Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 89 of 216
Found at i:27369353 original size:25 final size:25
Alignment explanation
Indices: 27369299--27369352 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
27369289 AAAATTATAA
* *
27369299 AAAATTATAAAATAAAAAATTAATT
1 AAAATTACAAAATAAAAAAATAATT
27369324 AAAATTACATAAATGAAAAAAAT-ATT
1 AAAATTACA-AAAT-AAAAAAATAATT
27369350 AAA
1 AAA
27369353 TAATATTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.32
26 10 0.40
27 7 0.28
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (25 bp):
AAAATTACAAAATAAAAAAATAATT
Found at i:27369371 original size:30 final size:29
Alignment explanation
Indices: 27369312--27369371 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 29
27369302 ATTATAAAAT
* *
27369312 AAAAAATTAATTAAAATTACATAAATGAA
1 AAAAAATTAAATAAAATTACAAAAATGAA
*
27369341 AAAAATATTAAATAATATT-CAAAAATTGAA
1 AAAAA-ATTAAATAAAATTACAAAAA-TGAA
27369371 A
1 A
27369372 TTAACCCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.28
Consensus pattern (29 bp):
AAAAAATTAAATAAAATTACAAAAATGAA
Found at i:27370076 original size:24 final size:24
Alignment explanation
Indices: 27370040--27370092 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
27370030 TCTTAATATA
* *
27370040 ATTTCAATTTGTTATGAAACATT-T
1 ATTTTAATGTGTT-TGAAACATTAT
*
27370064 ATTTTAATGTGTTTGATACATTAT
1 ATTTTAATGTGTTTGAAACATTAT
27370088 ATTTT
1 ATTTT
27370093 TTAAATTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (24 bp):
ATTTTAATGTGTTTGAAACATTAT
Found at i:27381410 original size:13 final size:13
Alignment explanation
Indices: 27381394--27381446 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
27381384 TTTTAAAAAT
*
27381394 ACTTATCAAAAGC
1 ACTTTTCAAAAGC
*
27381407 ACTTTTCCACAA-C
1 ACTTTT-CAAAAGC
* *
27381420 ACCTTTCAAAAAC
1 ACTTTTCAAAAGC
27381433 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
27381446 A
1 A
27381447 TTGTTAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 4 0.12
13 24 0.75
14 4 0.12
ACGTcount: A:0.42, C:0.28, G:0.04, T:0.26
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:27395252 original size:49 final size:51
Alignment explanation
Indices: 27395199--27395320 Score: 131
Period size: 49 Copynumber: 2.4 Consensus size: 51
27395189 GGAAGCAGTG
* *
27395199 GCAGTATATCTACAAATCAGTGGTGGATTGTCCA-CAAAAT-TTATCAATT
1 GCAGTATATCTACAAATCAGTGGTGCATTGTCCATAAAAATGTTATCAATT
* * * * * *
27395248 GCAGTATATTTGCATATCAGTGGTGCCTTGTCCATAAAAATGTTATTAGTT
1 GCAGTATATCTACAAATCAGTGGTGCATTGTCCATAAAAATGTTATCAATT
* * *
27395299 GTAGTTTATCAACAAATCAGTG
1 GCAGTATATCTACAAATCAGTG
27395321 ATGGCTTATC
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
49 29 0.51
50 5 0.09
51 23 0.40
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (51 bp):
GCAGTATATCTACAAATCAGTGGTGCATTGTCCATAAAAATGTTATCAATT
Found at i:27398695 original size:24 final size:24
Alignment explanation
Indices: 27398663--27398736 Score: 94
Period size: 24 Copynumber: 3.1 Consensus size: 24
27398653 ATGATATAAT
* *
27398663 AACCATTTCAATGATATCATTTTC
1 AACCATTTCAATGGTATCCTTTTC
* *
27398687 AACCTTTTCAATGGTATCCTTTTT
1 AACCATTTCAATGGTATCCTTTTC
* *
27398711 GACCATTTCATTGGTATCCTTTTC
1 AACCATTTCAATGGTATCCTTTTC
27398735 AA
1 AA
27398737 ACTTTTCCTT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.45
Consensus pattern (24 bp):
AACCATTTCAATGGTATCCTTTTC
Found at i:27399364 original size:23 final size:24
Alignment explanation
Indices: 27399333--27399389 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
27399323 ATGATATAAT
