Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 28 of 297
Found at i:9696118 original size:21 final size:21
Alignment explanation
Indices: 9696093--9696132 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
9696083 AGAATGGAGA
9696093 AAAAATAAATAA-AATTAAATT
1 AAAAATAAA-AATAATTAAATT
9696114 AAAAATAAAAATAATTAAA
1 AAAAATAAAAATAATTAAA
9696133 AATATTAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAATAAAAATAATTAAATT
Found at i:9696131 original size:16 final size:17
Alignment explanation
Indices: 9696099--9696136 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
9696089 GAGAAAAAAT
*
9696099 AAATAAAATTAAATTAA
1 AAATAAAAATAAATTAA
9696116 AAATAAAAAT-AATTAA
1 AAATAAAAATAAATTAA
9696132 AAATA
1 AAATA
9696137 TTAACTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAAAAATAAATTAA
Found at i:9699097 original size:21 final size:21
Alignment explanation
Indices: 9699071--9699121 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
9699061 GGTCTCATAC
* *
9699071 GCCCGTGTGCCCACAAGACAT
1 GCCCGTGTGCCCAAAACACAT
* *
9699092 GGCCGTGTGTCCAAAACACAT
1 GCCCGTGTGCCCAAAACACAT
9699113 GCCCGTGTG
1 GCCCGTGTG
9699122 GAATCTCTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.22, C:0.33, G:0.27, T:0.18
Consensus pattern (21 bp):
GCCCGTGTGCCCAAAACACAT
Found at i:9699758 original size:20 final size:21
Alignment explanation
Indices: 9699735--9699781 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
9699725 TAAAATTAAA
9699735 TTAAAAATTAAAAATAAT-AC
1 TTAAAAATTAAAAATAATAAC
* * *
9699755 TTAATAATTGAAAATATTAAC
1 TTAAAAATTAAAAATAATAAC
9699776 TTAAAA
1 TTAAAA
9699782 CTAAATAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAAAAATTAAAAATAATAAC
Found at i:9700758 original size:84 final size:83
Alignment explanation
Indices: 9700614--9700785 Score: 247
Period size: 84 Copynumber: 2.1 Consensus size: 83
9700604 GTTATGTATC
*
9700614 AGTGGCATTTTTCATAAACGCCACAAAATTGCAATACCAATTTGCCCTAGACGACGTCGTTTCAC
1 AGTGGCATTTTTCATAAACGCCACAAAATTGCAATACCAATTTGCCCTAGACGACATCGTTTCAC
*
9700679 TACAGGGAATTAAATTTTT
66 TACAGGGAATT-AAGTTTT
* * * * *
9700698 AGTGGCATTTTTCATAAACGCCGCAGAATTGCAATACCAATTTGCCTTGGGC-AGCATCGTTTCA
1 AGTGGCATTTTTCATAAACGCCACAAAATTGCAATACCAATTTGCCCTAGACGA-CATCGTTTCA
*
9700762 CTATAGGGAATTAAGTTTT
65 CTACAGGGAATTAAGTTTT
9700781 AGTGG
1 AGTGG
9700786 TGTTTTTACT
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
83 12 0.15
84 67 0.85
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (83 bp):
AGTGGCATTTTTCATAAACGCCACAAAATTGCAATACCAATTTGCCCTAGACGACATCGTTTCAC
TACAGGGAATTAAGTTTT
Found at i:9701066 original size:7 final size:7
Alignment explanation
Indices: 9701056--9701118 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
9701046 AAAGTTTAGA
9701056 GTTTATG
1 GTTTATG
9701063 GTTTATG
1 GTTTATG
*
9701070 GTTTAGG
1 GTTTATG
*
9701077 GCTTCAT-
1 G-TTTATG
9701084 GTTTAGTG
1 GTTTA-TG
9701092 G-TTATG
1 GTTTATG
*
9701098 GTTTTAGG
1 G-TTTATG
9701106 GTTTATG
1 GTTTATG
9701113 GTTTAT
1 GTTTAT
9701119 TATTTAGGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
6 6 0.13
7 30 0.67
8 9 0.20
ACGTcount: A:0.14, C:0.03, G:0.30, T:0.52
Consensus pattern (7 bp):
GTTTATG
Found at i:9701111 original size:15 final size:14
Alignment explanation
Indices: 9701056--9701117 Score: 65
Period size: 14 Copynumber: 4.4 Consensus size: 14
9701046 AAAGTTTAGA
*
9701056 GTTTATGGTTTATG
1 GTTTAGGGTTTATG
*
9701070 GTTTAGGGCTTCAT-
1 GTTTAGGG-TTTATG
9701084 GTTTAGTGG-TTATG
1 GTTTAG-GGTTTATG
9701098 GTTTTAGGGTTTATG
1 G-TTTAGGGTTTATG
9701113 GTTTA
1 GTTTA
9701118 TTATTTAGGG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
13 3 0.08
14 20 0.50
15 17 0.43
ACGTcount: A:0.15, C:0.03, G:0.31, T:0.52
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:9701940 original size:18 final size:20
Alignment explanation
Indices: 9701901--9701950 Score: 77
Period size: 18 Copynumber: 2.6 Consensus size: 20
9701891 CCATAAAAAA
*
9701901 TTTCCCTAAATCCCTCAAAT
1 TTTCCCCAAATCCCTCAAAT
9701921 TTTCCCCAAA-CCCT-AAAT
1 TTTCCCCAAATCCCTCAAAT
9701939 TTTCCCCAAATC
1 TTTCCCCAAATC
9701951 AAAATCATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 14 0.50
19 5 0.18
20 9 0.32
ACGTcount: A:0.30, C:0.38, G:0.00, T:0.32
Consensus pattern (20 bp):
TTTCCCCAAATCCCTCAAAT
Found at i:9703251 original size:60 final size:60
Alignment explanation
Indices: 9703158--9703280 Score: 237
Period size: 60 Copynumber: 2.0 Consensus size: 60
9703148 TTCTTTTCTC
*
9703158 TAAGGCTTTTGTGGACGGTGTAATATATATATATATATATATATATTTTTATTCTTCACA
1 TAAGGCTTTTGTGGACGGTGTAATATATATATATATATATATATATTCTTATTCTTCACA
9703218 TAAGGCTTTTGTGGACGGTGTAATATATATATATATATATATATATTCTTATTCTTCACA
1 TAAGGCTTTTGTGGACGGTGTAATATATATATATATATATATATATTCTTATTCTTCACA
9703278 TAA
1 TAA
9703281 TTTGTTTTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.33, C:0.09, G:0.13, T:0.46
Consensus pattern (60 bp):
TAAGGCTTTTGTGGACGGTGTAATATATATATATATATATATATATTCTTATTCTTCACA
Found at i:9704242 original size:9 final size:9
Alignment explanation
Indices: 9704228--9704325 Score: 51
Period size: 9 Copynumber: 11.1 Consensus size: 9
9704218 TGCTTTGGAT
9704228 CATAACTTA
1 CATAACTTA
9704237 CATAACTTA
1 CATAACTTA
9704246 CATAA--TA
1 CATAACTTA
*
9704253 CATAA-ATA
1 CATAACTTA
* * *
9704261 TATATCATA
1 CATAACTTA
*
9704270 TTATAACTTA
1 -CATAACTTA
*
9704280 CATAACTGA
1 CATAACTTA
*
9704289 CATAA-ATA
1 CATAACTTA
* * *
9704297 TATATCATA
1 CATAACTTA
9704306 TCATAACTTA
1 -CATAACTTA
*
9704316 CATAATTTA
1 CATAACTTA
9704325 C
1 C
9704326 GTAATACATA
Statistics
Matches: 70, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
7 7 0.10
8 9 0.13
9 41 0.59
10 13 0.19
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:9704277 original size:43 final size:41
Alignment explanation
Indices: 9704226--9704343 Score: 147
Period size: 36 Copynumber: 2.9 Consensus size: 41
9704216 AATGCTTTGG
9704226 ATCATAACTTACATAACTTACATAATACATAAATATATATCAT
1 ATCATAACTTACATAA-TTAC-TAATACATAAATATATATCAT
* *
9704269 ATTATAACTTACAT-A--ACT--GACATAAATATATATCAT
1 ATCATAACTTACATAATTACTAATACATAAATATATATCAT
9704305 ATCATAACTTACATAATTTACGTAATACATAAATATATA
1 ATCATAACTTACATAA-TTAC-TAATACATAAATATATA
9704344 CTTATAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
36 30 0.47
37 1 0.02
38 1 0.02
39 2 0.03
40 2 0.03
41 1 0.02
42 1 0.02
43 26 0.41
ACGTcount: A:0.48, C:0.14, G:0.02, T:0.36
Consensus pattern (41 bp):
ATCATAACTTACATAATTACTAATACATAAATATATATCAT
Found at i:9716200 original size:18 final size:18
Alignment explanation
Indices: 9716177--9716215 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9716167 TTTTAAAAAC
*
9716177 TTTTTATTTATTAT-TTTA
1 TTTTTACTT-TTATCTTTA
9716195 TTTTTACTTTTATCTTTA
1 TTTTTACTTTTATCTTTA
9716213 TTT
1 TTT
9716216 ATCTTATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTACTTTTATCTTTA
Found at i:9721505 original size:48 final size:48
Alignment explanation
Indices: 9721375--9721514 Score: 208
Period size: 48 Copynumber: 2.9 Consensus size: 48
9721365 CATTACGGAA
* * * * *
9721375 TACATTGATTTGGCTTCAGGCTATGATATTGGCAATTCGAGTGCGAGT
1 TACATTGATTTGGCTTTAGGCCATGATATTGGCACTTCGGGTGCAAGT
*
9721423 TACATTGATTTGGCTTTAGGCCATAATATTGGCACTTCGGGTGCAAGT
1 TACATTGATTTGGCTTTAGGCCATGATATTGGCACTTCGGGTGCAAGT
* *
9721471 TACATTGATTTGGCTTTGGGCCATGATATTGGCACTTAGGGTGC
1 TACATTGATTTGGCTTTAGGCCATGATATTGGCACTTCGGGTGC
9721515 GAGACTCCCA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.36
Consensus pattern (48 bp):
TACATTGATTTGGCTTTAGGCCATGATATTGGCACTTCGGGTGCAAGT
Found at i:9729862 original size:24 final size:24
Alignment explanation
Indices: 9729834--9729882 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
9729824 GGAAAATCCC
9729834 GTTTGAACCTTAGGAATAGATTAG
1 GTTTGAACCTTAGGAATAGATTAG
9729858 GTTTGAACCTTAGGAATAGATTAG
1 GTTTGAACCTTAGGAATAGATTAG
9729882 G
1 G
9729883 ATACAAGTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.33
Consensus pattern (24 bp):
GTTTGAACCTTAGGAATAGATTAG
Found at i:9729972 original size:46 final size:46
Alignment explanation
Indices: 9729916--9730088 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
9729906 TGGTTGAGCA
* *
9729916 TCCGAACTCGTTGAGTTGAGTCTGAGTTTACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
9729962 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--AATG-TAATTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
9730007 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
9730055 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
9730089 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 7 0.07
46 54 0.52
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:9730072 original size:93 final size:93
Alignment explanation
Indices: 9729913--9730083 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
9729903 GGATGGTTGA
* * *
9729913 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTTACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAACTCGTTGAGT
*
9729978 TGAGTTCGAGTTCGTGAAATGTAATTAG
66 TGAGTCCGAGTTCGTGAAATGTAATTAG
9730006 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAA-CTCGTTGAG
9730070 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
9730084 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 4 0.05
93 69 0.95
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAATTAG
Found at i:9731999 original size:13 final size:13
Alignment explanation
Indices: 9731981--9732005 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9731971 TCCTTTGTCT
9731981 TTTCTTTTTTTTC
1 TTTCTTTTTTTTC
9731994 TTTCTTTTTTTT
1 TTTCTTTTTTTT
9732006 TTTGAAGGTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTCTTTTTTTTC
Found at i:9732594 original size:6 final size:6
Alignment explanation
Indices: 9732585--9732637 Score: 97
Period size: 6 Copynumber: 8.8 Consensus size: 6
9732575 GGCTTTTTTT
*
9732585 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC CTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
9732633 TTTGC
1 TTTGC
9732638 AATATAGTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.00, C:0.34, G:0.17, T:0.49
Consensus pattern (6 bp):
TTTGCC
Found at i:9736741 original size:118 final size:118
Alignment explanation
Indices: 9736524--9736760 Score: 397
Period size: 118 Copynumber: 2.0 Consensus size: 118
9736514 TTCGGCCAAG
9736524 AAAAAGTGTATACATGATAGTATATGTGGTATGTGAAGTACATTTGGATAATTGTGATGGGAATA
1 AAAAAGTGTATACATGATAGTATATGTGGTATGTGAAGTACATTTGGATAATTGTGATGGGAATA
* ** * *
9736589 CATGAAAATTTATATTTTGATTTAGGATTTTATGTGATAAGGCCGAATGGCCA
66 CATGAAAATTTATATTGTGACATAGCATTATATGTGATAAGGCCGAATGGCCA
9736642 AAAAAGTGTATACATGATAGTATATGTGGTATGTGAAGTACATTTGGATAATTGTGATGGGAATA
1 AAAAAGTGTATACATGATAGTATATGTGGTATGTGAAGTACATTTGGATAATTGTGATGGGAATA
9736707 CATGAAAATTTATATATGTGAACAT-GCA-TATATGTGATAAGGCCGAATGGCCA
66 CATGAAAATTTATAT-TGTG-ACATAGCATTATATGTGATAAGGCCGAATGGCCA
9736760 A
1 A
9736761 TGTGATGAAC
Statistics
Matches: 112, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
118 105 0.94
119 5 0.04
120 2 0.02
ACGTcount: A:0.36, C:0.07, G:0.24, T:0.33
Consensus pattern (118 bp):
AAAAAGTGTATACATGATAGTATATGTGGTATGTGAAGTACATTTGGATAATTGTGATGGGAATA
CATGAAAATTTATATTGTGACATAGCATTATATGTGATAAGGCCGAATGGCCA
Found at i:9736782 original size:47 final size:47
Alignment explanation
Indices: 9736724--9736851 Score: 184
Period size: 47 Copynumber: 2.7 Consensus size: 47
9736714 ATTTATATAT
9736724 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAC
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAC
* * * * *
9736771 GTGAGCATGCATATGTGTGATAAGGCTGAATGGCCAATGTGGTGAAT
1 GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAC
* * *
9736818 ATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 GTGAACATGCATATATGTGATAAGGCCGAATGGC
9736852 TAGTGTGAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (47 bp):
GTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAAC
Found at i:9737159 original size:37 final size:37
Alignment explanation
Indices: 9737014--9737158 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
9737004 GGAAATATAT
*
9737014 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
9737051 TCCGGGTAAGACCCGATGACTATGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
9737088 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
9737125 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
9737159 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:9739121 original size:19 final size:19
Alignment explanation
Indices: 9739097--9739142 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
9739087 TGAAAAGTCT
9739097 AATGCAAATG-AT-GCAATG
1 AATGCAAATGCATAG-AATG
9739115 CAATGCAAATGCATAGAATG
1 -AATGCAAATGCATAGAATG
9739135 AATGCAAA
1 AATGCAAA
9739143 AGAAAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 18 0.72
20 6 0.24
21 1 0.04
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.20
Consensus pattern (19 bp):
AATGCAAATGCATAGAATG
Found at i:9747473 original size:19 final size:20
Alignment explanation
Indices: 9747428--9747473 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
9747418 GGTAGAATTG
9747428 TTATT-CTTAGAAAACAAAA
1 TTATTACTTAGAAAACAAAA
*
9747447 TT-TGTACTTAGAAAA-TAAA
1 TTAT-TACTTAGAAAACAAAA
9747466 TTATTACT
1 TTATTACT
9747474 ATTTTCAGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.04
19 12 0.52
20 10 0.43
ACGTcount: A:0.46, C:0.09, G:0.07, T:0.39
Consensus pattern (20 bp):
TTATTACTTAGAAAACAAAA
Found at i:9752608 original size:43 final size:43
Alignment explanation
Indices: 9752524--9752678 Score: 125
Period size: 43 Copynumber: 3.6 Consensus size: 43
9752514 TCTGAGACAT
* * * * ***
9752524 CATGTAAGACCGTGTCTGGGACATAGGCCTTGATGGAGATTTA
1 CATGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTA
* *
9752567 CATATAAGACCATGTCTGGGACATCGGCATC-TTATCTGATTT-
1 CATGTAAGACCATGTCTGGGACATCGGCATCGATAT-TGATTTA
** * ** *
9752609 TGTGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTA
1 CATGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTA
* * *
9752652 CATGTAAGACCACGTCCGGGACGTCGG
1 CATGTAAGACCATGTCTGGGACATCGG
9752679 TATTGTACGT
Statistics
Matches: 84, Mismatches: 25, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
42 31 0.37
43 53 0.63
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (43 bp):
CATGTAAGACCATGTCTGGGACATCGGCATCGATATTGATTTA
Found at i:9757123 original size:17 final size:18
Alignment explanation
Indices: 9757110--9757232 Score: 87
Period size: 19 Copynumber: 6.8 Consensus size: 18
9757100 TAATCTTCAA
9757110 TGATATGCAATCTTAGATG
1 TGATATGCAATCTTAGA-G
9757129 TGATATGCAATCTTAGA-
1 TGATATGCAATCTTAGAG
* *
9757146 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
9757165 TGAT-TGCAGTCTTAGA-
1 TGATATGCAATCTTAGAG
* *
9757181 T-ATGATACAATCTTAGATA
1 TGAT-ATGCAATCTTAGA-G
*
9757200 TGAT-TGCAATCTTAGATA
1 TGATATGCAATCTTAGA-G
*
9757218 TGATATACAATCTTA
1 TGATATGCAATCTTA
9757233 AAAGATATGA
Statistics
Matches: 87, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
15 2 0.02
16 3 0.03
17 23 0.26
18 27 0.31
19 28 0.32
20 4 0.05
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
TGATATGCAATCTTAGAG
Found at i:9757179 original size:18 final size:18
Alignment explanation
Indices: 9757109--9757232 Score: 162
Period size: 18 Copynumber: 6.8 Consensus size: 18
9757099 ATAATCTTCA
9757109 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
9757128 GTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
9757147 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
9757164 ATGATTGCAGTCTTAGAT
1 ATGATTGCAATCTTAGAT
*
9757182 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
9757199 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
*
9757217 ATGATATACAATCTTA
1 ATGAT-TGCAATCTTA
9757233 AAAGATATGA
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
17 31 0.33
18 32 0.34
19 30 0.32
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.37
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:9757184 original size:35 final size:35
Alignment explanation
Indices: 9757117--9757232 Score: 187
Period size: 35 Copynumber: 3.2 Consensus size: 35
9757107 CAATGATATG
*
9757117 CAATCTTAGATGTGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGCAATCTTAGATATGATA
*
9757153 CAATCTTAGATATGATTGCAGTCTTAGATATGATA
1 CAATCTTAGATATGATTGCAATCTTAGATATGATA
9757188 CAATCTTAGATATGATTGCAATCTTAGATATGATATA
1 CAATCTTAGATATGATTGCAATCTTAGATATG--ATA
9757225 CAATCTTA
1 CAATCTTA
9757233 AAAGATATGA
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
35 49 0.65
36 15 0.20
37 11 0.15
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (35 bp):
CAATCTTAGATATGATTGCAATCTTAGATATGATA
Found at i:9762748 original size:22 final size:21
Alignment explanation
Indices: 9762710--9762780 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 21
9762700 CTTCTATTTC
* *
9762710 AAAAAAAAAAG-GCAAAAAAT
1 AAAATAAAAAGAGAAAAAAAT
9762730 AAAATAAAAAGAGAAAAAAAT
1 AAAATAAAAAGAGAAAAAAAT
*
9762751 AAAAATAAAAAAGAGAAAAAAGAA
1 -AAAAT-AAAAAGAGAAAAAA-AT
9762775 AAAATA
1 AAAATA
9762781 GAGAGTCCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
20 10 0.23
21 8 0.18
22 6 0.14
23 19 0.43
24 1 0.02
ACGTcount: A:0.82, C:0.01, G:0.10, T:0.07
Consensus pattern (21 bp):
AAAATAAAAAGAGAAAAAAAT
Found at i:9762749 original size:16 final size:15
Alignment explanation
Indices: 9762730--9762778 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
9762720 GGCAAAAAAT
9762730 AAAATAAAAAGAGAAA
1 AAAATAAAAA-AGAAA
9762746 AAAATAAAAATA-AAA
1 AAAATAAAAA-AGAAA
* *
9762761 AAGAGAAAAAAGAAA
1 AAAATAAAAAAGAAA
9762776 AAA
1 AAA
9762779 TAGAGAGTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 1 0.04
15 16 0.57
16 11 0.39
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (15 bp):
AAAATAAAAAAGAAA
Found at i:9763963 original size:87 final size:85
Alignment explanation
Indices: 9763707--9764076 Score: 400
Period size: 87 Copynumber: 4.4 Consensus size: 85
9763697 CAAAATTCAG
* * *
9763707 CGCCTTAATCCCCTAAGCAGTAGGGTCACAGGTTAAATTTGCAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-TAAAATTACAGATCTTATCTCCCTAAGCAGTA
* *
9763772 GTGGAGCAGATC--GAAGACT
65 GTGGAACAGATCAAGATGACT
* *
9763791 CGCCTTAATCCCTTAAGCAGTAGGGTAACAGGT----TCACAGATCTTATCTCCCTAAGCAGTAG
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
* * *
9763852 T-GAAGCAGATTGACGAGGACT
66 TGGAA-CAGA-TCAAGATGACT
* *
9763873 CGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTATAGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-TAAAATTACAGATCTTATCTCCCTAAGCAGTA
** *
9763938 GCAGAACAGATCAATGATGAAT
65 GTGGAACAGATCAA-GATGACT
* * *
9763960 CGCCTTAATCCCCTAAACAGTAGGGTAACAGGTCAAAATTGCGGATCTTATCTCCCTAAGCAGTA
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT-AAAATTACAGATCTTATCTCCCTAAGCAGTA
**
9764025 GTGGAGTAGATCGAAGATG---
65 GTGGAACAGATC-AAGATGACT
* * *
9764044 CGCCTTAACCCCCTAAGTAGTAAGGTAACAGGT
1 CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGT
9764077 TAAAGTATAG
Statistics
Matches: 244, Mismatches: 29, Indels: 26
0.82 0.10 0.09
Matches are distributed among these distances:
78 2 0.01
79 31 0.13
80 1 0.00
82 36 0.15
83 2 0.01
84 59 0.24
86 3 0.01
87 105 0.43
88 5 0.02
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (85 bp):
CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTAAAATTACAGATCTTATCTCCCTAAGCAGTAG
TGGAACAGATCAAGATGACT
Found at i:9764024 original size:43 final size:42
Alignment explanation
Indices: 9763883--9764025 Score: 107
Period size: 43 Copynumber: 3.3 Consensus size: 42
9763873 CGCCTTAACC
**
9763883 CCCTAAGCAGTAGGGTAACAGG-CTAAAATTATAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTC-AAAATT-GCGATCTTATCT
* * * *
9763926 CCCTAAGCAGTAGCAG-AACAGATCAATGA-TGAATCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTCAA-AATTG---CGATCTT-ATCT
*
9763970 CCCTAAACAGTAGGGTAACAGGTCAAAATTGCGGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTCAAAATTGC-GATCTTATCT
9764013 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
9764026 TGGAGTAGAT
Statistics
Matches: 76, Mismatches: 12, Indels: 24
0.68 0.11 0.21
Matches are distributed among these distances:
41 1 0.01
42 4 0.05
43 38 0.50
44 29 0.38
45 4 0.05
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (42 bp):
CCCTAAGCAGTAGGGTAACAGGTCAAAATTGCGATCTTATCT
Found at i:9764836 original size:207 final size:207
Alignment explanation
Indices: 9764209--9765124 Score: 1406
Period size: 207 Copynumber: 4.4 Consensus size: 207
9764199 GAGTAGATCA
* * * *
9764209 AAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
9764274 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
9764339 GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
9764404 AGGAACAAATCG
196 AGGAACAAATCG
* * *
9764416 AAGAAATAGCTGATTTGCCTTTCACGTGTTTATGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* *
9764481 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTTGATGGA-GGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* * *
9764545 GACCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACG
131 GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
9764610 AGGAACAAATCG
196 AGGAACAAATCG
* * * *
9764622 AAGACATAGATAATTTCGCTTTCACGTGTTTACGTTGAAGCAAGTTTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* *
9764687 TGTATTGTTAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGTA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
* *
9764752 GATCTGGCCTTCAGATTTTTATACCGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
9764817 TGGAACAAATCG
196 AGGAACAAATCG
* *
9764829 AAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTCGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* * * * * *
9764894 TGTATTGTCAGAGAAAAAATCAAATTTTGGCGTCTCCATATTCGACGGCGGACAGACATATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
** * * * * * *
9764959 GATCTAACCTTCGGATGATTAGACTGAAG-CAGATCCAAGATGGTTTGGTATCCTTGTGCTTATA
131 GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
*
9765023 AGGAGA-AAATTG
196 AGGA-ACAAATCG
* * * *
9765035 AAGACATAGCTGATTTGGCTTTCGCGTATTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
* *
9765100 TGTATTGTCAGGGAACAAATTGAAG
66 TGTATTGTCAGAGAACAAATCGAAG
9765125 AAGCAGATTT
Statistics
Matches: 643, Mismatches: 64, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
206 312 0.49
207 331 0.51
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (207 bp):
AAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTC
TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
AGGAACAAATCG
Found at i:9764995 original size:413 final size:413
Alignment explanation
Indices: 9764209--9765124 Score: 1440
Period size: 413 Copynumber: 2.2 Consensus size: 413
9764199 GAGTAGATCA
* *
9764209 AAGACATAGCTGATTTGGCTTTCACGTGCTTATGATGAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTC
9764274 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
*
9764339 GATCTGGCCTTCAGATGTTTATACTGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACCGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
* *
9764404 AGGAACAAATCGAAGAAATAGCTGATTTGCCTTTCACGTGTTTATGTTGAAGCAAGTCTAAGATG
196 AGGAACAAATCGAAGAAATAACTGATTTGCCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATG
* * * * *
9764469 ATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTTGATGGAGGCA
261 ATTCGGCATCTCTGTATTGTCAGAGAAAAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGCA
** * *
9764534 GACACATAGCAGACCTGGCCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGGTTTGGCATCC
326 GACACATAGCAGACCTAACCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGGTTTGGCATCC
*
9764599 TTGTGCTTACGAGGA-ACAAATCG
391 TTGTGCTTACAAGGAGA-AAATCG
