTGGCTTGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
27 23 0.88
29 3 0.12
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (29 bp):
ATGTGTTATGCGGCCATTTATTAACATAT
Found at i:87258008 original size:50 final size:51
Alignment explanation
Indices: 87257889--87258020 Score: 167
Period size: 52 Copynumber: 2.6 Consensus size: 51
87257879 GTTGTGAGAA
* ** **
87257889 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACAAAATGG-TTTAGGT
* * *
87257941 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGG-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACAAAATGGTTTAGGT
*
87257991 CGCATGTGTAGTACTAAGTGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
87258021 TGCGTACCTG
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
50 34 0.49
52 36 0.51
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACATGTACAAAATGGTTTAGGT
Found at i:87258028 original size:50 final size:50
Alignment explanation
Indices: 87257889--87258077 Score: 200
Period size: 50 Copynumber: 3.7 Consensus size: 50
87257879 GTTGTGAGAA
* *** *
87257889 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGG--TTAGGT
* **
87257941 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGT
* * * * *
87257991 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAGCTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GGTT-AGGT
* *
87258042 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTA
87258078 AAAGATAGCT
Statistics
Matches: 115, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
50 42 0.37
51 36 0.31
52 37 0.32
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGT
Found at i:87258102 original size:51 final size:51
Alignment explanation
Indices: 87257996--87258171 Score: 165
Period size: 51 Copynumber: 3.5 Consensus size: 51
87257986 TAGGTCGCAT
* * * *** ** * *
87257996 GTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAGCTTCAATCACAT
1 GTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATTACAA
*
87258047 GTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGGTTACAA
1 GTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATTACAA
* * * * * *
87258098 GTGTGGTACCATGTGAAGGTCACTTTGTG-AAGAAGATAGCTTTGACTACAA
1 GTGTGGTACTAAGTGCAGGCCACTATGTGTAA-AAGATAGCTTTGATTACAA
* *
87258149 GGGTGGTACTATGTGCAGGCCAC
1 GTGTGGTACTAAGTGCAGGCCAC
87258172 CGGGCATTCG
Statistics
Matches: 102, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 2 0.02
51 100 0.98
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (51 bp):
GTGTGGTACTAAGTGCAGGCCACTATGTGTAAAAGATAGCTTTGATTACAA
Found at i:87266672 original size:21 final size:21
Alignment explanation
Indices: 87266646--87266689 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
87266636 AAATTGAATG
*
87266646 AAAATATGTTTGAATGAGTTT
1 AAAATATGTTTGAATGAGCTT
*
87266667 AAAATATGTTTTAATGAGCTT
1 AAAATATGTTTGAATGAGCTT
87266688 AA
1 AA
87266690 TTTGAATATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (21 bp):
AAAATATGTTTGAATGAGCTT
Found at i:87267033 original size:16 final size:16
Alignment explanation
Indices: 87267012--87267042 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
87267002 GATATATGTG
87267012 TGCGAGTAAGACCATA
1 TGCGAGTAAGACCATA
87267028 TGCGAGTAAGACCAT
1 TGCGAGTAAGACCAT
87267043 GGCATCGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.19
Consensus pattern (16 bp):
TGCGAGTAAGACCATA
Found at i:87269346 original size:43 final size:43
Alignment explanation
Indices: 87269299--87269415 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 43
87269289 CCTCGATTGA
*
87269299 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCG-TATCT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGATAT-T
* **
87269342 GATTT-CGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATT
1 GATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGATATT
* * * **
87269384 GAATTACATGTAAGACCACGTCCAGGACATCG
1 GATTTACGTGTAAGACCATGTCTGGGACATCG
87269416 ACGTTGTACT
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 33 0.55
43 27 0.45
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGATATT
Found at i:87276068 original size:25 final size:25
Alignment explanation
Indices: 87276040--87276117 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
87276030 ACTCGGCCCT
*
87276040 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACATTCACATTC
** * *
87276065 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACATTC-ACATTC
*
87276087 ATCACATATATACACCTTCACATTC
1 ATCACATATATACACATTCACATTC
87276112 ATCACA
1 ATCACA
87276118 CCGGCCATTA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.29
23 5 0.13
24 5 0.13
25 17 0.45
ACGTcount: A:0.32, C:0.31, G:0.05, T:0.32
Consensus pattern (25 bp):
ATCACATATATACACATTCACATTC
Found at i:87276164 original size:49 final size:49
Alignment explanation
Indices: 87275990--87276773 Score: 1306