*
27399333 AACCATTTCAATGATAT-CATTTC
1 AACCTTTTCAATGATATCCATTTC
* *
27399356 AACCTTTTCAATGGTATCCTTTTC
1 AACCTTTTCAATGATATCCATTTC
*
27399380 GACCTTTTCA
1 AACCTTTTCA
27399390 TTGTTTCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 15 0.52
24 14 0.48
ACGTcount: A:0.26, C:0.25, G:0.07, T:0.42
Consensus pattern (24 bp):
AACCTTTTCAATGATATCCATTTC
Found at i:27411971 original size:56 final size:52
Alignment explanation
Indices: 27411904--27412039 Score: 159
Period size: 50 Copynumber: 2.6 Consensus size: 52
27411894 AGAACCCATT
*
27411904 TAAGACCATGTCTGGGACATGGCATTGGCATTATTAAGGTTATAAGAGGTACCACG
1 TAAGACCATGTCTGGGACATGGCATTGGCA-TATCAA-G--ATAAGAGGTACCACG
* * * * *
27411960 TAAGACCATGTCTGGGACATGGCGTTGG--TATCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATGGCATTGGCATATCAAGATAAGAGGTACCACG
*
27412010 TAAGACCATGTCTGGGACATGGCATGGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
27412040 CCAATATGAG
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
50 38 0.54
52 1 0.01
53 4 0.06
56 27 0.39
ACGTcount: A:0.26, C:0.19, G:0.31, T:0.24
Consensus pattern (52 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATATCAAGATAAGAGGTACCACG
Found at i:27412049 original size:50 final size:50
Alignment explanation
Indices: 27411948--27412050 Score: 134
Period size: 50 Copynumber: 2.1 Consensus size: 50
27411938 TAAGGTTATA
* * * * *
27411948 AGAGGTACCACGTAAGACCATGTCTGGGACATGGCGTTGGTATCGAGATG
1 AGAGGTACCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
* * *
27411998 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAATATG
1 AGAGGTACCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
27412048 AGA
1 AGA
27412051 ACTCTCATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.27, C:0.21, G:0.32, T:0.19
Consensus pattern (50 bp):
AGAGGTACCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAGATG
Found at i:27412063 original size:50 final size:49
Alignment explanation
Indices: 27411959--27412138 Score: 155
Period size: 50 Copynumber: 3.6 Consensus size: 49
27411949 GAGGTACCAC
* * * * ** **
27411959 GTAAGACCATGTCTGGGACATGGCGTTGGTATCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-CAACATGAGAACTCCCAT
* * *
27412009 GTAAGACCATGTCTGGGACATGGCATGGGCACCAATATGAGAACTCTCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-CAACATGAGAACTCCCAT
* * * * ** *
27412059 GTAAGACCATATTTGGGATATGGCATTTGCAGTACAGGA-AACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACAACATGAGAAC-TCCCAT
*
27412108 GTAAGACCATGTCTGGGACATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
27412139 TGTTATTATC
Statistics
Matches: 103, Mismatches: 26, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
48 3 0.03
49 35 0.34
50 65 0.63
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACAACATGAGAACTCCCAT
Found at i:27412357 original size:12 final size:12
Alignment explanation
Indices: 27412340--27412390 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
27412330 ATGAGTTATT
27412340 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
27412352 TAAGTAAACAAG
1 TAAGTAAGCAAG
*
27412364 TAAG-AGAGTAAG
1 TAAGTA-AGCAAG
* *
27412376 TAAATAAGAAAG
1 TAAGTAAGCAAG
27412388 TAA
1 TAA
27412391 AGATCATGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 1 0.03
12 30 0.94
13 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.22, T:0.18
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:27412366 original size:20 final size:20
Alignment explanation
Indices: 27412341--27412379 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27412331 TGAGTTATTT