* * * * * *
9764622 AAGACATAGATAATTTCGCTTTCACGTGTTTACGTTGAAGCAAGTTTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTC
* *
9764687 TGTATTGTTAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGTA
66 TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
*
9764752 GATCTGGCCTTCAGATTTTTATACCGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
131 GATCTGGCCTTCAGATGTTTATACCGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
* * *
9764817 TGGAACAAATCGAAGACATAACTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATG
196 AGGAACAAATCGAAGAAATAACTGATTTGCCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATG
* *
9764882 ATTCGGCATCTCTGTATTGTCAGAGAAAAAATCAAATTTTGGCGTCTCCATATTCGACGGCGGAC
261 ATTCGGCATCTCTGTATTGTCAGAGAAAAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGG-C
* * * *
9764947 AGACATATAGCAGATCTAACCTTCGGATGATTAGACTGAAGC-AGATCCAAGATGGTTTGGTATC
325 AGACACATAGCAGACCTAACCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGGTTTGGCATC
* *
9765011 CTTGTGCTTATAAGGAGAAAATTG
390 CTTGTGCTTACAAGGAGAAAATCG
* * *
9765035 AAGACATAGCTGATTTGGCTTTCGCGTATTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTC
1 AAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTC
* *
9765100 TGTATTGTCAGGGAACAAATTGAAG
66 TGTATTGTCAGAGAACAAATCGAAG
9765125 AAGCAGATTT
Statistics
Matches: 455, Mismatches: 46, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
413 418 0.92
414 37 0.08
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (413 bp):
AAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTAAGATGATTTGGCATCTC
TGTATTGTCAGAGAACAAATCGAAGTTTGGCGTCTCCATATTCGACGGAGGGCAGACACATAGCA
GATCTGGCCTTCAGATGTTTATACCGAAGTAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACA
AGGAACAAATCGAAGAAATAACTGATTTGCCTTTCACGTGTTTACGTTGAAGCAAGTCTAAGATG
ATTCGGCATCTCTGTATTGTCAGAGAAAAAATCAAAGTTTGGCGTCTCCATATTCGACGGAGGCA
GACACATAGCAGACCTAACCTTCAGATGATTAGACTGAAGCAAGATCCAAGATGGTTTGGCATCC
TTGTGCTTACAAGGAGAAAATCG
Found at i:9765549 original size:19 final size:19
Alignment explanation
Indices: 9765522--9765645 Score: 152
Period size: 17 Copynumber: 6.8 Consensus size: 19
9765512 ATAATCTTCA
9765522 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
9765541 GTTATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9765560 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
9765577 ATGAT-TGTAATCTTAGAT
1 ATGATATGCAATCTTAGAT
9765595 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
* *
9765612 ATGAT-TGAAATATTAGAT
1 ATGATATGCAATCTTAGAT
*
9765630 ATGATATACAATCTTA
1 ATGATATGCAATCTTA
9765646 AAAGATATGA
Statistics
Matches: 88, Mismatches: 11, Indels: 12
0.79 0.10 0.11
Matches are distributed among these distances:
17 31 0.35
18 29 0.33
19 28 0.32
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:9765595 original size:35 final size:35
Alignment explanation
Indices: 9765530--9765645 Score: 160
Period size: 35 Copynumber: 3.2 Consensus size: 35
9765520 CAATGATATG
* * *
9765530 CAATCTTAGATGTTATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGAT-TGAAATCTTAGATATGATA
*
9765566 CAATCTTAGATATGATTGTAATCTTAGATATGATA
1 CAATCTTAGATATGATTGAAATCTTAGATATGATA
*
9765601 CAATCTTAGATATGATTGAAATATTAGATATGATATA
1 CAATCTTAGATATGATTGAAATCTTAGATATG--ATA
9765638 CAATCTTA
1 CAATCTTA
9765646 AAAGATATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
35 48 0.66
36 14 0.19
37 11 0.15
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (35 bp):
CAATCTTAGATATGATTGAAATCTTAGATATGATA
Found at i:9772927 original size:42 final size:43
Alignment explanation
Indices: 9772823--9772970 Score: 133
Period size: 43 Copynumber: 3.5 Consensus size: 43
9772813 TGAGACATCG
* * *
9772823 TGTAAGACCATGTCTGGGACACAGGCCTCG--ATTGAGATTTACT
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGA-A-TTACA
* ** * *
9772866 TATAAGACCATGTCTGGGACATCGGCATCG-TATCTG-ATTTCG
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATAT-TGAATTACA
* *
9772908 TGTAAGACCCTGTTTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACA
* *
9772951 TGTAAGACCACGTCCGGGAC
1 TGTAAGACCATGTCTGGGAC
9772971 GTCGACATTG
Statistics
Matches: 84, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
42 30 0.36
43 50 0.60
44 2 0.02
45 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACA
Found at i:9774362 original size:17 final size:17
Alignment explanation
Indices: 9774330--9774372 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
9774320 TTAGAATGTA
*
9774330 AAAATTAAACTAAAAAC
1 AAAATTAAAATAAAAAC
* *
9774347 AAAATTAAAATTAAAAT
1 AAAATTAAAATAAAAAC
9774364 AAAA-TAAAA
1 AAAATTAAAA
9774373 GTGGCTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATTAAAATAAAAAC
Found at i:9776598 original size:25 final size:25
Alignment explanation
Indices: 9776555--9776603 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9776545 CAAAATATAT
* *
9776555 CATGTCATATCACACCATAACATGA
1 CATGCCATATCAAACCATAACATGA
* *
9776580 CATGCCATATCAAATCATATCATG
1 CATGCCATATCAAACCATAACATG
9776604 TCCTACCCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.27
Consensus pattern (25 bp):
CATGCCATATCAAACCATAACATGA
Found at i:9782952 original size:25 final size:25
Alignment explanation
Indices: 9782909--9782957 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
9782899 AGAAATATAT
* *
9782909 CATGTCATATCACACCATAACATGG
1 CATGCCATATCAAACCATAACATGG
* *
9782934 CATGCCATATCAAATCATATCATG
1 CATGCCATATCAAACCATAACATG
9782958 TCCTACCCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.27
Consensus pattern (25 bp):
CATGCCATATCAAACCATAACATGG
Found at i:9785897 original size:17 final size:17
Alignment explanation
Indices: 9785868--9785911 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
9785858 GCTTCAAAAA
*
9785868 CACACACAATTGTGTGG
1 CACACACAGTTGTGTGG
*
9785885 CACATACAGTTGTGTGG
1 CACACACAGTTGTGTGG
9785902 CACACACAGT
1 CACACACAGT
9785912 CTACCACATG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (17 bp):
CACACACAGTTGTGTGG
Found at i:9785962 original size:27 final size:29
Alignment explanation
Indices: 9785904--9785959 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
9785894 TTGTGTGGCA
**
9785904 CACACAGTCTACCACATGGCCTTGTGGTG
1 CACACAGTCTACCACATAACCTTGTGGTG
*
9785933 CACACGGTCTACCACATAACCTTGTGG
1 CACACAGTCTACCACATAACCTTGTGG
9785960 CACTGGACAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (29 bp):
CACACAGTCTACCACATAACCTTGTGGTG
Found at i:9787890 original size:48 final size:48
Alignment explanation
Indices: 9787814--9787994 Score: 222
Period size: 48 Copynumber: 3.8 Consensus size: 48
9787804 CTCGCACCTT
* ** * *
9787814 AAGTGCCAATATCATGGCCTAAAACCAAATCAATG-AAGCTTACACCCG
1 AAGTGCCTATATCATGGCCCGAAGCCAAATCAATGTAA-CTCACACCCG
* * * *
9787862 AAGTGCCGATATCATGGCCCGAAGCCAAATTAATGTAACTCATATCCG
1 AAGTGCCTATATCATGGCCCGAAGCCAAATCAATGTAACTCACACCCG
* *
9787910 AAGTGCCTATATCATGGCTC-AACGCCAAATCAATGTAACTCGCACCCG
1 AAGTGCCTATATCATGGCCCGAA-GCCAAATCAATGTAACTCACACCCG
*
9787958 AAGTGCCTATATCATGGCTCGAAGCCAAATCAATGTA
1 AAGTGCCTATATCATGGCCCGAAGCCAAATCAATGTA
9787995 TTCCCTAGTG
Statistics
Matches: 116, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
47 2 0.02
48 110 0.95
49 4 0.03
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (48 bp):
AAGTGCCTATATCATGGCCCGAAGCCAAATCAATGTAACTCACACCCG
Found at i:9787981 original size:96 final size:96
Alignment explanation
Indices: 9787814--9787994 Score: 258
Period size: 96 Copynumber: 1.9 Consensus size: 96
9787804 CTCGCACCTT
*
9787814 AAGTGCCAATATCATGGCCTAAAACCAAATCAATGAAGCTTACACCCGAAGTGCCGATATCATGG
1 AAGTGCCAATATCATGGCCTAAAACCAAATCAATGAAGCTCACACCCGAAGTGCCGATATCATGG
*
9787879 CCCGAAGCCAAATTAATGTAACTCATATCCG
66 CCCGAAGCCAAATCAATGTAACTCATATCCG
* ** * *
9787910 AAGTGCCTATATCATGG-CTCAACGCCAAATCAATGTAA-CTCGCACCCGAAGTGCCTATATCAT
1 AAGTGCCAATATCATGGCCT-AAAACCAAATCAATG-AAGCTCACACCCGAAGTGCCGATATCAT
*
9787973 GGCTCGAAGCCAAATCAATGTA
64 GGCCCGAAGCCAAATCAATGTA
9787995 TTCCCTAGTG
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
95 2 0.03
96 71 0.95
97 2 0.03
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.22
Consensus pattern (96 bp):
AAGTGCCAATATCATGGCCTAAAACCAAATCAATGAAGCTCACACCCGAAGTGCCGATATCATGG
CCCGAAGCCAAATCAATGTAACTCATATCCG
Found at i:9800056 original size:48 final size:48
Alignment explanation
Indices: 9799980--9800096 Score: 189
Period size: 48 Copynumber: 2.4 Consensus size: 48
9799970 TATGTTTTGA
* * *
9799980 GCCCAAAGCCAAATCAATGTAACTCACACCCGAAGTGTCTATATCATG
1 GCCCAAAGCCAAATCAATGTAACTCACACCCAAAATGCCTATATCATG
* *
9800028 GCTCGAAGCCAAATCAATGTAACTCACACCCAAAATGCCTATATCATG
1 GCCCAAAGCCAAATCAATGTAACTCACACCCAAAATGCCTATATCATG
9800076 GCCCAAAGCCAAATCAATGTA
1 GCCCAAAGCCAAATCAATGTA
9800097 TTCCCTAATG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.38, C:0.29, G:0.14, T:0.20
Consensus pattern (48 bp):
GCCCAAAGCCAAATCAATGTAACTCACACCCAAAATGCCTATATCATG
Found at i:9816095 original size:43 final size:43
Alignment explanation
Indices: 9816003--9816105 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
9815993 ATTTATTTAA
* * ***
9816003 AAAAACGCCACTAAAGGTCATGACCTTTAGCGACGCTTTTTTC
1 AAAAACGCCGCTAAAGGGCATGACCTTTAGCGACGCTTTACCC
** * * *
9816046 GCAAACGCCGTTAAAGGGCATGGCCTTTAGCGGCGCTTTACCC
1 AAAAACGCCGCTAAAGGGCATGACCTTTAGCGACGCTTTACCC
9816089 AAAAACGCCGCTAAAGG
1 AAAAACGCCGCTAAAGG
9816106 TACTAAAATT
Statistics
Matches: 47, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGGCATGACCTTTAGCGACGCTTTACCC
Found at i:9816253 original size:19 final size:21
Alignment explanation
Indices: 9816212--9816259 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
9816202 TTAAAATTTT
9816212 AACTAAAAATATTAAAATAAA
1 AACTAAAAATATTAAAATAAA
* *
9816233 AA-TAAAAAT-TTATAATCAA
1 AACTAAAAATATTAAAATAAA
9816252 AACTAAAA
1 AACTAAAA
9816260 TAAATAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (21 bp):
AACTAAAAATATTAAAATAAA
Found at i:9819487 original size:6 final size:6
Alignment explanation
Indices: 9819478--9819502 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9819468 TTTCAAAACC
9819478 AAAGGG AAAGGG AAAGGG AAAGGG A
1 AAAGGG AAAGGG AAAGGG AAAGGG A
9819503 TCGTATGGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (6 bp):
AAAGGG
Found at i:9820186 original size:46 final size:47
Alignment explanation
Indices: 9820121--9820251 Score: 138
Period size: 48 Copynumber: 2.7 Consensus size: 47
9820111 CCATATGATG
* * * *
9820121 TTTTTGGGGTTTAGGGTTTTAGGGATTATAGATTAGTGTTTAAGGTT
1 TTTTTGGAGTTTAGGGTTTTAGGGATTATAGACTAGTGTCTAAGATT
* *
9820168 TTTTT-GAGTTTAGGGTTTTAGGAGTTATATAGACTAGTGTCTATGATT
1 TTTTTGGAGTTTAGGGTTTTAGG-GAT-TATAGACTAGTGTCTAAGATT
* * *
9820216 TTTTTGGGGGTTTAAGGTTTTAGGGGTTATATGACT
1 TTTTT-GGAGTTTAGGGTTTTAGGGATTATA-GACT
9820252 TTTAGCGGTG
Statistics
Matches: 70, Mismatches: 9, Indels: 8
0.80 0.10 0.09
Matches are distributed among these distances:
46 16 0.23
47 7 0.10
48 26 0.37
49 6 0.09
50 15 0.21
ACGTcount: A:0.20, C:0.02, G:0.30, T:0.48
Consensus pattern (47 bp):
TTTTTGGAGTTTAGGGTTTTAGGGATTATAGACTAGTGTCTAAGATT
Found at i:9820295 original size:40 final size:40
Alignment explanation
Indices: 9820251--9820564 Score: 367
Period size: 40 Copynumber: 7.6 Consensus size: 40
9820241 GTTATATGAC
* * * * *
9820251 TTTTAGCGGTGTTTTACCAAAAACGCCGTTATTGTTCTGT
1 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGT
* *
9820291 TTTTAGCGGCGCTCGGCGCTTTACCAAAAACGCCGCTATTGCTCTTTT
1 TTTTA---GCG----GCGCTTTGCCAAAAACGCCGCTATTGCTC-TGT
* * * *
9820339 TTTTAGCAGCGCTTCGCCAAAAAAGCCGCTATTGCTCTAT
1 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGT
9820379 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGTT
1 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTG-T
* * *
9820420 TTTTAGCTGCGCTTTGCCAAAAACGCCGCGATTGCTCTGG
1 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGT
** *
9820460 TTTTAGCTACGCTTTGCCAAAAAACGCCGCTATTGCTATGT
1 TTTTAGCGGCGCTTTGCC-AAAAACGCCGCTATTGCTCTGT
9820501 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGT
* *
9820541 TTTTAGTGGCGCTTTACCAAAAAC
1 TTTTAGCGGCGCTTTGCCAAAAAC
9820565 AACGCTAAGT
Statistics
Matches: 238, Mismatches: 26, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
40 102 0.43
41 99 0.42
43 3 0.01
45 2 0.01
47 25 0.11
48 7 0.03
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (40 bp):
TTTTAGCGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGT
Found at i:9820439 original size:81 final size:81
Alignment explanation
Indices: 9820304--9820564 Score: 380
Period size: 81 Copynumber: 3.2 Consensus size: 81
9820294 TAGCGGCGCT
* * *
9820304 CGGCGCTTTACCAAAAACGCCGCTATTGCTCTTTTTTTTAGCAGCGCTTCGCCAAAAAAGCCGCT
1 CGGCGCTTTACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCAGCGCTTTGCCAAAAACGCCGCT
*
9820369 ATTGCTCTATTTTTAG
66 ATTGCTCTGTTTTTAG
* * *
9820385 CGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGTTTTTTAGCTGCGCTTTGCCAAAAACGCCGCG
1 CGGCGCTTTACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCAGCGCTTTGCCAAAAACGCCGCT
*
9820450 ATTGCTCTGGTTTTAG
66 ATTGCTCTGTTTTTAG
** * * *
9820466 CTACGCTTTGCCAAAAAACGCCGCTATTGCTATG-TTTTTAGCGGCGCTTTGCCAAAAACGCCGC
1 CGGCGCTTTACC-AAAAACGCCGCTATTGCTCTGTTTTTTAGCAGCGCTTTGCCAAAAACGCCGC
9820530 TATTGCTCTGTTTTTAG
65 TATTGCTCTGTTTTTAG
*
9820547 TGGCGCTTTACCAAAAAC
1 CGGCGCTTTACCAAAAAC
9820565 AACGCTAAGT
Statistics
Matches: 161, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 6 0.04
81 135 0.84
82 20 0.12
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (81 bp):
CGGCGCTTTACCAAAAACGCCGCTATTGCTCTGTTTTTTAGCAGCGCTTTGCCAAAAACGCCGCT
ATTGCTCTGTTTTTAG
Found at i:9820571 original size:40 final size:40
Alignment explanation
Indices: 9820304--9820564 Score: 369
Period size: 41 Copynumber: 6.5 Consensus size: 40
9820294 TAGCGGCGCT
* *
9820304 CGGCGCTTTACCAAAAACGCCGCTATTGCTCTTTTTTTTAG
1 CGGCGCTTTGCCAAAAACGCCGCTATTGCTC-TGTTTTTAG
* * * *
9820345 CAGCGCTTCGCCAAAAAAGCCGCTATTGCTCTATTTTTAG
1 CGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGTTTTTAG
9820385 CGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGTTTTTTAG
1 CGGCGCTTTGCCAAAAACGCCGCTATTGCTCTG-TTTTTAG
* * *
9820426 CTGCGCTTTGCCAAAAACGCCGCGATTGCTCTGGTTTTAG
1 CGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGTTTTTAG
** *
9820466 CTACGCTTTGCCAAAAAACGCCGCTATTGCTATGTTTTTAG
1 CGGCGCTTTGCC-AAAAACGCCGCTATTGCTCTGTTTTTAG
9820507 CGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGTTTTTAG
1 CGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGTTTTTAG
* *
9820547 TGGCGCTTTACCAAAAAC
1 CGGCGCTTTGCCAAAAAC
9820565 AACGCTAAGT
Statistics
Matches: 197, Mismatches: 21, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
40 97 0.49
41 100 0.51
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (40 bp):
CGGCGCTTTGCCAAAAACGCCGCTATTGCTCTGTTTTTAG
Found at i:9839182 original size:6 final size:6
Alignment explanation
Indices: 9839167--9839213 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
9839157 TTTATTTATT
* * *
9839167 AATA-A AATATA AATATA AATAT- AATTTA AATTTA AATTTA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
9839213 A
1 A
9839214 TTTTATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
5 8 0.21
6 30 0.79
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AATATA
Found at i:9839218 original size:12 final size:12
Alignment explanation
Indices: 9839171--9839218 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
9839161 TTTATTAATA
*
9839171 AAATATAAATAT
1 AAATATAAATTT
9839183 AAATAT-AATTT
1 AAATATAAATTT
*
9839194 AAATTTAAATTT
1 AAATATAAATTT
*
9839206 AAATATAATTTT
1 AAATATAAATTT
9839218 A
1 A
9839219 TTTTAGGACA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
11 9 0.29
12 22 0.71
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATATAAATTT
Found at i:9839223 original size:23 final size:23
Alignment explanation
Indices: 9839171--9839216 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
9839161 TTTATTAATA
*
9839171 AAATATAAATATAAATATAATTT
1 AAATTTAAATATAAATATAATTT
*
9839194 AAATTTAAATTTAAATATAATTT
1 AAATTTAAATATAAATATAATTT
9839217 TATTTTAGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AAATTTAAATATAAATATAATTT
Found at i:9840101 original size:127 final size:127
Alignment explanation
Indices: 9839943--9840286 Score: 526
Period size: 127 Copynumber: 2.7 Consensus size: 127
9839933 AAAGAGATGT
** * ** * * * *
9839943 TTGATTATTTGGATAAACGAAAGATTGAAACCTAGCACATTTGGGCACGATTCCTCAAATTTCTA
1 TTGATTATTTAAACAAACGAAAGATCAAAACCCAACACATTAGGGCACGATCCCTCAAATTTCTA
* *
9840008 AACATCAAACATCACCTTTGTTTTAAGGTTTAGAAAACACGGACAAAATTTTAAAGGGAAAC
66 AACATCAAACATCGCCTTTGTTTTAAGGTTTAGAAAACACGAACAAAATTTTAAAGGGAAAC
* * *
9840070 TTGATTATTTAAACAAACGAAATATCAAAACCCAACATATTAGGGCACGATCCCTCGAATTTCTA
1 TTGATTATTTAAACAAACGAAAGATCAAAACCCAACACATTAGGGCACGATCCCTCAAATTTCTA
* * *
9840135 AACATCAAACATCGCCTTTGTTTTAAGGTTTAGAAAATACGAACGAAATTTTAAAGGGAAAT
66 AACATCAAACATCGCCTTTGTTTTAAGGTTTAGAAAACACGAACAAAATTTTAAAGGGAAAC
9840197 TTGATTATTTAAACAAACGAAAGATCAAAACCCAACACATTAGGGCACGATCCCTCAAATTTCTA
1 TTGATTATTTAAACAAACGAAAGATCAAAACCCAACACATTAGGGCACGATCCCTCAAATTTCTA
*
9840262 AACATCAAACTTCGCCTTTGTTTTA
66 AACATCAAACATCGCCTTTGTTTTA
9840287 TAAAGTCGAT
Statistics
Matches: 196, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
127 196 1.00
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (127 bp):
TTGATTATTTAAACAAACGAAAGATCAAAACCCAACACATTAGGGCACGATCCCTCAAATTTCTA
AACATCAAACATCGCCTTTGTTTTAAGGTTTAGAAAACACGAACAAAATTTTAAAGGGAAAC
Found at i:9840640 original size:24 final size:24
Alignment explanation
Indices: 9840608--9840663 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
9840598 TATGGAAAAT
9840608 GATTTAAAGTAAATGATATTAATC
1 GATTTAAAGTAAATGATATTAATC
*
9840632 GATTTAAAGTAAATGATATTAGTC
1 GATTTAAAGTAAATGATATTAATC
*
9840656 AATTTAAA
1 GATTTAAA
9840664 ATCATTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (24 bp):
GATTTAAAGTAAATGATATTAATC
Found at i:9841222 original size:3 final size:3
Alignment explanation
Indices: 9841186--9841364 Score: 95
Period size: 3 Copynumber: 60.0 Consensus size: 3
9841176 TTAATTAGTT
* * * * *
9841186 TAA TAA T-A TGA TAA TAG CAA TAG TAA TAA T-A TAA TAA TAA TAA -AG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
9841231 TAGA AAA TAA TAA TAA TACA TTAA TAA GAA TAA TAA TAG T-A TAT TGA
1 TA-A TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9841278 TAA TAA CAA TAA TGGAA -AA TAA TGA CAA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T--AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9841323 -AC TAA TAAA TAA TAA TAC TAA CAA TAA T-A TAAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
9841365 AAACAACAAG
Statistics
Matches: 131, Mismatches: 30, Indels: 30
0.69 0.16 0.16
Matches are distributed among these distances:
2 13 0.10
3 106 0.81
4 8 0.06
5 4 0.03
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:9841288 original size:23 final size:23
Alignment explanation
Indices: 9841239--9841290 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
9841229 AGTAGAAAAT
*
9841239 AATAATAATACATTAATAAGAAT
1 AATAATAATACATTAATAAGAAC
* * * *
9841262 AATAATAGTATATTGATAATAAC
1 AATAATAATACATTAATAAGAAC
9841285 AATAAT
1 AATAAT
9841291 GGAAAATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.33
Consensus pattern (23 bp):
AATAATAATACATTAATAAGAAC
Found at i:9841380 original size:24 final size:24
Alignment explanation
Indices: 9841329--9841381 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
9841319 ATAAACTAAT
** * * *
9841329 AAATAATAATACTAACAATAATAT
1 AAATAATAATAAAAACAACAAGAG
9841353 AAATAATAATAAAAACAACAAGAG
1 AAATAATAATAAAAACAACAAGAG
9841377 AAATA
1 AAATA
9841382 GCAACAACAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.68, C:0.08, G:0.04, T:0.21
Consensus pattern (24 bp):
AAATAATAATAAAAACAACAAGAG
Found at i:9843301 original size:44 final size:45
Alignment explanation
Indices: 9843202--9843314 Score: 138
Period size: 44 Copynumber: 2.5 Consensus size: 45
9843192 TTCAATCTGT
* * * * * *
9843202 TCCATTGCAACTTCAGGGAAATAAGATTTGTCATCTTCAGCCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTCAACTTCAACCTAC
* *
9843247 TCCACCGCAACTTCAAGGAGATAAGACTTGT-AACTTCAACCTAC
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTCAACTTCAACCTAC
*
9843291 TCCACTGCAACTTTAGGGAGATAA
1 TCCACTGCAACTTCAGGGAGATAA
9843315 AGTTTGTTTT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
44 31 0.54
45 26 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.27
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTCAACTTCAACCTAC
Found at i:9848224 original size:17 final size:18
Alignment explanation
Indices: 9848202--9848242 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
9848192 TTAAACGCGC
9848202 TCTTCTCC-TCT-CTTGTT
1 TCTTCTCCATCTCCTT-TT
9848219 TCTTCTCCATCTCCTTTT
1 TCTTCTCCATCTCCTTTT
9848237 TCTTCT
1 TCTTCT
9848243 ACCTTGCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.36
18 11 0.50
19 3 0.14
ACGTcount: A:0.02, C:0.37, G:0.02, T:0.59
Consensus pattern (18 bp):
TCTTCTCCATCTCCTTTT
Found at i:9852870 original size:80 final size:80
Alignment explanation
Indices: 9852731--9852981 Score: 285
Period size: 80 Copynumber: 3.2 Consensus size: 80
9852721 CTAACGGGGT
* *
9852731 TAAGTCCCGAAGACATTTGTGCTAGTGATTATTTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGACATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
* *
9852796 TTATTA-ATTCTGGGC
66 TTACTATA-TCCGGGC
* * * * *
9852811 TACGTTCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGACATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
9852876 TTACTATATCCGGGT
66 TTACTATATCCGGGC
* * * *
9852891 TAAGTCCCGAAGACATTTGTGCTAGTGAC-CATATCCGGGCTAAGACCCGACGGC-CTTGTGCGA
1 TAAGTCCCGAAGACATTTGTGCTAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
***
9852954 GTGGTTATATCC-GGC
65 GTTACTATATCCGGGC
* *
9852969 TAAATCCCAAAGA
1 TAAGTCCCGAAGA
9852982 TAATTGGGTT
Statistics
Matches: 144, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
78 13 0.09
79 19 0.13
80 111 0.77
81 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (80 bp):
TAAGTCCCGAAGACATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTATATCCGGGC
Found at i:9852964 original size:39 final size:40
Alignment explanation
Indices: 9852731--9852976 Score: 257
Period size: 40 Copynumber: 6.2 Consensus size: 40
9852721 CTAACGGGGT
* * * *
9852731 TAAGTCCCGAAGACATTTGTGCTAGTGATTATTTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* * *
9852771 TAAGTCCCGAAGGCATTTGTGCGAGTTATTA-ATTCTGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
* * *
9852811 TACGTTCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCGGGC
* *
9852851 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* * *
9852891 TAAGTCCCGAAGACATTTGTGCTAGTGACCATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
* * * **
9852931 TAAGACCCGACGGC-CTTGTGCGAGTGGTTATATCC-GGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
*
9852969 TAAATCCC
1 TAAGTCCC
9852977 AAAGATAATT
Statistics
Matches: 177, Mismatches: 27, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
38 9 0.05
39 16 0.09
40 151 0.85
41 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
Found at i:9858828 original size:40 final size:40
Alignment explanation
Indices: 9858744--9858968 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
9858734 TCGAATGATG
* * * *
9858744 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
9858784 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9858824 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
9858863 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