Period size: 49 Copynumber: 16.3 Consensus size: 49
87275980 CCCTTCGGGA
* * * * *
87275990 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
87276037 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
87276084 CTTATCAC--ATATATACACCTTCACATTCATCACACCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87276131 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
87276180 CTTATCACATATATATACACTTCCACTTTCATCTCATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87276229 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87276276 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87276325 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87276372 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
87276421 CTTATCACATATATAAACACTTTCACATTCATCTCATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87276470 CTTATCAC--ATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87276517 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87276566 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87276615 CTTATCACATATATA-ACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87276663 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
87276712 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
87276761 CTTATCACATATA
1 CTTATCACATATA
87276774 CTATCATGTA
Statistics
Matches: 701, Mismatches: 25, Indels: 20
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 225 0.32
48 48 0.07
49 427 0.61
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:87276187 original size:96 final size:96
Alignment explanation
Indices: 87275990--87276773 Score: 1258
Period size: 96 Copynumber: 8.1 Consensus size: 96
87275980 CCCTTCGGGA
* * * * * * *
87275990 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
87276053 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
87276084 CTTATCACATATATACACCTTCACATTCATCACACCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
87276149 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
87276180 CTTATCACATATATATACACTTCCACTTTCATCTCATCGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
87276243 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
87276276 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
87276339 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
87276372 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
87276437 ACACTTTCACATTCATCTCATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
87276470 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
87276535 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
87276566 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA-
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
87276630 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
87276663 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
87276728 ACACTTTCACATTCATCACATTGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
87276761 CTTATCACATATA
1 CTTATCACATATA
87276774 CTATCATGTA
Statistics
Matches: 653, Mismatches: 26, Indels: 20
0.93 0.04 0.03
Matches are distributed among these distances:
94 46 0.07
96 338 0.52
97 89 0.14
98 174 0.27
99 6 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:87276262 original size:145 final size:143
Alignment explanation
Indices: 87275990--87276773 Score: 1311
Period size: 145 Copynumber: 5.4 Consensus size: 143
87275980 CCCTTCGGGA
* * * * * *
87275990 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* * *
87276053 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACCTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
87276118 CCGGCCATTAGGC
131 TCGGCCATTAGGC
87276131 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* * *
87276196 ACACTTCCACTTTCATCTCATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
87276261 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
87276276 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
87276341 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
87276406 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
* *
87276421 CTTATCACATATATAAACACTTTCACATTCATCTCATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
87276486 ACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATACACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT--ACACTTTCACATTCATCA
87276551 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
*
87276566 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-A
87276631 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
65 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
87276696 ACATCGGCCATTAGGC
128 ACATCGGCCATTAGGC
*
87276712 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
87276774 CTATCATGTA
Statistics
Matches: 608, Mismatches: 24, Indels: 17
0.94 0.04 0.03