27412341 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
27412361 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
27412380 TAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:27425260 original size:25 final size:25
Alignment explanation
Indices: 27425224--27425284 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
27425214 CTCCTAAATT
*
27425224 TTAATTTAATTATCTAAT-TTTTCA-A
1 TTAATTAAATTAT-TAATATTTT-ATA
*
27425249 TTTATTAAATTATTAATATTTTATA
1 TTAATTAAATTATTAATATTTTATA
27425274 TTAATTAAATT
1 TTAATTAAATT
27425285 TTTGAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATTAATATTTTATA
Found at i:27439155 original size:27 final size:27
Alignment explanation
Indices: 27439125--27439195 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
27439115 CTAGCTGACA
* * *
27439125 CCCATGTCTAGTGTC-CCAACGGAGTTC
1 CCCATGTATAATGTCTCCAA-GGACTTC
*
27439152 CCCATGTATAATGTCTCGAAGGACTTC
1 CCCATGTATAATGTCTCCAAGGACTTC
*
27439179 CCCATGTTTAATGTCTC
1 CCCATGTATAATGTCTC
27439196 AGTGGACTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
27 35 0.92
28 3 0.08
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.31
Consensus pattern (27 bp):
CCCATGTATAATGTCTCCAAGGACTTC
Found at i:27439202 original size:27 final size:27
Alignment explanation
Indices: 27439149--27439232 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
27439139 CCCAACGGAG
*
27439149 TTCCCCATGTATAATGTCTCGAAGGAC
1 TTCCCCATGTTTAATGTCTCGAAGGAC
*
27439176 TTCCCCATGTTTAATGTCTC-AGTGGAC
1 TTCCCCATGTTTAATGTCTCGA-AGGAC
* * *
27439203 TTCCTCGTGTTTAGTGTCTCGATAGG-C
1 TTCCCCATGTTTAATGTCTCGA-AGGAC
27439230 TTC
1 TTC
27439233 TAAAGGATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.02
27 44 0.92
28 3 0.06
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (27 bp):
TTCCCCATGTTTAATGTCTCGAAGGAC
Found at i:27439418 original size:40 final size:43
Alignment explanation
Indices: 27439307--27439422 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 43
27439297 CACATGACGC
* *
27439307 CATAGCATCTTTCAACTATGGTCTTACTCATTTCTATCATGATGT
1 CATAACATCTTTCAGCTATGGTCTTACTCA--TCTATCATGATGT
* * * *
27439352 CATAACATATTTTAGATATGATCTTACTCAT-T-T-ATGATGT
1 CATAACATCTTTCAGCTATGGTCTTACTCATCTATCATGATGT
*
27439392 CATAACATCTTTCAGCTATGGCCTTACTCAT
1 CATAACATCTTTCAGCTATGGTCTTACTCAT
27439423 AATTGGCTTA
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
40 33 0.55
41 1 0.02
42 1 0.02
43 1 0.02
45 24 0.40
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (43 bp):
CATAACATCTTTCAGCTATGGTCTTACTCATCTATCATGATGT
Found at i:27443734 original size:62 final size:62
Alignment explanation
Indices: 27443661--27443784 Score: 212
Period size: 62 Copynumber: 2.0 Consensus size: 62
27443651 CGCTATAAGC
* *
27443661 AAGTGTCTACATCCATAAACAAGCCTGAAAGCATGATAGGGTCTCTACATGAATAAGTCTCT
1 AAGTGTCTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTCT
* *
27443723 AAGTGTGTACATCCATAAAAAATCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTCT
1 AAGTGTCTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTCT
27443785 GCATGAGGAG
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (62 bp):
AAGTGTCTACATCCATAAAAAAGCCTGAAAGCATGATAGAGTCTCTACATGAATAAGTCTCT
Found at i:27444296 original size:61 final size:61
Alignment explanation
Indices: 27444124--27444276 Score: 213
Period size: 61 Copynumber: 2.5 Consensus size: 61
27444114 TAAAAGTGAT
* * *
27444124 GCCTTTGTAGTT-TT-TTTGTTACATGTAAGCCCTAGTGGCAAAACCTTTTGTATGTGGAA
1 GCCTTTGTGGTTGTTCTTTGTTACATGTAAGCCCTAGTGGCAAAACCTGTTATATGTGGAA