9858903 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
9858944 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
9858969 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:9858990 original size:119 final size:119
Alignment explanation
Indices: 9858744--9859001 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
9858734 TCGAATGATG
* *
9858744 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * **
9858809 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
9858863 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
9858926 TTGTGCAAGTTACT-ATAACCGGGCTATGTCTCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCAAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
9858983 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
9859002 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.72
120 30 0.26
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCAAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:9862787 original size:40 final size:40
Alignment explanation
Indices: 9862729--9862978 Score: 233
Period size: 40 Copynumber: 6.3 Consensus size: 40
9862719 CTAACGGGGT
* * *
9862729 TAAGTCCCGAA-GACATTTGTGCTAGTGATTATTTCCGGGC
1 TAAGTCCCGAAGGA-ATTTGTGCGAGTGACTATATCCGGGC
* * *
9862769 TAAGTCCCGAAGGAATTTGTGCGAGTTATTA-ATTTCGGGC
1 TAAGTCCCGAAGGAATTTGTGCGAGTGACTATA-TCCGGGC
* * *
9862809 TAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCTGGGC
1 TAAGTCCCGAAGGAATTTGTGCGAGTGACTATA-TCCGGGC
* * *
9862849 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGT
1 TAAGTCCCGAAGGAATTTGTGCGAGTGACTATATCCGGGC
* *
9862889 TAAGTCCCGAA-GACATTTGTGCTAGTGACCATATCCGGGC
1 TAAGTCCCGAAGGA-ATTTGTGCGAGTGACTATATCCGGGC
* * ** **
9862929 TAAGACCCGACGG-CCTTGTGCGAGTGGTTATATCC-GGC
1 TAAGTCCCGAAGGAATTTGTGCGAGTGACTATATCCGGGC
*
9862967 TAAATCCCGAAG
1 TAAGTCCCGAAG
9862979 ATAATTGGGT
Statistics
Matches: 179, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
38 12 0.07
39 17 0.09
40 146 0.82
41 4 0.02
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
TAAGTCCCGAAGGAATTTGTGCGAGTGACTATATCCGGGC
Found at i:9862867 original size:80 final size:80
Alignment explanation
Indices: 9862729--9862979 Score: 294
Period size: 80 Copynumber: 3.2 Consensus size: 80
9862719 CTAACGGGGT
* * *
9862729 TAAGTCCCGAAGACATTTGTGCTAGTGATTATTTCCGGGCTAAGTCCCGAAGGAATTTGTGCGAG
1 TAAGTCCCGAAGACATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
* *
9862794 TTATTA-ATTTCGGGC
66 TTACTATA-TCCGGGC
* * * *
9862809 TAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGTCCCGAAGGCATTTGTGCGAG
1 TAAGTCCCGAAGACATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
*
9862874 TTACTATATCCGGGT
66 TTACTATATCCGGGC
* * * *
9862889 TAAGTCCCGAAGACATTTGTGCTAGTGAC-CATATCCGGGCTAAGACCCGACGGC-CTTGTGCGA
1 TAAGTCCCGAAGACATTTGTGCTAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
***
9862952 GTGGTTATATCC-GGC
65 GTTACTATATCCGGGC
*
9862967 TAAATCCCGAAGA
1 TAAGTCCCGAAGA
9862980 TAATTGGGTT
Statistics
Matches: 146, Mismatches: 23, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
78 14 0.10
79 19 0.13
80 112 0.77
81 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (80 bp):
TAAGTCCCGAAGACATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTATATCCGGGC
Found at i:9864675 original size:12 final size:12
Alignment explanation
Indices: 9864658--9864705 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
9864648 TTTTAGCTAA
9864658 CTGCTCTTGCAT
1 CTGCTCTTGCAT
9864670 CTGCTCTTGCAT
1 CTGCTCTTGCAT
* *
9864682 CTGCACTCGCAAT
1 CTGCTCTTGC-AT
9864695 -TGCTCTTGCAT
1 CTGCTCTTGCAT
9864706 ATCCCTTTGC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
11 2 0.06
12 27 0.87
13 2 0.06
ACGTcount: A:0.12, C:0.33, G:0.17, T:0.38
Consensus pattern (12 bp):
CTGCTCTTGCAT
Found at i:9864880 original size:19 final size:20
Alignment explanation
Indices: 9864856--9864910 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 20
9864846 TCATGTAATT
*
9864856 TAATGCATATG-ATGAAATG
1 TAATGCAAATGAATGAAATG
9864875 TAATGCAAATGAATGAAATG
1 TAATGCAAATGAATGAAATG
9864895 -AATGCAAATGAATGAA
1 TAATGCAAATGAATGAA
9864911 TGCAAAAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 26 0.76
20 8 0.24
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.25
Consensus pattern (20 bp):
TAATGCAAATGAATGAAATG
Found at i:9864903 original size:10 final size:10
Alignment explanation
Indices: 9864857--9864908 Score: 65
Period size: 10 Copynumber: 5.4 Consensus size: 10
9864847 CATGTAATTT
*
9864857 AATGCATATG
1 AATGCAAATG
9864867 -ATG-AAATG
1 AATGCAAATG
9864875 TAATGCAAATG
1 -AATGCAAATG
9864886 AATG-AAATG
1 AATGCAAATG
9864895 AATGCAAATG
1 AATGCAAATG
9864905 AATG
1 AATG
9864909 AATGCAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
8 4 0.11
9 12 0.32
10 16 0.43
11 5 0.14
ACGTcount: A:0.48, C:0.06, G:0.21, T:0.25
Consensus pattern (10 bp):
AATGCAAATG
Found at i:9864910 original size:14 final size:15
Alignment explanation
Indices: 9864886--9864916 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
9864876 AATGCAAATG
9864886 AATGAAATGAATGCA
1 AATGAAATGAATGCA
9864901 AATG-AATGAATGCA
1 AATGAAATGAATGCA
9864915 AA
1 AA
9864917 AAGATGCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (15 bp):
AATGAAATGAATGCA
Found at i:9868660 original size:126 final size:127
Alignment explanation
Indices: 9868301--9868664 Score: 532
Period size: 127 Copynumber: 2.9 Consensus size: 127
9868291 GAAAAATATA
** ** * * *
9868301 GACGAAATTTTAAAGGGATGTTTGATTATTTGGATAAACGAAAGATCGAAACCTAGCACATTAGG
1 GACGAAATTTTAAAGGGAAATTTGATTATTTAAACAAACGAAAGATCGAAACCCAACACATTAGG
* * * * *
9868366 GCATGATTCCTCAAATTTCTAAACATAAAACATCACCTTTCTTTTAATGTTTAGAAAACACG
66 GCATGATCCCTCAAATTTCTAAACATCAAACATCGCCTTTGTTTTAAGGTTTAGAAAACACG
9868428 GACGAAATTTTAAAGGGAAATTTGATTATTTAAACAAACGAAAGATCGAAACCCAACACATTAGG
1 GACGAAATTTTAAAGGGAAATTTGATTATTTAAACAAACGAAAGATCGAAACCCAACACATTAGG
**
9868493 GCATGATCCCTCAAATTTCTAAACATCAAACATCGCCTTTGTTTTAAGGTTTAGAAAATGCG
66 GCATGATCCCTCAAATTTCTAAACATCAAACATCGCCTTTGTTTTAAGGTTTAGAAAACACG
* * *
9868555 GATGAAATTTTAAAGGGAAATTTGATTATTTAAACAAATG-AAGATCGAAACCCAACATATTAGG
1 GACGAAATTTTAAAGGGAAATTTGATTATTTAAACAAACGAAAGATCGAAACCCAACACATTAGG
* * * *
9868619 GCACGATCCCTCGAATTTCTAAACATCAAACTTCGCATTTGTTTTA
66 GCATGATCCCTCAAATTTCTAAACATCAAACATCGCCTTTGTTTTA
9868665 TAAAGTCAAC
Statistics
Matches: 216, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
126 65 0.30
127 151 0.70
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.30
Consensus pattern (127 bp):
GACGAAATTTTAAAGGGAAATTTGATTATTTAAACAAACGAAAGATCGAAACCCAACACATTAGG
GCATGATCCCTCAAATTTCTAAACATCAAACATCGCCTTTGTTTTAAGGTTTAGAAAACACG
Found at i:9869595 original size:3 final size:3
Alignment explanation
Indices: 9869589--9869749 Score: 118
Period size: 3 Copynumber: 53.7 Consensus size: 3
9869579 ATAGCAAAAG
* *
9869589 TAA TAA T-A TAA TAA TAA -AG TAGA AAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
* * * * *
9869633 TAA TAA TACA TTAA TAA GAA TAA TAA TAG T-A TAT TGA TAA TAA AAA
1 TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
9869679 TAA TGGAA -AA TAA TGA TAA -AA TAA TAA TAA TAA TAA -AC TAA GGAA
1 TAA T--AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* *
9869724 TAA TAA TAA TAA TAC TAA CAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
9869750 TAAATCATAA
Statistics
Matches: 122, Mismatches: 24, Indels: 24
0.72 0.14 0.14
Matches are distributed among these distances:
2 9 0.07
3 104 0.85
4 5 0.04
5 4 0.03
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:9873123 original size:27 final size:28
Alignment explanation
Indices: 9873086--9873225 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
9873076 AGCATGGCTG
* *
9873086 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
9873112 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
9873140 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
9873167 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* * *
9873194 CCAAAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
9873221 CCAGA
1 CCAGA
9873226 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:9874874 original size:26 final size:26
Alignment explanation
Indices: 9874836--9874919 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
9874826 CATGAAATTC
* *
9874836 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
9874862 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
9874888 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
9874914 TTATCA
1 TTATCA
9874920 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:9878846 original size:17 final size:18
Alignment explanation
Indices: 9878824--9878857 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9878814 CGGAAGATAG
9878824 AAAAACATTTT-TAAAAA
1 AAAAACATTTTCTAAAAA
*
9878841 AAAAACCTTTTCTAAAA
1 AAAAACATTTTCTAAAA
9878858 GTTTTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAACATTTTCTAAAAA
Found at i:9879897 original size:87 final size:87
Alignment explanation
Indices: 9879791--9879993 Score: 262
Period size: 87 Copynumber: 2.3 Consensus size: 87
9879781 TATCTTCAGT
* ** * ** **
9879791 CTGCTTCACTACAACTTTAGGGAGATAAGATCTAACTTCAATTTGCTCCACTGTAACTTCCGGGA
1 CTGCTTCACTGCAACTTTAGGGAGATAAGATCTAACTTCAAACTACTCCACTACAACTTCAAGGA
9879856 GTTGAGATTTGTAACTTTAGAC
66 GTTGAGATTTGTAACTTTAGAC
* * *
9879878 CTGCTCCACTGCAACTTTAGGGAGATAAGATCTAACTTCAAACTATTCCACTACAACTTTAAGGA
1 CTGCTTCACTGCAACTTTAGGGAGATAAGATCTAACTTCAAACTACTCCACTACAACTTCAAGGA
*
9879943 GTTGAGATTTGTAACTTTTGAC
66 GTTGAGATTTGTAACTTTAGAC
* * * *
9879965 CTACTTCAATGTAACTTCAGGGAGATAAG
1 CTGCTTCACTGCAACTTTAGGGAGATAAG
9879994 GTTCACCATG
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 99 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (87 bp):
CTGCTTCACTGCAACTTTAGGGAGATAAGATCTAACTTCAAACTACTCCACTACAACTTCAAGGA
GTTGAGATTTGTAACTTTAGAC
Found at i:9879901 original size:45 final size:45
Alignment explanation
Indices: 9879834--9879966 Score: 128
Period size: 45 Copynumber: 3.0 Consensus size: 45
9879824 AACTTCAATT
* **
9879834 TGCTCCACTGTAACTTCCGGGAGTTGAGATTTGTAACTTTAGACC
1 TGCTCCACTGCAACTTTAGGGAGTTGAGATTTGTAACTTTAGACC
* * * * *
9879879 TGCTCCACTGCAACTTTAGGGAGATAAGA--TCTAACTTCA-AAC
1 TGCTCCACTGCAACTTTAGGGAGTTGAGATTTGTAACTTTAGACC
** * * *
9879921 TATTCCACTACAACTTTAAGGAGTTGAGATTTGTAACTTTTGACC
1 TGCTCCACTGCAACTTTAGGGAGTTGAGATTTGTAACTTTAGACC
9879966 T
1 T
9879967 ACTTCAATGT
Statistics
Matches: 67, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
42 25 0.37
43 8 0.12
44 7 0.10
45 27 0.40
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (45 bp):
TGCTCCACTGCAACTTTAGGGAGTTGAGATTTGTAACTTTAGACC
Found at i:9879935 original size:42 final size:42
Alignment explanation
Indices: 9879791--9879943 Score: 135
Period size: 42 Copynumber: 3.6 Consensus size: 42
9879781 TATCTTCAGT
* *
9879791 CTGCTTCACTACAACTTTAGGGAGATAAGATCTAACTTCAAT
1 CTGCTCCACTACAACTTTAGGGAGATAAGATCTAACTTCAAA
* ** ** * * * * *
9879833 TTGCTCCACTGTAACTTCCGGGAGTTGAGATTTGTAACTTTAGAC
1 CTGCTCCACTACAACTTTAGGGAGATAAGA--TCTAACTTCA-AA
*
9879878 CTGCTCCACTGCAACTTTAGGGAGATAAGATCTAACTTCAAA
1 CTGCTCCACTACAACTTTAGGGAGATAAGATCTAACTTCAAA
** *
9879920 CTATTCCACTACAACTTTAAGGAG
1 CTGCTCCACTACAACTTTAGGGAG
9879944 TTGAGATTTG
Statistics
Matches: 84, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
42 43 0.51
43 8 0.10
44 8 0.10
45 25 0.30
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (42 bp):
CTGCTCCACTACAACTTTAGGGAGATAAGATCTAACTTCAAA
Found at i:9882712 original size:14 final size:14
Alignment explanation
Indices: 9882693--9882723 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
9882683 ACCAAGACTG
9882693 CCCCAATTTTGTTA
1 CCCCAATTTTGTTA
9882707 CCCCAATTTTGTTA
1 CCCCAATTTTGTTA
9882721 CCC
1 CCC