Matches are distributed among these distances:
141 10 0.02
142 1 0.00
143 88 0.14
145 370 0.61
146 133 0.22
148 6 0.01
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:87282639 original size:29 final size:29
Alignment explanation
Indices: 87282549--87282708 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
87282539 ACTCGATTTC
* * **
87282549 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
87282578 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
87282606 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
87282636 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
87282665 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
87282694 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
87282709 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:87291304 original size:40 final size:40
Alignment explanation
Indices: 87291210--87291452 Score: 350
Period size: 40 Copynumber: 6.2 Consensus size: 40
87291200 AATGATACCC
* * *
87291210 GGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCC-
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCG
87291249 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
87291289 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
*
87291329 GGCTAAGACCCAAAGGCATTTGTGCGAGTTGTTATATCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
* *
87291369 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCG
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
* * ** *
87291409 GGTTAAGACCC-AAGGCAATTGTGCTTGTGGTTATATCC-
1 GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
87291447 GGCTAA
1 GGCTAA
87291453 ATTCCGAAGA
Statistics
Matches: 187, Mismatches: 15, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
38 5 0.03
39 54 0.29
40 128 0.68
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCG
Found at i:87298377 original size:40 final size:38
Alignment explanation
Indices: 87298318--87298510 Score: 224
Period size: 39 Copynumber: 4.9 Consensus size: 38
87298308 TCGTTCAAAC
* * * *
87298318 GCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAAT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCAC-AAT
* *
87298358 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAAT
* *
87298397 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATT
1 -GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
* * *
87298436 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATTT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACA-AT
* *
87298475 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
87298511 TTCATACACA
Statistics
Matches: 138, Mismatches: 13, Indels: 5
0.88 0.08 0.03
Matches are distributed among these distances:
38 33 0.24
39 66 0.48
40 39 0.28
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (38 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAT
Found at i:87298469 original size:77 final size:78
Alignment explanation
Indices: 87298317--87298512 Score: 252
Period size: 77 Copynumber: 2.5 Consensus size: 78
87298307 CTCGTTCAAA
* * * * * *
87298317 CGCCTTCGGGACATAGCCCGGTTATGATAACCCGCACAAATGCCTTCGGGACTTAACCCGGATAT
1 CGCCTTCGGG-CTTAGCCCGGATATCATATCTCGCAC-ATTGCCTTCGGGACTTAACCCGGATAT
87298382 CACAACTCGCACAAT
64 CACAACTCGCACAAT
*
87298397 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATTGCCTTCGGG-CTTAGCCCGGATATCA
1 CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATTGCCTTCGGGACTTAACCCGGATATCA
* *
87298461 CAATTCGCACATT
66 CAACTCGCACAAT
* *
87298474 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATT
1 CGCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACATT
87298513 CATACACATC
Statistics
Matches: 104, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
77 60 0.58
78 13 0.12
79 21 0.20
80 10 0.10
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (78 bp):
CGCCTTCGGGCTTAGCCCGGATATCATATCTCGCACATTGCCTTCGGGACTTAACCCGGATATCA
CAACTCGCACAAT
Found at i:87298511 original size:39 final size:39
Alignment explanation
Indices: 87298357--87298512 Score: 235
Period size: 39 Copynumber: 4.0 Consensus size: 39
87298347 CCCGCACAAA
* * *
87298357 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACATT
* *
87298397 CGCCTTCGGGCTTAGCCCGGATATCA-TATCTCGCACA-T
1 TGCCTTCGGGCTTAGCCCGGATATCACAAT-TCGCACATT
87298435 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
87298474 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
1 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
87298513 CATACACATC
Statistics
Matches: 107, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
38 34 0.32
39 64 0.60
40 9 0.08
ACGTcount: A:0.22, C:0.32, G:0.20, T:0.26
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACATT
Found at i:87302710 original size:39 final size:40
Alignment explanation
Indices: 87302622--87302867 Score: 365