* * *
27444183 GCCTTTGTGGTTGTTCTTTATTACATGTGAGCCCTAATGGCAAAACCTGTTATATGTGGAA
1 GCCTTTGTGGTTGTTCTTTGTTACATGTAAGCCCTAGTGGCAAAACCTGTTATATGTGGAA
*
27444244 GCCTTT-TAGGTTGTTCTTTGTTACATGTCAGCC
1 GCCTTTGT-GGTTGTTCTTTGTTACATGTAAGCC
27444277 TTTGTGGCTA
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
59 11 0.13
60 3 0.04
61 69 0.83
ACGTcount: A:0.20, C:0.17, G:0.22, T:0.41
Consensus pattern (61 bp):
GCCTTTGTGGTTGTTCTTTGTTACATGTAAGCCCTAGTGGCAAAACCTGTTATATGTGGAA
Found at i:27444452 original size:30 final size:30
Alignment explanation
Indices: 27444396--27444473 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
27444386 GTATCTGGTG
*
27444396 GCCCTTGTGGCTATCTAATATTGTATGGAT
1 GCCCTTGTGGCTATCTAATATCGTATGGAT
*
27444426 GCCCTTGTGGCTATCTAAT-TACGTATGGGT
1 GCCCTTGTGGCTATCTAATAT-CGTATGGAT
*
27444456 G-CTTCTGTGGCTATCTAA
1 GCCCT-TGTGGCTATCTAA
27444474 GTCAAGTGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 3 0.07
30 40 0.93
ACGTcount: A:0.18, C:0.19, G:0.24, T:0.38
Consensus pattern (30 bp):
GCCCTTGTGGCTATCTAATATCGTATGGAT
Found at i:27458831 original size:10 final size:10
Alignment explanation
Indices: 27458810--27458868 Score: 73
Period size: 12 Copynumber: 5.4 Consensus size: 10
27458800 AATGTATACA
27458810 AAAAATATAT
1 AAAAATATAT
27458820 ATAATAATATAT
1 A-AA-AATATAT
27458832 ATAATAATATAT
1 A-AA-AATATAT
27458844 AAAAATAATAT
1 AAAAAT-ATAT
27458855 AAAAATATAT
1 AAAAATATAT
27458865 AAAA
1 AAAA
27458869 TAGTTAGGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
10 12 0.26
11 14 0.30
12 20 0.43
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAAAATATAT
Found at i:27458938 original size:19 final size:21
Alignment explanation
Indices: 27458879--27458943 Score: 71
Period size: 22 Copynumber: 3.1 Consensus size: 21
27458869 TAGTTAGGAT
* *
27458879 ATATATAGAATAAAATAGATATA
1 ATATATA-AATAAATTAAATA-A
27458902 ATATATAAATAAATTAAATAA
1 ATATATAAATAAATTAAATAA
*
27458923 ATAT-TAAATATA-TAAATAA
1 ATATATAAATAAATTAAATAA
27458942 AT
1 AT
27458944 TAAACCAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
19 9 0.23
20 7 0.18
21 5 0.13
22 11 0.28
23 7 0.18
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (21 bp):
ATATATAAATAAATTAAATAA
Found at i:27460929 original size:45 final size:43
Alignment explanation
Indices: 27460875--27460958 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 43
27460865 CTAAAATGAG
* *
27460875 TAAGACCATAGCTAAAAAATGTTATGGCATCATGATAAAAGAGAA
1 TAAGACCATAG-TAAAAAACGCTATGGCATCAT-ATAAAAGAGAA
* *
27460920 TAAGACCATAGTCAAACACGCTATGGCATCATATAAAAG
1 TAAGACCATAGTAAAAAACGCTATGGCATCATATAAAAG
27460959 TGCACTGCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 7 0.20
44 17 0.49
45 11 0.31
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.21
Consensus pattern (43 bp):
TAAGACCATAGTAAAAAACGCTATGGCATCATATAAAAGAGAA
Found at i:27461158 original size:27 final size:27
Alignment explanation
Indices: 27461097--27461168 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 27
27461087 TAGTTAGTTG
* **
27461097 TCGGGACAATAAACATAGGATAGTCTG
1 TCGGGACAATAAACACAGGATAGTCCA
* * *
27461124 TTGAGACAATAAACACGGGATAGTCCA
1 TCGGGACAATAAACACAGGATAGTCCA
*
27461151 TCGGGACAGTAAACACAG
1 TCGGGACAATAAACACAG
27461169 AGACCACGAG
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (27 bp):
TCGGGACAATAAACACAGGATAGTCCA
Found at i:27465074 original size:9 final size:10
Alignment explanation
Indices: 27465050--27465074 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
27465040 TCCCATAAAT
27465050 ATTTTTTACA