9882724 ACAACATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.35, G:0.06, T:0.39
Consensus pattern (14 bp):
CCCCAATTTTGTTA
Found at i:9884399 original size:20 final size:20
Alignment explanation
Indices: 9884374--9884414 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
9884364 ATCATCTTCA
9884374 AAATCCTGAGAATCCTCCAT
1 AAATCCTGAGAATCCTCCAT
9884394 AAATCCTGAGAATCCTCCAT
1 AAATCCTGAGAATCCTCCAT
9884414 A
1 A
9884415 TACATATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.24
Consensus pattern (20 bp):
AAATCCTGAGAATCCTCCAT
Found at i:9886283 original size:32 final size:32
Alignment explanation
Indices: 9886242--9886302 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
9886232 AATTCCAGGA
*
9886242 AACCCTCTTGCTATCATTATAGGGAAAGAGGG
1 AACCCTCTTGCTATCATTAGAGGGAAAGAGGG
* *
9886274 AACCCTCTTGCTGTCTTTAGAGGGAAAGA
1 AACCCTCTTGCTATCATTAGAGGGAAAGA
9886303 CTACAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (32 bp):
AACCCTCTTGCTATCATTAGAGGGAAAGAGGG
Found at i:9896699 original size:21 final size:22
Alignment explanation
Indices: 9896667--9896713 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
9896657 TATAAAATGG
*
9896667 ATTTAAATTGAGTACTT-ATAT
1 ATTTAAATTGAGAACTTAATAT
*
9896688 ATTTGAAA-TGAGAATTTAATAT
1 ATTT-AAATTGAGAACTTAATAT
9896710 ATTT
1 ATTT
9896714 TCTATACCCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.40, C:0.02, G:0.11, T:0.47
Consensus pattern (22 bp):
ATTTAAATTGAGAACTTAATAT
Found at i:9896911 original size:67 final size:67
Alignment explanation
Indices: 9896837--9896970 Score: 241
Period size: 67 Copynumber: 2.0 Consensus size: 67
9896827 TCTTTAAACA
*
9896837 GGTAGTTTATTATAAGCAAATGATATTGGTGATCAACAGTATTGAGGTATGTATAAATGTCATTA
1 GGTAGTTTATTATAAGCAAATGATATTGGTGATCAACAGTACTGAGGTATGTATAAATGTCATTA
9896902 CT
66 CT
* *
9896904 GGTAGTTTATTATAATCAAATGATATTGTTGATCAACAGTACTGAGGTATGTATAAATGTCATTA
1 GGTAGTTTATTATAAGCAAATGATATTGGTGATCAACAGTACTGAGGTATGTATAAATGTCATTA
9896969 CT
66 CT
9896971 CGTTGGATTG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.38
Consensus pattern (67 bp):
GGTAGTTTATTATAAGCAAATGATATTGGTGATCAACAGTACTGAGGTATGTATAAATGTCATTA
CT
Found at i:9900415 original size:26 final size:26
Alignment explanation
Indices: 9900379--9900462 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
9900369 TATGAAATTC
9900379 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9900405 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9900431 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9900457 TTATCA
1 TTATCA
9900463 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9902368 original size:30 final size:30
Alignment explanation
Indices: 9902332--9902391 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
9902322 GCAAACATTG
*
9902332 CTCTCAGATCAGATACAGTTCTACGACTTA
1 CTCTCAGATCAGATACAGCTCTACGACTTA
9902362 CTCTCAGATCAGATACAGCTCTACGACTTA
1 CTCTCAGATCAGATACAGCTCTACGACTTA
9902392 GAGCATCGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (30 bp):
CTCTCAGATCAGATACAGCTCTACGACTTA
Found at i:9910068 original size:26 final size:26
Alignment explanation
Indices: 9910032--9910115 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
9910022 CATGAAATTC
9910032 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
9910058 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
9910084 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
9910110 TTATCA
1 TTATCA
9910116 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:9912156 original size:27 final size:26
Alignment explanation
Indices: 9912110--9912170 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
9912100 ATTTGATATA
*
9912110 AAATAATATATAAAACAAATTTCAAAT
1 AAATAATATATAAAACAAA-TTAAAAT
* * *
9912137 AAATAATATGTTAAATAAATTAAAAT
1 AAATAATATATAAAACAAATTAAAAT
*
9912163 GAATAATA
1 AAATAATA
9912171 GACAAAGTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 13 0.45
27 16 0.55
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (26 bp):
AAATAATATATAAAACAAATTAAAAT
Found at i:9912558 original size:27 final size:28
Alignment explanation
Indices: 9912451--9912579 Score: 90
Period size: 27 Copynumber: 4.8 Consensus size: 28
9912441 AAAGAAACTT
* * * *
9912451 AAATAGATAATACATATATAATATTTCA
1 AAATAAATAATATATGTAAAATATTTCA
** *
9912479 AAATAAATAACGTAT-AAAAATATTTCA
1 AAATAAATAATATATGTAAAATATTTCA
* * * *
9912506 AAATAAGT-A-ATATGTATAGTAGTT-A
1 AAATAAATAATATATGTAAAATATTTCA
9912531 AAATAAATAATATATGTAAAATATTT-A
1 AAATAAATAATATATGTAAAATATTTCA
** *
9912558 AAATCTATAATA-ATTTAAAATA
1 AAATAAATAATATATGTAAAATA
9912580 CATAAGACGT
Statistics
Matches: 79, Mismatches: 19, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
25 11 0.14
26 17 0.22
27 40 0.51
28 11 0.14
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (28 bp):
AAATAAATAATATATGTAAAATATTTCA
Found at i:9914508 original size:93 final size:92
Alignment explanation
Indices: 9914331--9914519 Score: 324
Period size: 93 Copynumber: 2.0 Consensus size: 92
9914321 TGTAAATAAC
*
9914331 TTGAATTTTACAATTTGAATAACTTGAATAATTGAAATAATATATTGGTGTAAATACTCTTTTGG
1 TTGAATTTTACAATTTGAATAACTTGAATAATTGAAATAATATATTGGTGCAAATACTCTTTTGG
*
9914396 TCTCTATCAACTCTAAAAATGAGTCTAA
66 TCTCTATCAACTCTAAAAATGAG-CAAA
9914424 TTGAATTTTACAATTTGAATAACTTGAATAATTGAAATAATATATTGGTGCAAATACTCTTTTGG
1 TTGAATTTTACAATTTGAATAACTTGAATAATTGAAATAATATATTGGTGCAAATACTCTTTTGG
* * *
9914489 TCTCTATCAATTTTTAAAATGAGCAAA
66 TCTCTATCAACTCTAAAAATGAGCAAA
9914516 TTGA
1 TTGA
9914520 TTCTCTCTCT
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 7 0.08
93 84 0.92
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (92 bp):
TTGAATTTTACAATTTGAATAACTTGAATAATTGAAATAATATATTGGTGCAAATACTCTTTTGG
TCTCTATCAACTCTAAAAATGAGCAAA
Found at i:9914591 original size:19 final size:20
Alignment explanation
Indices: 9914546--9914597 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
9914536 AAAACTTAAA
9914546 AAAAATT-AAAATAATTTTC
1 AAAAATTCAAAATAATTTTC
*
9914565 AAATATTCAAAAT-A-TTTC
1 AAAAATTCAAAATAATTTTC
9914583 TAAAAATTCTAAAAT
1 -AAAAATTC-AAAAT
9914598 TTATATTTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 4 0.14
19 14 0.50
20 10 0.36
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATTCAAAATAATTTTC
Found at i:9915520 original size:49 final size:48
Alignment explanation
Indices: 9915457--9915580 Score: 158
Period size: 49 Copynumber: 2.5 Consensus size: 48
9915447 CCGTGTGCCA
* * *
9915457 GGCCATGTGGGGCACACGACCATGTGTGTTTTTGTAGCCTGTGTGGCTT
1 GGCCATGT-GGGCACACGACCATGTGTGTTTTTGCAGCCCGTATGGCTT
* **
9915506 GGCCATGTGAGGCACACAACTGTGTGTGTTTTTGCAGCCCGTATGGCTT
1 GGCCATGTG-GGCACACGACCATGTGTGTTTTTGCAGCCCGTATGGCTT
*
9915555 GGCCATGTGGAGCACACGATCATGTG
1 GGCCATGTGG-GCACACGACCATGTG
9915581 AAATCATACA
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 2 0.03
49 61 0.97
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.29
Consensus pattern (48 bp):
GGCCATGTGGGCACACGACCATGTGTGTTTTTGCAGCCCGTATGGCTT
Found at i:9917480 original size:3 final size:3
Alignment explanation
Indices: 9917472--9917546 Score: 57
Period size: 3 Copynumber: 24.7 Consensus size: 3
9917462 ATTCTTGCCC
* * *
9917472 TTA TTA TTA TTA TTA TTA TTA TTTA TTA CT- TTA CTA TCAA TT- TT-
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA T-TA TTA TTA
*
9917516 TGTA TTA TTCA TTA TTA TTG TTA TTA TTA TT
1 T-TA TTA TT-A TTA TTA TTA TTA TTA TTA TT
9917547 GCTACTTATA
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
2 4 0.07
3 45 0.78
4 9 0.16
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:9917575 original size:52 final size:51
Alignment explanation
Indices: 9917474--9917582 Score: 123
Period size: 52 Copynumber: 2.1 Consensus size: 51
9917464 TCTTGCCCTT
* **
9917474 ATTATTATTATTATTATTATTTATTACTTTACTATCAATTTTTGTATTATTC
1 ATTATTATTATTATTATTATTTACTACTTTACTATCAATTTTCATATTA-TC
* * *
9917526 ATTATTATTGTTATTATTA-TTGCTACTTATATTATC-ATTTTCATCATTATC
1 ATTATTATTATTATTATTATTTACTACTT-TACTATCAATTTTCAT-ATTATC
9917577 ATTATT
1 ATTATT
9917583 GTTCATGCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
51 21 0.43
52 28 0.57
ACGTcount: A:0.28, C:0.09, G:0.03, T:0.60
Consensus pattern (51 bp):
ATTATTATTATTATTATTATTTACTACTTTACTATCAATTTTCATATTATC
Found at i:9923312 original size:24 final size:23
Alignment explanation
Indices: 9923285--9923343 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
9923275 AAAAATATTT
*
9923285 AAAAAATAATTTTAAACCTGTTTC
1 AAAAAA-AATTTCAAACCTGTTTC
** *
9923309 AAAAAAAAAATCAAACTTGTTTC
1 AAAAAAAATTTCAAACCTGTTTC
9923332 AAAAAAAATTTC
1 AAAAAAAATTTC
9923344 TTACTTTCTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.54, C:0.12, G:0.03, T:0.31
Consensus pattern (23 bp):
AAAAAAAATTTCAAACCTGTTTC
Found at i:9924163 original size:12 final size:11
Alignment explanation
Indices: 9924146--9924181 Score: 54
Period size: 12 Copynumber: 3.1 Consensus size: 11
9924136 GTAAATGGAC
9924146 TTTGTTATTTTT
1 TTTGTT-TTTTT
9924158 TTTGTTTTTTT
1 TTTGTTTTTTT
9924169 TGTTGTTTTTTT
1 T-TTGTTTTTTT
9924181 T
1 T
9924182 ATTGGGCTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.03, C:0.00, G:0.11, T:0.86
Consensus pattern (11 bp):
TTTGTTTTTTT
Found at i:9924528 original size:44 final size:45
Alignment explanation
Indices: 9924474--9924995 Score: 272
Period size: 44 Copynumber: 11.3 Consensus size: 45
9924464 TCAGTCCGAC
* *
9924474 CCACTACAACTTCAGGGGTATAGGATTTGTAACTTC-ATCTTGCT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTTGCT
* * * **
9924518 CCACTGCAACTTCAGAGAG-ATAAGATTCGCTATGGTAACTTCAATCTAAC-
1 CCACTGCAACTTCAG-GGGTATAGGA-T---T-T-GTAGCTTCAATCTTGCT
* *
9924568 CCACTGCAACTTCAGCGGTATATGATTTGTAGCTTC-ATCTTGCT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTTGCT
* * * * *
9924612 CTACTACAACTTCA--GGTAGCTAAGATTCGCTATGGTAACTTCAAAC-TGAC-
1 CCACTGCAACTTCAGGGGTA--TAGGA-T---T-T-GTAGCTTCAATCTTG-CT
** **
9924662 CCACTATAACTTCAAAGGTATAGGATTTGTAGCTTC-ATCTTGCT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTTGCT
* * * *
9924706 CCACTTG-AACTTCAGGGAG-ATAAGATTCATTATGGTAACTTCAATCCTACT
1 CCAC-TGCAACTTCAGGG-GTAT-AG---GATT-T-GTAGCTTCAATCTTGCT
* * **
9924757 -CACTGCAACTTTAGGGGTATAGGATTTGTAGCTTTAATC-AACT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTTGCT
* * * *
9924800 CCACTGCATCCTCAGGGAG-ATAAGATTCGCTATGGTAGATTCAAT-TTGAC-
1 CCACTGCAACTTCAGGG-GTATAGGA-T---T-T-GTAGCTTCAATCTTG-CT
* * *
9924850 CCACTGCAACTTCAAGGATATAGAATTTGTAGCTTCAAT-TTGCT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTTGCT
* *
9924894 CCACTACAACTTCAGAGGTATAGGATTTGTAGCTTCAATC-TGCT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTTGCT
* * * *
9924938 CTACTGTAACTTCAGAGGTATAGGATTTGTAGCTTCAATC-TACT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTTGCT
9924982 CCACTGCAACTTCA
1 CCACTGCAACTTCA
9924996 AAGAGATAAG
Statistics
Matches: 371, Mismatches: 59, Indels: 96
0.71 0.11 0.18
Matches are distributed among these distances:
42 4 0.01
43 12 0.03
44 196 0.53
45 14 0.04
46 6 0.02
48 6 0.02
49 13 0.04
50 101 0.27
51 15 0.04
52 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTTGCT
Found at i:9924570 original size:94 final size:94
Alignment explanation
Indices: 9924413--9925234 Score: 734
Period size: 94 Copynumber: 8.8 Consensus size: 94
9924403 GTGTTACGAT
* * * * * * ** * *
9924413 TTCATCTTGCTCCATTGCAACTTCA-AGGAGTTAAGATTTGTTGTTGTAGTTTCAGTCCGACCCA
1 TTCATCTTGCTCCACTGCAACTTCAGA-GAGATAAGATTCGCTATGGTAACTTCAATCTGACCCA
* * *
9924477 CTACAACTTCAGGGGTATAGGATTTGTAAC
65 CTGCAACTTCAGAGGTATAGGATTTGTAGC
*
9924507 TTCATCTTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAACTTCAATCTAACCCAC
1 TTCATCTTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAACTTCAATCTGACCCAC
* *
9924572 TGCAACTTCAGCGGTATATGATTTGTAGC
66 TGCAACTTCAGAGGTATAGGATTTGTAGC
* * * *
9924601 TTCATCTTGCTCTACTACAACTTCAG-GTAGCTAAGATTCGCTATGGTAACTTCAAACTGACCCA