Period size: 40 Copynumber: 6.2 Consensus size: 40
87302612 TGAATGATAC
* * *
87302622 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
87302662 CCGGGCTAAGACCCGAAGGCA-TTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
87302701 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
87302741 CC-GGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* *
87302780 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
87302820 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
87302860 CC-GGCTAA
1 CCGGGCTAA
87302868 ATTCCGAAGA
Statistics
Matches: 190, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
39 78 0.41
40 112 0.59
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:87302876 original size:79 final size:80
Alignment explanation
Indices: 87302622--87302867 Score: 365
Period size: 79 Copynumber: 3.1 Consensus size: 80
87302612 TGAATGATAC
* * *
87302622 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGC-ATT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCAATT
87302685 GTGCGAGTTGTTATAT
65 GTGCGAGTTGTTATAT
*
87302701 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAATTG
87302765 TGCGAGTTGTTATAT
66 TGCGAGTTGTTATAT
* * *
87302780 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAATTG
** *
87302845 TGCTTGTGGTTATAT
66 TGCGAGTTGTTATAT
87302860 CC-GGCTAA
1 CCGGGCTAA
87302868 ATTCCGAAGA
Statistics
Matches: 153, Mismatches: 11, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
78 17 0.11
79 100 0.65
80 36 0.24
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTTGTTATAT
Found at i:87307261 original size:124 final size:122
Alignment explanation
Indices: 87307041--87307262 Score: 284
Period size: 124 Copynumber: 1.8 Consensus size: 122
87307031 GAATTATGTG
* * * * *
87307041 GAATGAAATATGGATGTATTGATTATTGATTTATGTGTGTATGAGTATTCGAATAATGCCCGGGC
1 GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
* * * **
87307106 TAAGTCCCGAAGGCGATTATGCTAGTGATTATAATTGTGTTTGAGCCTTAGTAACGA
66 TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
* * *
87307163 GAATGAAATATGTATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATT-GAATGATATCCG
1 GAATGAAATATGGATGT--AATGATTATTGATGTATGTGTGCATGAG-AATTCGAATAATACCCG
*
87307227 GGCTAAGCCCCGAAGACAATTATGCTGGAAATTATA
63 GGCTAAGCCCCGAAGACAATTATGCTAGAAATTATA
87307263 TCCGGGTTAA
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
122 16 0.19
124 64 0.77
125 3 0.04
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (122 bp):
GAATGAAATATGGATGTAATGATTATTGATGTATGTGTGCATGAGAATTCGAATAATACCCGGGC
TAAGCCCCGAAGACAATTATGCTAGAAATTATAATTGTGTTTGAGCCTTAGTAACGA
Found at i:87307306 original size:40 final size:40
Alignment explanation
Indices: 87307221--87307371 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
87307211 AATTGAATGA
* * * *
87307221 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
87307261 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
87307302 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
87307341 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
87307372 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:87307385 original size:40 final size:40
Alignment explanation
Indices: 87307258--87307387 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
87307248 ATGCTGGAAA
* * *
87307258 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
87307298 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
87307338 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
87307378 TTATATCCGG
1 TTATATCCGG
87307388 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:87307386 original size:80 final size:80
Alignment explanation
Indices: 87307220--87307387 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
87307210 AAATTGAATG
* *
87307220 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
87307285 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
87307300 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
87307363 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
87307380 ATATCCGG
1 ATATCCGG
87307388 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:87308849 original size:46 final size:45
Alignment explanation
Indices: 87308799--87308972 Score: 194
Period size: 45 Copynumber: 3.8 Consensus size: 45
87308789 TGGTTGAGCA
87308799 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAATG
* * *
87308845 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAA-T--G
*
87308890 CATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATG
* * *
87308937 CCCGAGCTCGTTGAGTTGAGTCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGG
87308973 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 36 0.33
46 36 0.33
47 24 0.22
49 4 0.04
50 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCGAATG
Found at i:87308954 original size:92 final size:92