1 ATTTTTTACA
27465060 ATTTTTTACA
1 ATTTTTTACA
27465070 ATTTT
1 ATTTT
27465075 CCAAAGTCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTTTACA
Found at i:27465623 original size:51 final size:50
Alignment explanation
Indices: 27465556--27465751 Score: 205
Period size: 51 Copynumber: 3.9 Consensus size: 50
27465546 ATGATGTTTT
* * *
27465556 CGATTCACATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATC
* * * * *
27465607 CGATACACGTAGTAGCCTGCACATAGTATTACACACGTGATCGAAACTATC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCATC
* * * * * *
27465658 CGGTTCGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTC
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCA-TC
* * *
27465708 CGGTACACGTAGTAGCCTGCACATAGCACTACACACGTGACCAT
1 CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCAT
27465752 CACTTTCACT
Statistics
Matches: 117, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 39 0.33
51 74 0.63
52 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (50 bp):
CGATACACATAGTAGCCTGCACATAGTACTACACACGTGACCATACCATC
Found at i:27465742 original size:101 final size:101
Alignment explanation
Indices: 27465563--27465747 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
27465553 TTTCGATTCA
*
27465563 CATAGTAGCCTACACATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
* *
27465628 CATAGTATTACACACGTGATCGAAACTATCCGGTTCG
65 CATAGCACTACACACGTGATCGAAACTATCCGGTTCG
* * *
27465665 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
27465729 CATAGCACTACACACGTGA
65 CATAGCACTACACACGTGA
27465748 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.51
102 33 0.43
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGCACTACACACGTGATCGAAACTATCCGGTTCG
Found at i:27468365 original size:21 final size:21
Alignment explanation
Indices: 27468339--27468381 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
27468329 ATATAAAGAT
27468339 ATATATATTTGATTAAAAATA
1 ATATATATTTGATTAAAAATA
27468360 ATATATATTTGATTAAAAATA
1 ATATATATTTGATTAAAAATA
27468381 A
1 A
27468382 AAATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (21 bp):
ATATATATTTGATTAAAAATA
Found at i:27468387 original size:22 final size:21
Alignment explanation
Indices: 27468341--27468389 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
27468331 ATAAAGATAT
*
27468341 ATATATTTGATTAAAAATAAT
1 ATATATTTGATTAAAAATAAA
27468362 ATATATTTGATTAAAAATAAAA
1 ATATATTTGATTAAAAAT-AAA
27468384 ATATAT
1 ATATAT
27468390 ATTTAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (21 bp):
ATATATTTGATTAAAAATAAA
Found at i:27472544 original size:22 final size:23
Alignment explanation
Indices: 27472519--27472563 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
27472509 TTAATAATGT
*
27472519 AAGAATATATATACATAT-TATA
1 AAGAATATATAAACATATATATA
*
27472541 AAGAATGTATAAACATATATATA
1 AAGAATATATAAACATATATATA
27472564 GATTATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.56, C:0.04, G:0.07, T:0.33
Consensus pattern (23 bp):
AAGAATATATAAACATATATATA
Found at i:27472606 original size:18 final size:17
Alignment explanation
Indices: 27472579--27472633 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
27472569 TAAAATATGG
*
27472579 AAAATGTAAAGGTATTAT
1 AAAATATAAAGGTA-TAT
*
27472597 AAAATATAAATGTATAT
1 AAAATATAAAGGTATAT
*
27472614 ACATATATAAA--TATAT
1 A-AAATATAAAGGTATAT
27472630 AAAA
1 AAAA
27472634 ACTATGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
15 2 0.06
16 6 0.19
17 4 0.12
18 20 0.62
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (17 bp):