1 TTCATCTTGCTCCACTGCAACTTCAGAG-AGATAAGATTCGCTATGGTAACTTCAATCTGACCCA
** *
9924665 CTATAACTTCAAAGGTATAGGATTTGTAGC
65 CTGCAACTTCAGAGGTATAGGATTTGTAGC
* ** *
9924695 TTCATCTTGCTCCACTTG-AACTTCAGGGAGATAAGATTCATTATGGTAACTTCAATCCT-ACTC
1 TTCATCTTGCTCCAC-TGCAACTTCAGAGAGATAAGATTCGCTATGGTAACTTCAAT-CTGACCC
* *
9924758 ACTGCAACTTTAGGGGTATAGGATTTGTAGC
64 ACTGCAACTTCAGAGGTATAGGATTTGTAGC
* ** * * * *
9924789 TTTAATC-AACTCCACTGCATCCTCAGGGAGATAAGATTCGCTATGGTAGA-TTCAATTTGACCC
1 -TTCATCTTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTA-ACTTCAATCTGACCC
*
9924852 ACTGCAACTTCA-AGGATATAGAATTTGTAGC
64 ACTGCAACTTCAGAGG-TATAGGATTTGTAGC
* * *
9924883 TTCAAT-TTGCTCCACTACAACTTCAGAG-GTATAGGA-T---T-T-GTAGCTTCAATCTG-CTC
1 TTC-ATCTTGCTCCACTGCAACTTCAGAGAG-ATAAGATTCGCTATGGTAACTTCAATCTGAC-C
* *
9924939 TACTGTAACTTCAGAGGTATAGGATTTGTAGC
63 CACTGCAACTTCAGAGGTATAGGATTTGTAGC
* * *
9924971 TTCAATC-TACTCCACTGCAACTTCAAAGAGATAAGATTCACTATGGTAGA-TTCAATCTGACCC
1 TTC-ATCTTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTA-ACTTCAATCTGACCC
*
9925034 ACTGCAACTTCAGTA-GTATAAGATTTGTAGC
64 ACTGCAACTTCAG-AGGTATAGGATTTGTAGC
* * ** ** * * *
9925065 TTTAATC-TACTTTACAACAACTTTAAAGAGATAAGATTCGATATGGTAGA-TTCAATCTGACCC
1 -TTCATCTTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTA-ACTTCAATCTGACCC
* ** *
9925128 ACTACAACTTTTGAGGTATACGATTTGTAGC
64 ACTGCAACTTCAGAGGTATAGGATTTGTAGC
*** * * * **
9925159 TTCAAT-AAACTCCATTGCAACTTCAGGGAGATAAGATTCGCTATGGTAAATTCAATCTGACCTG
1 TTC-ATCTTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAACTTCAATCTGACCCA
*
9925223 CTGCATCTTCAG
65 CTGCAACTTCAG
9925235 GGAGATAAGA
Statistics
Matches: 597, Mismatches: 99, Indels: 64
0.79 0.13 0.08
Matches are distributed among these distances:
87 1 0.00
88 66 0.11
89 6 0.01
90 1 0.00
92 1 0.00
93 15 0.03
94 492 0.82
95 15 0.03
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (94 bp):
TTCATCTTGCTCCACTGCAACTTCAGAGAGATAAGATTCGCTATGGTAACTTCAATCTGACCCAC
TGCAACTTCAGAGGTATAGGATTTGTAGC
Found at i:9925285 original size:50 final size:50
Alignment explanation
Indices: 9925092--9925286 Score: 163
Period size: 50 Copynumber: 4.0 Consensus size: 50
9925082 CAACTTTAAA
* * **
9925092 GAGATAAGATTCGATATGGTAGATTCAATCTGACCCACTACAACTT--TT
1 GAGATAAGATTCGTTATGGTAGATTCAATCAGACCCACTACAACTTCAGG
* * * * * *
9925140 GAGGT---ATACGATT-T-GTAGCTTCAAT-AAACTCCATTGCAACTTCAGG
1 GAGATAAGATTCG-TTATGGTAGATTCAATCAGAC-CCACTACAACTTCAGG
* * * ** * *
9925186 GAGATAAGATTCGCTATGGTAAATTCAATCTGACCTGCTGCATCTTCAGG
1 GAGATAAGATTCGTTATGGTAGATTCAATCAGACCCACTACAACTTCAGG
9925236 GAGATAAGATTCGTTATGGTAGATTCAATCAGACCCACTACAACTTCAGG
1 GAGATAAGATTCGTTATGGTAGATTCAATCAGACCCACTACAACTTCAGG
9925286 G
1 G
9925287 GTATAGGATT
Statistics
Matches: 109, Mismatches: 28, Indels: 18
0.70 0.18 0.12
Matches are distributed among these distances:
43 2 0.02
44 20 0.18
45 5 0.05
46 5 0.05
48 5 0.05
49 5 0.05
50 65 0.60
51 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (50 bp):
GAGATAAGATTCGTTATGGTAGATTCAATCAGACCCACTACAACTTCAGG
Found at i:9925328 original size:144 final size:137
Alignment explanation
Indices: 9924761--9925436 Score: 428
Period size: 138 Copynumber: 4.9 Consensus size: 137
9924751 CCTACTCACT
* * * * * * *
9924761 GCAACTTTAGGGGTATAGGATTTGTAGCTTTAATCA-ACTCCACTGCATCCTCAGGGAGATAAGA
1 GCAACTTCAGGGGTATAAGATTCGTAGCTTTAAT-ATACTCTACTACAACTTCAGGGAGATAAGA
* * * * * * *
9924825 TTCGCTATGGTAGATTCAATTTGACCCACTGCAACTTCAAGGATATAGAATTTGTAGCTTCAATT
65 TTCGTTATGGTAGATTCAA-TCGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATA
**
9924890 TGCTCCACTA
129 AACTCCA-TA
* * * * * * ** * *
9924900 -CAACTTCAGAGGTATAGGATTTGTAGCTTCAATCTGCTCTACTGTAACTTCAGAGG-TATAGGA
1 GCAACTTCAGGGGTATAAGATTCGTAGCTTTAATATACTCTACTACAACTTCAG-GGAGATAAGA
* * * * * * *
9924963 ----TT-T-GTAGCTTCAATCTACTCCACTGCAACTTCAAAGAG-ATAAGATTCACTATGGTAGA
65 TTCGTTATGGTAGATTCAATCGAC-CCACTACAACTTC-AGGGGTATAGGA-T---T-T-GTAGC
**
9925021 TTCAATCTGAC-CCACT-
122 TTCAAT-AAACTCCA-TA
** * * * * * **
9925037 GCAACTTCAGTAGTATAAGATTTGTAGCTTTAATCTACTTTACAACAACTTTAAAGAGATAAGAT
1 GCAACTTCAGGGGTATAAGATTCGTAGCTTTAATATACTCTACTACAACTTCAGGGAGATAAGAT
* ** * *
9925102 TCGATATGGTAGATTCAATCTGACCCACTACAACTTTTGAGGTATACGATTTGTAGCTTCAATAA
66 TCGTTATGGTAGATTCAATC-GACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATAA
*
9925167 ACTCCATT
130 ACTCCATA
* * * * *
9925175 GCAACTTCAGGGAG-ATAAGATTCGCTATGGTAAATTCAATCTGAC-CTGCTGCATCTTCAGGGA
1 GCAACTTCAGGG-GTATAAGATTCG-TA-GCT---TT-AATAT-ACTCTACTACAACTTCAGGGA
9925238 GATAAGATTCGTTATGGTAGATTCAATCAGACCCACTACAACTTCAGGGGTATAGGATTTGTAGC
58 GATAAGATTCGTTATGGTAGATTCAATC-GACCCACTACAACTTCAGGGGTATAGGATTTGTAGC
* ** *
9925303 TTTAATCTACTCTATA
122 TTCAATAAACTCCATA
* * *
9925319 GTAACTTCAGGGGTATAGGATTTGTAGCTTTAATATACTCTACTACAACTTCAGGGAGATAAGAT
1 GCAACTTCAGGGGTATAAGATTCGTAGCTTTAATATACTCTACTACAACTTCAGGGAGATAAGAT
* * * *
9925384 TTGTTATGTTAGATTCATTTCGA-CCACTGCAACTTCAGGGGTATAGGATTTGT
66 TCGTTATGGTAGATTCA-ATCGACCCACTACAACTTCAGGGGTATAGGATTTGT
9925437 TGTTTTGTTG
Statistics
Matches: 419, Mismatches: 84, Indels: 70
0.73 0.15 0.12
Matches are distributed among these distances:
131 3 0.01
132 26 0.06
133 5 0.01
134 1 0.00
136 1 0.00
137 36 0.09
138 186 0.44
139 12 0.03
140 3 0.01
142 3 0.01
143 8 0.02
144 131 0.31
145 4 0.01
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (137 bp):
GCAACTTCAGGGGTATAAGATTCGTAGCTTTAATATACTCTACTACAACTTCAGGGAGATAAGAT
TCGTTATGGTAGATTCAATCGACCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATAAA
CTCCATA
Found at i:9925340 original size:44 final size:44
Alignment explanation
Indices: 9925272--9925387 Score: 173
Period size: 44 Copynumber: 2.6 Consensus size: 44
9925262 AATCAGACCC
*
9925272 ACTACAACTTCAGGGGTATAGGATTTGTAGCTTTAATCTACTCT
1 ACTACAACTTCAGGGGTATAGGATTTGTAGCTTTAATATACTCT
*
9925316 A-TAGTAACTTCAGGGGTATAGGATTTGTAGCTTTAATATACTCT
1 ACTA-CAACTTCAGGGGTATAGGATTTGTAGCTTTAATATACTCT
*
9925360 ACTACAACTTCAGGGAG-ATAAGATTTGT
1 ACTACAACTTCAGGG-GTATAGGATTTGT
9925388 TATGTTAGAT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
43 2 0.03
44 60 0.92
45 3 0.05
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (44 bp):
ACTACAACTTCAGGGGTATAGGATTTGTAGCTTTAATATACTCT
Found at i:9925343 original size:188 final size:182
Alignment explanation
Indices: 9924575--9925436 Score: 653
Period size: 188 Copynumber: 4.6 Consensus size: 182
9924565 AACCCACTGC
* * *** * * * *
9924575 AACTTCAGCGGTATATGATTTGTAGCTTC-ATCTTGCTCTACTACAACTTCAGGTAGCTAAGATT
1 AACTTCAGAGGTATAGGATTTGTAGCTTCAAT-AAACTCCACTGCAACTTCAGGGAGATAAGATT
* ** * *
9924639 CGCTATGGTA-ACTTCAAACTGACCCACTATAACTTCAAAGG-TATAGGATTTGTAGCTTC-ATC
65 CGCTATGGTAGA-TTCAATCTGACCCACTGCAACTTC--AGGAGATAAGATTTGTAGCTTCAATC
** * *
9924701 TTG-CTCCACTTGAACTTCAGGGAG-ATAAGATTCATTATGGTAACTTCAATCCTACTC-ACT-G
127 --GACTCCACTACAACTTCAGGG-GTAT-AG---GATT-T-GTAGCTTCAAT-CTACTCTACTAG
*
9924762 C
182 T
* * * * * *
9924763 AACTTTAGGGGTATAGGATTTGTAGCTTTAATCAACTCCACTGCATCCTCAGGGAGATAAGATTC
1 AACTTCAGAGGTATAGGATTTGTAGCTTCAATAAACTCCACTGCAACTTCAGGGAGATAAGATTC
* * *
9924828 GCTATGGTAGATTCAATTTGACCCACTGCAACTTCAAG-GATATAGAATTTGTAGCTTCAATTTG
66 GCTATGGTAGATTCAATCTGACCCACTGCAACTTCAGGAGATA-AG-ATTTGTAGCTTCAA-TCG
* *
9924892 -CTCCACTACAACTTCAGAGGTATAGGATTTGTAGCTTCAATCTGCTCTACT-GT
128 ACTCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCTACTAGT
** **
9924945 AACTTCAGAGGTATAGGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAAAGAGATAAGATTC
1 AACTTCAGAGGTATAGGATTTGTAGCTTCAATAAACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * *
9925010 ACTATGGTAGATTCAATCTGACCCACTGCAACTTCAGTAGTATAAGATTTGTAGCTTTAATCTAC
66 GCTATGGTAGATTCAATCTGACCCACTGCAACTTCAGGAG-ATAAGATTTGTAGCTTCAATCGAC
** * * * * * * * *
9925075 TTTACAACAACTTTAAAGAG-ATAAGATTCGATATGGTAGATTCAATCTGAC-CCACTA-C
130 TCCACTACAAC-TTCAGGGGTAT-AG----GAT-TTGTAGCTTCAATCT-ACTCTACTAGT
** * *
9925133 AACTTTTGAGGTATACGATTTGTAGCTTCAATAAACTCCATTGCAACTTCAGGGAGATAAGATTC
1 AACTTCAGAGGTATAGGATTTGTAGCTTCAATAAACTCCACTGCAACTTCAGGGAGATAAGATTC
* ** * *
9925198 GCTATGGTAAATTCAATCTGACCTGCTGCATCTTCAGGGAGATAAGATTCGTTATGGTAGATTCA
66 GCTATGGTAGATTCAATCTGACCCACTGCAACTTCA-GGAGATAAGA----TT-T-GTAGCTTCA
*
9925263 ATCAGAC-CCACTACAACTTCAGGGGTATAGGATTTGTAGCTTTAATCTACTCTA-TAGT
124 ATC-GACTCCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCTACTAGT
* * * * * *
9925321 AACTTCAGGGGTATAGGATTTGTAGCTTTAATATACTCTACTACAACTTCAGGGAGATAAGATTT
1 AACTTCAGAGGTATAGGATTTGTAGCTTCAATAAACTCCACTGCAACTTCAGGGAGATAAGATTC
* * * * *
9925386 GTTATGTTAGATTC-ATTTCGA-CCACTGCAACTTCAGGGGTATAGGATTTGT
66 GCTATGGTAGATTCAATCT-GACCCACTGCAACTTCAGGAG-ATAAGATTTGT
9925437 TGTTTTGTTG
Statistics
Matches: 539, Mismatches: 102, Indels: 73
0.75 0.14 0.10
Matches are distributed among these distances:
181 8 0.01
182 130 0.24
183 12 0.02
184 6 0.01
186 8 0.01
187 30 0.06
188 302 0.56
189 11 0.02
190 1 0.00
192 2 0.00
193 8 0.01
194 19 0.04
195 2 0.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (182 bp):
AACTTCAGAGGTATAGGATTTGTAGCTTCAATAAACTCCACTGCAACTTCAGGGAGATAAGATTC
GCTATGGTAGATTCAATCTGACCCACTGCAACTTCAGGAGATAAGATTTGTAGCTTCAATCGACT
CCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCTACTAGT
Found at i:9933529 original size:24 final size:24
Alignment explanation
Indices: 9933502--9933547 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
9933492 TAAAATTTTT
9933502 TATGATT-AAATTATTGTTATTAAA
1 TATGATTGAAATTATTG-TATTAAA
*
9933526 TATGCTTGAAATTATTGTATTA
1 TATGATTGAAATTATTGTATTA
9933548 CATCTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (24 bp):
TATGATTGAAATTATTGTATTAAA
Found at i:9946954 original size:55 final size:55
Alignment explanation
Indices: 9946870--9946980 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
9946860 CTCTGCTTGA
* *
9946870 TAAGTAGTTATATGCAAAGTTTAGTAAATGTGGATTTTCATTGCGTGCGGTTGGT
1 TAAGTAGTTATATACAAAGTTTAGTAAATGTGGATTTTCATTGCGTGAGGTTGGT
*
9946925 TAAGTAGTTATGTACAAAGTTTAGTAAATGTGGATTTTCATTGCGTGAGGTTGGT
1 TAAGTAGTTATATACAAAGTTTAGTAAATGTGGATTTTCATTGCGTGAGGTTGGT
9946980 T
1 T
9946981 TTCTGGGGCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.26, C:0.06, G:0.27, T:0.41
Consensus pattern (55 bp):
TAAGTAGTTATATACAAAGTTTAGTAAATGTGGATTTTCATTGCGTGAGGTTGGT
Found at i:9954415 original size:55 final size:55
Alignment explanation
Indices: 9954331--9954441 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
9954321 TTCTGCGTGA
9954331 TAAGTAGTTATATGCAAAGTTTAGTAAATGTGGATTTTCATTGCGTGAGGTTGGT
1 TAAGTAGTTATATGCAAAGTTTAGTAAATGTGGATTTTCATTGCGTGAGGTTGGT
9954386 TAAGTAGTTATATGCAAAGTTTAGTAAATGTGGATTTTCATTGCGTGAGGTTGGT
1 TAAGTAGTTATATGCAAAGTTTAGTAAATGTGGATTTTCATTGCGTGAGGTTGGT
9954441 T
1 T
9954442 TTCTGGGGCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.27, C:0.05, G:0.27, T:0.41
Consensus pattern (55 bp):
TAAGTAGTTATATGCAAAGTTTAGTAAATGTGGATTTTCATTGCGTGAGGTTGGT
Found at i:9956152 original size:67 final size:67
Alignment explanation
Indices: 9956033--9956164 Score: 257
Period size: 66 Copynumber: 2.0 Consensus size: 67
9956023 TACTGGACTG
9956033 AGCTAAGTGAGAATAAGATTCACGGGGCTGACTTGATTAGAGAGACTGAAAAAAAGTGAAAGTGA
1 AGCTAAGTGAGAATAAGATTCACGGGGCTGACTTGATTAGAGAGACTGAAAAAAAGTGAAAGTGA
9956098 TA
66 TA
9956100 AGCTAAGTGAGAATAAGA-TCACGGGGCTGACTTGATTAGAGAGACTGAAAAAAAGTGAAAGTGA
1 AGCTAAGTGAGAATAAGATTCACGGGGCTGACTTGATTAGAGAGACTGAAAAAAAGTGAAAGTGA
9956164 T
66 T
9956165 CCGTGATAGT
Statistics
Matches: 65, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
66 47 0.72
67 18 0.28
ACGTcount: A:0.42, C:0.09, G:0.29, T:0.20
Consensus pattern (67 bp):
AGCTAAGTGAGAATAAGATTCACGGGGCTGACTTGATTAGAGAGACTGAAAAAAAGTGAAAGTGA
TA
Found at i:9958038 original size:47 final size:46
Alignment explanation
Indices: 9957975--9958103 Score: 141
Period size: 46 Copynumber: 2.8 Consensus size: 46