Alignment explanation
Indices: 87308796--87308965 Score: 297
Period size: 92 Copynumber: 1.8 Consensus size: 92
87308786 GGATGGTTGA
* *
87308796 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87308861 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGT-CGAGTTCGTGAGATGTAACTAG
*
87308889 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
87308953 TGAGTCGAGTTCG
66 TGAGTCGAGTTCG
87308966 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 8 0.11
92 42 0.57
93 24 0.32
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCGAGTTCGTGAGATGTAACTAG
Found at i:87317244 original size:39 final size:40
Alignment explanation
Indices: 87317186--87317286 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
87317176 AAATTGAATG
* *
87317186 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
87317225 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
87317265 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
87317287 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:87317279 original size:40 final size:40
Alignment explanation
Indices: 87317186--87317367 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
87317176 AAATTGAATG
* * * * *
87317186 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
87317225 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
87317265 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
87317305 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
87317345 ATATCCGGG-TAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
87317368 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 44 0.36
40 75 0.62
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:87325367 original size:40 final size:39
Alignment explanation
Indices: 87325199--87325369 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
87325189 AGAAATTGAA
* *
87325199 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
87325239 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
87325279 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
87325319 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
87325359 TGATATCCGGG
1 TGATATCCGGG
87325370 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:87327604 original size:28 final size:28
Alignment explanation
Indices: 87327568--87327667 Score: 101
Period size: 28 Copynumber: 3.6 Consensus size: 28
87327558 ATAGCCTTTA
*
87327568 TGGTAAACTCTGAAAAGAATAACATTTG
1 TGGTAAACTCTGAAAAGAATAACATGTG
* * * *
87327596 TGGTGAACTGTGAAAGGAAAAACATGTG
1 TGGTAAACTCTGAAAAGAATAACATGTG
* * *
87327624 TGGCAAACTCTGAAAAGAATAGCTTGTG
1 TGGTAAACTCTGAAAAGAATAACATGTG
* * *
87327652 CGGCAAACTTTGAAAA
1 TGGTAAACTCTGAAAA
87327668 CAAAAGCCTT
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (28 bp):
TGGTAAACTCTGAAAAGAATAACATGTG
Found at i:87327666 original size:56 final size:56
Alignment explanation
Indices: 87327572--87327695 Score: 135
Period size: 56 Copynumber: 2.2 Consensus size: 56
87327562 CCTTTATGGT
* ** **
87327572 AAACTCTGAAAAGAATAACATTTGTGGTGAACTGTGAAAGGAAAAACATGTGTGGC
1 AAACTCTGAAAAGAATAACATTTGCGGCAAACTGTGAAAACAAAAACATGTGTGGC
* * * * *
87327628 AAACTCTGAAAAGAATAGC-TTGTGCGGCAAACTTTGAAAACAAAAGCCTTTGTGGC
1 AAACTCTGAAAAGAATAACATT-TGCGGCAAACTGTGAAAACAAAAACATGTGTGGC
87327684 AAACTCT-AAAAG
1 AAACTCTGAAAAG
87327696 GGCTACCTTT
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
55 7 0.12
56 50 0.88
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.23
Consensus pattern (56 bp):
AAACTCTGAAAAGAATAACATTTGCGGCAAACTGTGAAAACAAAAACATGTGTGGC
Found at i:87327684 original size:28 final size:28
Alignment explanation
Indices: 87327620--87327694 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
87327610 AGGAAAAACA
* *
87327620 TGTGTGGCAAACTCTGAAAAGAATAGCT
1 TGTGTGGCAAACTCTGAAAACAAAAGCT
* *
87327648 TGTGCGGCAAACTTTGAAAACAAAAGCCT
1 TGTGTGGCAAACTCTGAAAACAAAAG-CT
87327677 T-TGTGGCAAACTCT-AAAA
1 TGTGTGGCAAACTCTGAAAA
87327695 GGGCTACCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 4 0.10
28 33 0.82
29 3 0.08
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.24
Consensus pattern (28 bp):
TGTGTGGCAAACTCTGAAAACAAAAGCT
Found at i:87334197 original size:43 final size:42
Alignment explanation
Indices: 87334122--87334244 Score: 135
Period size: 43 Copynumber: 2.9 Consensus size: 42
87334112 CAAAAAACTC
* * *
87334122 ATACAATGCCAAC-GTCCCAGAC-GTGGTTTTACATGTAATCAA
1 ATACGATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCAA
*
87334164 ATATCGATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAA
* *
87334207 ATACGATGTCGA-TGTCCCAGACATGGTCTTACACGTAA
1 ATACGATG-CCACTGTCCCAGACAGGGTCTTACACGTAA
87334245 ATTATAACTC
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
42 34 0.49
43 35 0.50
44 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (42 bp):
ATACGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAA
Found at i:87334227 original size:42 final size:43
Alignment explanation
Indices: 87334127--87334268 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 43
87334117 AACTCATACA
* * *
87334127 ATGCCAAC-GTCCCAGAC-GTGGTTTTACATGTAATCAAATATCG
1 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAAATCAAATATCG
87334170 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
* * * *
87334212 ATGTCGA-TGTCCCAGACATGGTCTTACACGTAAATTATAA-CTCG
1 ATG-CCACTGTCCCAGACAGGGTCTTACACG-AAATCA-AATATCG
*
87334256 ATGCCATTGTCCC
1 ATGCCACTGTCCC
87334269 TGATGAGGTC
Statistics
Matches: 84, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
42 29 0.35
43 41 0.49
44 14 0.17
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATATCG
Found at i:87335388 original size:21 final size:21
Alignment explanation
Indices: 87335362--87335424 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 21
87335352 ATCCTTTTTG
87335362 CAAATTAAGCACTCAAACGAT
1 CAAATTAAGCACTCAAACGAT
**
87335383 CAAATT---TTCTCAAA-G--
1 CAAATTAAGCACTCAAACGAT
87335398 CAAATTAAGCACTCAAACGAT
1 CAAATTAAGCACTCAAACGAT
87335419 CAAATT
1 CAAATT
87335425 TTCTCAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 6 0.19
17 1 0.03
18 12 0.38
19 1 0.03
21 12 0.38
ACGTcount: A:0.46, C:0.22, G:0.08, T:0.24
Consensus pattern (21 bp):
CAAATTAAGCACTCAAACGAT
Found at i:87335396 original size:18 final size:18
Alignment explanation
Indices: 87335373--87335432 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
87335363 AAATTAAGCA
87335373 CTCAAACGATCAAATTTT
1 CTCAAACGATCAAATTTT
**
87335391 CTCAAA-G--CAAATTAAGCA
1 CTCAAACGATCAAATT---TT
87335409 CTCAAACGATCAAATTTT
1 CTCAAACGATCAAATTTT
87335427 CTCAAA
1 CTCAAA
87335433 AAACTTTCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
15 6 0.19
17 1 0.03
18 18 0.56
19 1 0.03
21 6 0.19
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (18 bp):
CTCAAACGATCAAATTTT
Found at i:87335408 original size:36 final size:36
Alignment explanation
Indices: 87335361--87335432 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
87335351 AATCCTTTTT
87335361 GCAAATTAAGCACTCAAACGATCAAATTTTCTCAAA
1 GCAAATTAAGCACTCAAACGATCAAATTTTCTCAAA
87335397 GCAAATTAAGCACTCAAACGATCAAATTTTCTCAAA
1 GCAAATTAAGCACTCAAACGATCAAATTTTCTCAAA
87335433 AAACTTTCAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.25
Consensus pattern (36 bp):
GCAAATTAAGCACTCAAACGATCAAATTTTCTCAAA
Found at i:87337341 original size:49 final size:49
Alignment explanation
Indices: 87337269--87337443 Score: 217
Period size: 49 Copynumber: 3.5 Consensus size: 49
87337259 CTAGTACGCA
*
87337269 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
* * * * * * ** *
87337318 TAGTAGCCTGCACCTAGTACTACACACGTGATCACAGTTTTCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAATTATCTGGTACACG
*
87337369 TAGCAGCCTGCACTTAGTACTACACATGCGACCAATTAT-TCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCT-GGTACACG
87337418 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
87337444 CGTGACCTCA
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
49 63 0.62
50 2 0.02
51 37 0.36
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
Found at i:87337381 original size:100 final size:100
Alignment explanation
Indices: 87337266--87337448 Score: 323
Period size: 100 Copynumber: 1.8 Consensus size: 100
87337256 TATCTAGTAC
*
87337266 GCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAA-TCTGGTACACGTAGTAGCCTGCA
1 GCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATAATTC-GGTACACGTAGTAGCCTGCA
87337330 CCTAGTACTACACACGTGATCACAGTTTTCGGGTAT
65 CCTAGTACTACACACGTGATCACAGTTTTCGGGTAT
*
87337366 GCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTAGCCTGCAC
1 GCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATAATTCGGTACACGTAGTAGCCTGCAC
*
87337431 TTAGTACTACACACGTGA
66 CTAGTACTACACACGTGA
87337449 CCTCACAATA
Statistics
Matches: 79, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
100 77 0.97
101 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (100 bp):
GCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATAATTCGGTACACGTAGTAGCCTGCAC
CTAGTACTACACACGTGATCACAGTTTTCGGGTAT
Found at i:87339919 original size:14 final size:15
Alignment explanation
Indices: 87339900--87339964 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
87339890 TAAAGATAAC
*
87339900 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
87339914 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
87339929 GAA-AAACCCAGAATA
1 -AAGAAATCCAGAATA
*
87339944 AAGAAATCCAGGATA
1 AAGAAATCCAGAATA
87339959 AAGAAA
1 AAGAAA
87339965 CCCAAGATAC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 11 0.26
15 28 0.67
16 3 0.07
ACGTcount: A:0.62, C:0.14, G:0.15, T:0.09
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Done.