AAAATATAAAGGTATAT
Found at i:27472713 original size:159 final size:155
Alignment explanation
Indices: 27472523--27472809 Score: 486
Period size: 159 Copynumber: 1.8 Consensus size: 155
27472513 TAATGTAAGA
*
27472523 ATATATATACATATTATAAAGAATGTATAAACATATATATAGATTATAAAATATGGAAAATGTA-
1 ATATATATACATATTATAAAAAATGTATAAACATATATATAGATTATAAAATATGGAAAATGTAT
* *
27472587 AAGGTATTATAAAATATAAATGTATATACATATATAAATATATAAAAACTATGAAAATAAAATAA
66 AA-ATATTATAAAATATAAATGTATATAC--ATAT--ATATATAAAAACTAGGAAAATAAAATAA
27472652 TAATATAATAATAATAAAAGATGTATATGT
126 TAATATAATAATAATAAAAGATGTATATGT
*
27472682 ATATATATACATATTATAAAAAATGTATAAACATATATATAGATTATATAATATGGAAAATGTAT
1 ATATATATACATATTATAAAAAATGTATAAACATATATATAGATTATAAAATATGGAAAATGTAT
27472747 AAATATTATAAAATATAAATGTATATACATATATATATAAAAACTAGGAAAATAAAATAATAA
66 AAATATTATAAAATATAAATGTATATACATATATATATAAAAACTAGGAAAATAAAATAATAA
27472810 AATATGTATA
Statistics
Matches: 123, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
155 30 0.24
157 4 0.03
159 87 0.71
160 2 0.02
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.33
Consensus pattern (155 bp):
ATATATATACATATTATAAAAAATGTATAAACATATATATAGATTATAAAATATGGAAAATGTAT
AAATATTATAAAATATAAATGTATATACATATATATATAAAAACTAGGAAAATAAAATAATAATA
TAATAATAATAAAAGATGTATATGT
Found at i:27472888 original size:3 final size:3
Alignment explanation
Indices: 27472880--27472917 Score: 67
Period size: 3 Copynumber: 12.3 Consensus size: 3
27472870 ATGCGTAAGT
27472880 ATA ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
27472918 AAGTGTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:27472902 original size:19 final size:19
Alignment explanation
Indices: 27472880--27472918 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
27472870 ATGCGTAAGT
27472880 ATAATAATAATAATAATAA
1 ATAATAATAATAATAATAA
27472899 ATAATAATAATAATAATAA
1 ATAATAATAATAATAATAA
27472918 A
1 A
27472919 AGTGTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAATAATAATAATAATAA
Found at i:27472903 original size:16 final size:16
Alignment explanation
Indices: 27472882--27472914 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
27472872 GCGTAAGTAT
27472882 AATAATAATAATAATA
1 AATAATAATAATAATA
27472898 AATAATAATAATAATA
1 AATAATAATAATAATA
27472914 A
1 A
27472915 TAAAAGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAATAATAATAATA
Found at i:27473514 original size:30 final size:30
Alignment explanation
Indices: 27473469--27473530 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
27473459 TATTTGGTTT
*
27473469 AAGAAACAAGGAAG-AACATAAAAACAGTAAA
1 AAGAAACAAGGAAGAAAAATAAAAA-A-TAAA
*
27473500 AAGAAAC-GGGAAGAAAAATAAAAAATAAA
1 AAGAAACAAGGAAGAAAAATAAAAAATAAA
27473529 AA
1 AA
27473531 TAAAACAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
29 6 0.21
30 6 0.21
31 16 0.57
ACGTcount: A:0.71, C:0.06, G:0.16, T:0.06
Consensus pattern (30 bp):
AAGAAACAAGGAAGAAAAATAAAAAATAAA
Found at i:27474267 original size:41 final size:41
Alignment explanation
Indices: 27474208--27474567 Score: 210
Period size: 41 Copynumber: 8.6 Consensus size: 41
27474198 AGTCTACTCC
*
27474208 ACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTTT
1 ACTGCAACTTCAGAGAGATAAGACTGGATGCAATCTGCTTT
* ** ** ** **
27474249 AATGCAACTTCAGAGAGATAAGATCTATAATTTTTAATCCACTCC
1 ACTGCAACTTCAGAGAGATAAGA-CT-GGA--TGCAATCTGCTTT
* * * *
27474294 ACTGCAACCTCAGGGAGATAGGACTAGATGCAATCTGCTCTT
1 ACTGCAACTTCAGAGAGATAAGACTGGATGCAATCTGCT-TT
** * *
27474336 -CTGCAACTTCAGAGAGATAAGATCT-GATTTTAATCCGCTTC