9957965 GTGGGAATAA
* * * *** *
9957975 TACCTTAATTTGGCTACAAGCCATGATATAGGTATTTTGAGAGGAGT
1 TACCTTGATTTGGCTAC-AGCCATGGTATAGGTACTCCAAGAGAAGT
* *
9958022 TACCTTGATTTGGCTACAGTCATGGTATAGGTACTCCAAGATAAGT
1 TACCTTGATTTGGCTACAGCCATGGTATAGGTACTCCAAGAGAAGT
* *
9958068 AACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTAC-AGCCATGGTATAGGTACT
9958104 TACCGATTGT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
46 37 0.54
47 32 0.46
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (46 bp):
TACCTTGATTTGGCTACAGCCATGGTATAGGTACTCCAAGAGAAGT
Found at i:9958375 original size:74 final size:74
Alignment explanation
Indices: 9958254--9958401 Score: 278
Period size: 74 Copynumber: 2.0 Consensus size: 74
9958244 AATAAAACCG
* *
9958254 TATTTAATTATGTTTGAGACATGAATAAGGTTTGTATTAATGTAATGTTGATTTGGTAATGTGCA
1 TATTTAATCATGTTTGAGACATGAATAAGGATTGTATTAATGTAATGTTGATTTGGTAATGTGCA
9958319 AATGGTTGA
66 AATGGTTGA
9958328 TATTTAATCATGTTTGAGACATGAATAAGGATTGTATTAATGTAATGTTGATTTGGTAATGTGCA
1 TATTTAATCATGTTTGAGACATGAATAAGGATTGTATTAATGTAATGTTGATTTGGTAATGTGCA
9958393 AATGGTTGA
66 AATGGTTGA
9958402 ATTATATTAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 72 1.00
ACGTcount: A:0.32, C:0.03, G:0.23, T:0.42
Consensus pattern (74 bp):
TATTTAATCATGTTTGAGACATGAATAAGGATTGTATTAATGTAATGTTGATTTGGTAATGTGCA
AATGGTTGA
Found at i:9959903 original size:19 final size:21
Alignment explanation
Indices: 9959881--9959931 Score: 61
Period size: 24 Copynumber: 2.4 Consensus size: 21
9959871 ATATTTTACT
9959881 ATGTTT-T-ATTTATTATATC
1 ATGTTTATAATTTATTATATC
9959900 ATGTTTACTATAATTTATTATATC
1 ATG-TT--TATAATTTATTATATC
9959924 ATGTTTAT
1 ATGTTTAT
9959932 TATAATTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 3 0.11
20 2 0.07
21 3 0.11
22 1 0.04
23 3 0.11
24 15 0.56
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.59
Consensus pattern (21 bp):
ATGTTTATAATTTATTATATC
Found at i:9959906 original size:14 final size:14
Alignment explanation
Indices: 9959889--9959935 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
9959879 CTATGTTTTA
9959889 TTTATTATATCATG
1 TTTATTATATCATG
*
9959903 TTTACTATA--A--
1 TTTATTATATCATG
9959913 TTTATTATATCATG
1 TTTATTATATCATG
9959927 TTTATTATA
1 TTTATTATA
9959936 ATTGGAGACT
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
10 8 0.30
12 2 0.07
14 17 0.63
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (14 bp):
TTTATTATATCATG
Found at i:9959915 original size:24 final size:24
Alignment explanation
Indices: 9959888--9959938 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
9959878 ACTATGTTTT
9959888 ATTTATTATATCATGTTTACTATA
1 ATTTATTATATCATGTTTACTATA
*
9959912 ATTTATTATATCATGTTTATTATA
1 ATTTATTATATCATGTTTACTATA
9959936 ATT
1 ATT
9959939 GGAGACTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (24 bp):
ATTTATTATATCATGTTTACTATA
Found at i:9961592 original size:356 final size:354
Alignment explanation
Indices: 9960940--9961647 Score: 1038
Period size: 356 Copynumber: 2.0 Consensus size: 354
9960930 TACACGGGCG
* *
9960940 GTTCACATAGCCTTGTGCGCTTGAAATTTAGGGTTTCTGGACTAATTTGGGTGCCACATGTTCAT
1 GTTCACATAGCCGTGTGCGCTTGAAATTTAGGGTTTCTGGACTAATTTGGGTGCCACACGTTCAT
* * * * * *
9961005 GTGGCCGATTTGGGGATTTTTTTTGATATCCACATGGCCGTGTCTCGTGGGCACATAGGCGTGTA
66 GTGGCCAATTTGGGGATTTTTTTCGATATCCACACGGCCGTGTCTCATGGGCACACAGGAGTGTA
* * * ** *
9961070 CGATTGGGAATTAGGGTTTATGTGATTTGTTTCCATACGGCCTGGCCACACGGGCATGTGCCATG
131 CAATTGGGAATTAGGGTTTATGTGATTTGTTGCCACACGGCCTAACCAAACGGGCATGTGCCATG
* ** *
9961135 GATACACCGTCATGCCTGGTGGGCACACGGGCGCGTGAGACCCTCACACAGTTGTGTCTGCCTTG
196 GATACACCGCCATGCCTGGTGGGCACACGGGCGCGTGAGACCCTCACACAGTCATGTCTGCCCTG
** * *
9961200 TACCCTATTTTAGTTCAAACGAACAAAGAGTTACACGGCCTGATCACATGGCCATATCCCTAGGT
261 TACCCTATTTTAGCACAAACGAACAAAGAGTTACACGGCCCGATCACATGGCCATATCCAT-GGT
* * *
9961265 CACACAGGCGTGTGCCTCTCTACATGGGTA
325 CACACAGGCGCGTGCCTCCCCACATGGGTA
* *
9961295 GTTCACATAGCCGTGTGCGCTTGAGATTTAGGGTTTTTGGACTAATTTGGGTGCCACACGTTCAT
1 GTTCACATAGCCGTGTGCGCTTGAAATTTAGGGTTTCTGGACTAATTTGGGTGCCACACGTTCAT
9961360 GTGGCCAATTTGGGGATTTTTTGTCGATATCCACACGGCCGTGTCTCATGGGCACACAGGAGTGT
66 GTGGCCAATTTGGGGATTTTTT-TCGATATCCACACGGCCGTGTCTCATGGGCACACAGGAGTGT
* * * *
9961425 GCAATTGGGAATTAGGGTTTATGTGATTTGTTGCCACACGGCCTAACCAAACTGGCGTTTGCCAT
130 ACAATTGGGAATTAGGGTTTATGTGATTTGTTGCCACACGGCCTAACCAAACGGGCATGTGCCAT
* ** ** *
9961490 GGATACACTGCCATTTCTGGTGGGCACACGGGCGCGTGAGACCCTTGCACGGTCATGTCTGCCCT
195 GGATACACCGCCATGCCTGGTGGGCACACGGGCGCGTGAGACCCTCACACAGTCATGTCTGCCCT
**
9961555 GTATGCTATTTTAGCACAAACGAACAAAGAGTTACACGGCCCGATCACATGGCCATATCCATGGT
260 GTACCCTATTTTAGCACAAACGAACAAAGAGTTACACGGCCCGATCACATGGCCATATCCATGGT
*
9961620 CACACATGCGCGTGCCTCCCCACATGGG
325 CACACAGGCGCGTGCCTCCCCACATGGG
9961648 CGTTTTGACC
Statistics
Matches: 312, Mismatches: 40, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
355 109 0.35
356 203 0.65
ACGTcount: A:0.21, C:0.24, G:0.27, T:0.28
Consensus pattern (354 bp):
GTTCACATAGCCGTGTGCGCTTGAAATTTAGGGTTTCTGGACTAATTTGGGTGCCACACGTTCAT
GTGGCCAATTTGGGGATTTTTTTCGATATCCACACGGCCGTGTCTCATGGGCACACAGGAGTGTA
CAATTGGGAATTAGGGTTTATGTGATTTGTTGCCACACGGCCTAACCAAACGGGCATGTGCCATG
GATACACCGCCATGCCTGGTGGGCACACGGGCGCGTGAGACCCTCACACAGTCATGTCTGCCCTG
TACCCTATTTTAGCACAAACGAACAAAGAGTTACACGGCCCGATCACATGGCCATATCCATGGTC
ACACAGGCGCGTGCCTCCCCACATGGGTA
Found at i:9965026 original size:47 final size:45
Alignment explanation
Indices: 9964953--9965157 Score: 209
Period size: 47 Copynumber: 4.4 Consensus size: 45
9964943 GATTTCTTGT
* * *
9964953 GTGCCAGTGTAAGGCATGTCTGGGACATGCATTGGCCACATTATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-GATGA
* *
9964999 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGATGA
1 GTGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CACAGATGA
*
9965047 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-A-GATGA
** * * *
9965094 -TAGCCAACGTAAGACGTGTCTGGGACATGCATCGGCTA-AGA-GTT
1 GT-GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATG-A
*
9965138 GTGCTAGTGTAAGACATGTC
1 GTGCCAGTGTAAGACATGTC
9965158 CAAGACATGC
Statistics
Matches: 133, Mismatches: 18, Indels: 18
0.79 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 16 0.12
45 2 0.02
46 23 0.17
47 64 0.48
48 25 0.19
49 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (45 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAGATGA
Found at i:9965114 original size:94 final size:91
Alignment explanation
Indices: 9964953--9965157 Score: 245
Period size: 94 Copynumber: 2.2 Consensus size: 91
9964943 GATTTCTTGT
* * ** **
9964953 GTGCCAGTGTAAGGCATGTCTGGGACATGCATTGGCCACATTATGAGTGCCAGTGTAAGACCATG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAACGTAAGACCATG
9965018 TCTGGGACATGGCATCGGCGT-AGAGATGA
66 TCTGGGACAT-GCATCGGC-TAAGAG-T-A
* *
9965047 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGATGA-TAGCCAACGTAAGA-CG
1 GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACGATGAGT-GCCAACGTAAGACCA
*
9965110 TGTCTGGGACATGCATCGGCTAAGAGTT
64 TGTCTGGGACATGCATCGGCTAAGAGTA
*
9965138 GTGCTAGTGTAAGACATGTC
1 GTGCCAGTGTAAGACATGTC
9965158 CAAGACATGC
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
91 19 0.19
92 2 0.02
93 12 0.12
94 50 0.51
95 15 0.15
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (91 bp):
GTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACACGATGAGTGCCAACGTAAGACCATG
TCTGGGACATGCATCGGCTAAGAGTA
Found at i:9971048 original size:22 final size:22
Alignment explanation
Indices: 9971007--9971067 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 22
9970997 AGCTCAACAT
* *
9971007 ATATAAGAGCATATC-T-TATC
1 ATATCAGAGCAAATCATATATC
9971027 ATATCAGAGCAAATCATATATC
1 ATATCAGAGCAAATCATATATC
* * *
9971049 AGATCATACCAAATCATAT
1 ATATCAGAGCAAATCATAT
9971068 CATATCCCAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 13 0.38
21 1 0.03
22 20 0.59
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (22 bp):
ATATCAGAGCAAATCATATATC
Found at i:9971893 original size:49 final size:47
Alignment explanation
Indices: 9971757--9971895 Score: 125
Period size: 49 Copynumber: 2.8 Consensus size: 47
9971747 ACCTGGACAG
* * * *
9971757 TCTATATGATTTCACATGGTTATGTGGTCCACACGGTCTAACCACGCTA
1 TCTATATGATTTCACATGG--CTGTGGTCCACACGGTCTACCCACACAA
* ** * * *
9971806 TTTGCATGATTTTACATGGCTGCATGGTCCATATGGTCTACCCACACAA
1 TCTATATGATTTCACATGGCTG--TGGTCCACACGGTCTACCCACACAA
*
9971855 TCTATATGATTTCACATGGCCCTGTGGCCCACACGGTCTAC
1 TCTATATGATTTCACATGG--CTGTGGTCCACACGGTCTAC
9971896 ATGATTTCAT
Statistics
Matches: 69, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
47 2 0.03
49 64 0.93
51 3 0.04
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.32
Consensus pattern (47 bp):
TCTATATGATTTCACATGGCTGTGGTCCACACGGTCTACCCACACAA
Found at i:9975074 original size:72 final size:72
Alignment explanation
Indices: 9974977--9975119 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
9974967 AAAAAAAAAG
*
9974977 AGAAAGGAAGCCACTATCATATCATCTTCTCCATTGTCGAAACTGGAGAAAGAAGAAAAAGAGAA
1 AGAAAGGAAGCCACTATCATATCATCTTCTCCATTGTCAAAACTGGAGAAAGAAGAAAAAGAGAA
9975042 AAGCTTA
66 AAGCTTA
9975049 AGAAAGGAAGCCACTATCATATCATCTTCTCCATTGTCAAAACTGGAGAAAGAAGAAAAAGAGAA
1 AGAAAGGAAGCCACTATCATATCATCTTCTCCATTGTCAAAACTGGAGAAAGAAGAAAAAGAGAA
9975114 AAGCTT
66 AAGCTT
9975120 GGCTAAGGTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.20
Consensus pattern (72 bp):
AGAAAGGAAGCCACTATCATATCATCTTCTCCATTGTCAAAACTGGAGAAAGAAGAAAAAGAGAA
AAGCTTA
Found at i:9976429 original size:88 final size:88
Alignment explanation
Indices: 9976275--9976456 Score: 346
Period size: 88 Copynumber: 2.1 Consensus size: 88
9976265 AGTGAAACAG
9976275 GGGAAACTTTAAGAAAAATCTGGTATTGATTGGCCAAGCCTAAAATTCTGAAAATTTTATGAATG
1 GGGAAACTTTAAGAAAAATCTGGTATTGATTGGCCAAGCCTAAAATTCTGAAAATTTTATGAATG
9976340 GAAGATATACGAGTCTATATTCA
66 GAAGATATACGAGTCTATATTCA
* *
9976363 GGGAAATTTTAAGAAAAATCTGGTATTGATTGGCCAAGCCTAAAATTCTGAAAATTTTATGGATG
1 GGGAAACTTTAAGAAAAATCTGGTATTGATTGGCCAAGCCTAAAATTCTGAAAATTTTATGAATG
9976428 GAAGATATACGAGTCTATATTCA
66 GAAGATATACGAGTCTATATTCA
9976451 GGGAAA
1 GGGAAA
9976457 ATTAACGGAA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.30
Consensus pattern (88 bp):
GGGAAACTTTAAGAAAAATCTGGTATTGATTGGCCAAGCCTAAAATTCTGAAAATTTTATGAATG
GAAGATATACGAGTCTATATTCA
Found at i:9977093 original size:40 final size:40
Alignment explanation
Indices: 9977034--9977181 Score: 228
Period size: 40 Copynumber: 3.7 Consensus size: 40
9977024 GAGCATTGGA
* *
9977034 ATATATCCGGGC-TATGACCCGAAGGCAATTATGCGATTTG
1 ATATATCCGGGCTTA-GACCCGAAGGCAATTATGCAAGTTG
9977074 ATATATCCGGGCTTAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTTAGACCCGAAGGCAATTATGCAAGTTG
*
9977114 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTTAGACCCGAAGGCAATTATGCAAGTTG
*
9977154 ATATGTCCGGG-TTAAGACCCGAAGGCAA
1 ATATATCCGGGCTT-AGACCCGAAGGCAA
9977182 ATGTGTTTGC
Statistics
Matches: 101, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
39 1 0.01
40 98 0.97
41 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATATCCGGGCTTAGACCCGAAGGCAATTATGCAAGTTG
Found at i:9983600 original size:49 final size:48
Alignment explanation
Indices: 9983473--9983616 Score: 173
Period size: 49 Copynumber: 2.9 Consensus size: 48
9983463 TCTATTGTGA
*
9983473 GGTCACATGTGTAGTACTAAGTGCAGAG-TACTATGTGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAG-GCTACTATGTGTA-CC--AGACTGT
* * *
9983524 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTG-T
* * *
9983573 GGTCGCATGTGTAGTACTAACTGCAGGCTACTATGCGTACCAGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA
9983617 TAGCTTCGAC
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
48 5 0.06
49 39 0.48
50 3 0.04
51 34 0.42
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (48 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGT
Done.