1 ACTGCAACTTCAGAGAGATAAGA-CTGGA-TGCAATCTGCTTT
* *
27474377 ACTGCAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTT
1 ACTGCAACTTCAGAGAGATAAGACTGGATGCAATCTGCT-TT
** * **
27474419 -CTGCAACTTCAGAGAGATAAGATCT-GATTTTAATCCGCTCC
1 ACTGCAACTTCAGAGAGATAAGA-CTGGA-TGCAATCTGCTTT
* * * * * * *
27474460 ACTGTAACTTCAGGGAGATAGGA-TTGATTTC-TTCTGTCTGCTCC
1 ACTGCAACTTCAGAGAGATAAGACTGGA-TGCAATCTG-CT--T-T
* * * **
27474504 ACTACAACTTCAGGGAGATAAGACTGGATGCGATCTGCACT
1 ACTGCAACTTCAGAGAGATAAGACTGGATGCAATCTGCTTT
27474545 ACTGCAACTTCAGAGAGATAAGA
1 ACTGCAACTTCAGAGAGATAAGA
27474568 TCTAATTTTA
Statistics
Matches: 239, Mismatches: 60, Indels: 40
0.71 0.18 0.12
Matches are distributed among these distances:
40 4 0.02
41 111 0.46
42 64 0.27
43 2 0.01
44 26 0.11
45 32 0.13
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (41 bp):
ACTGCAACTTCAGAGAGATAAGACTGGATGCAATCTGCTTT
Found at i:27474409 original size:83 final size:83
Alignment explanation
Indices: 27474204--27474733 Score: 453
Period size: 83 Copynumber: 6.3 Consensus size: 83
27474194 CTCTAGTCTA
* * *
27474204 CTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCT-TTAATGCAACTTCAGAGAGAT
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTT-CTGCAACTTCAGAGAGAT
* *
27474268 AAGATCTATAATTTTTAATCCA
65 AAGATC--TGA-TTTTAATCCG
* * *
27474290 CTCCACTGCAACCTCAGGGAGATAGGACTAGATGCAATCTGCTCTTCTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTTCTGCAACTTCAGAGAGATA
27474355 AGATCTGATTTTAATCCG
66 AGATCTGATTTTAATCCG
* *
27474373 CTTCACTGCAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTTCTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTTCTGCAACTTCAGAGAGATA
27474438 AGATCTGATTTTAATCCG
66 AGATCTGATTTTAATCCG
* * * * * * * *
27474456 CTCCACTGTAACTTCAGGGAGATAGGA-TTGATTTC-TTCTGTCTGCTCCACTACAACTTCAGGG
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGA-TGCAATCTG-CT-CT--TCTGCAACTTCAGAG
*** *
27474519 AGATAAGA-CTGGA-TGCGATCTG
61 AGATAAGATCT-GATTTTAATCCG
* * * * ** * ** ** *
27474541 CACTACTGCAACTTCAGAGAGATAAGATCT-AATTTTAATCCGCTCCACTAAAACTTCAGGGAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CTGGA-TGCAATCTGCTCTTCTGCAACTTCAGAGAGA
* ** **
27474605 TAGGAT-TGATTTCTTCTGTCTT
64 TAAGATCTGA-TT-TT-AATCCG
* * * * *
27474627 CTCCACTACAACTTCAGGGAAATAAGACTGGATGCAATCTACTCTACTGCAACTTCAGAGAGGTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTTCTGCAACTTCAGAGAGATA
* *
27474692 AGATCTAATTTTAATCCA
66 AGATCTGATTTTAATCCG
*
27474710 CTCCACTGCAACTTCAGTGAGATA
1 CTCCACTGCAACTTCAGGGAGATA
27474734 GGATTTATTT
Statistics
Matches: 359, Mismatches: 68, Indels: 37
0.77 0.15 0.08
Matches are distributed among these distances:
82 9 0.03
83 159 0.44
84 7 0.02
85 61 0.17
86 117 0.33
87 6 0.02
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (83 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCAATCTGCTCTTCTGCAACTTCAGAGAGATA
AGATCTGATTTTAATCCG
Found at i:27474502 original size:169 final size:168
Alignment explanation
Indices: 27474207--27474733 Score: 417
Period size: 169 Copynumber: 3.1 Consensus size: 168
27474197 TAGTCTACTC
* *
27474207 CACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTTTAATGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGAGAGATAAAACTGGATGCAATCTGCTTTAATGCAACTTCAGAGAGATAAGA
**
27474272 TCTATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCAATCTGCTCTTC
66 TC-ATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCAATCTGCTCCAC
*
27474337 TGCAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTT
130 TACAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTT
* *
27474376 CACTGCAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTT-CTGCAACTTCAGAGAGATAAG
1 CACTGCAACTTCAGAGAGATAAAACTGGATGCAATCTGCT-TTAATGCAACTTCAGAGAGATAAG
* * * * * * **
27474440 ATC-TGA-TTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGA-TTGATTTCTTCTGTCTGCT
65 ATCATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGA----TGCAATCTGCT
* *** * *
27474502 CCACTACAACTTCAGGGAGATAAGA-CTGGA-TGCGATCTGC-A
126 CCACTACAACTTCAGAGAGATAAGATCT-GATTTTAATCCGCTT
* * ** * ** * ** *
27474543 CTACTGCAACTTCAGAGAGATAAGATCT-AATTTTAATCCGCTCCACTAAAACTTCAGGGAGATA
1 C-ACTGCAACTTCAGAGAGATAA-AACTGGA-TGCAATCTGCTTTAATGCAACTTCAGAGAGATA
* * ** ** * * * * * *
27474607 GGAT--TGATTTCTTCTGTCTTCTCCACTACAACTTCAGGGAAATAAGACTGGATGCAATCTACT
63 AGATCATAATTT-TT-AATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCAATCTGCT
* * * * * *
27474670 CTACTGCAACTTCAGAGAGGTAAGATCTAATTTTAATCCACTC
126 CCACTACAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTT
*
27474713 CACTGCAACTTCAGTGAGATA
1 CACTGCAACTTCAGAGAGATA
27474734 GGATTTATTT
Statistics
Matches: 283, Mismatches: 58, Indels: 34
0.75 0.15 0.09
Matches are distributed among these distances:
165 3 0.01
166 34 0.12
167 3 0.01
168 61 0.22
169 149 0.53
170 5 0.02
171 25 0.09
172 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (168 bp):
CACTGCAACTTCAGAGAGATAAAACTGGATGCAATCTGCTTTAATGCAACTTCAGAGAGATAAGA
TCATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCAATCTGCTCCACT
ACAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTT
Found at i:27474514 original size:44 final size:43
Alignment explanation
Indices: 27474422--27474778 Score: 173
Period size: 42 Copynumber: 8.4 Consensus size: 43
27474412 TGCTCTTCTG
* ** * *
27474422 CAACTTCAGAGAGATAAGATCTGA-TTTT-AATCCGCTCCACTG
1 CAACTTCAGGGAGATAAGAT-TGATTTTTCTGTCTGCTCCACTA
* *
27474464 TAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTCCACTA
1 CAACTTCAGGGAGATAAGATTGATTT-TTCTGTCTGCTCCACTA
* * * * *
27474508 CAACTTCAGGGAGATAAGACTGGA---TGC-GATCTGCACTACTG
1 CAACTTCAGGGAGATAAGA-TTGATTTTTCTG-TCTGCTCCACTA
* * ** *
27474549 CAACTTCAGAGAGATAAGATCT-AATTTT-AATCCGCTCCACTA
1 CAACTTCAGGGAGATAAGAT-TGATTTTTCTGTCTGCTCCACTA
* * *
27474591 AAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTTCTCCACTA
1 CAACTTCAGGGAGATAAGATTGATTT-TTCTGTCTGCTCCACTA
* * * ** * * *
27474635 CAACTTCAGGGAAATAAGACTGGA---TGCAATCTACTCTACTG
1 CAACTTCAGGGAGATAAGA-TTGATTTTTCTGTCTGCTCCACTA
* * * ** ** *
27474676 CAACTTCAGAGAGGTAAGATCT-AATTTT-AATCCACTCCACTG
1 CAACTTCAGGGAGATAAGAT-TGATTTTTCTGTCTGCTCCACTA
* * * * *
27474718 CAACTTCAGTGAGATAGGATTTATTTCTTTTGTCTGCTCTACTA
1 CAACTTCAGGGAGATAAGATTGATTT-TTCTGTCTGCTCCACTA
27474762 CAACTTCAGGGAGATAA
1 CAACTTCAGGGAGATAA
27474779 AACTGGATAC
Statistics
Matches: 235, Mismatches: 59, Indels: 40
0.70 0.18 0.12
Matches are distributed among these distances:
40 5 0.02
41 61 0.26
42 79 0.34
43 8 0.03
44 76 0.32
45 6 0.03
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
CAACTTCAGGGAGATAAGATTGATTTTTCTGTCTGCTCCACTA
Found at i:27474530 original size:127 final size:127
Alignment explanation
Indices: 27474376--27474870 Score: 774
Period size: 127 Copynumber: 3.9 Consensus size: 127
27474366 TAATCCGCTT
* *
27474376 CACTGCAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTTCTGCAACTTCAGAGAGATAAGA
1 CACTACAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* * *
27474441 TCTGATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
66 TCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
* * *
27474503 CACTACAACTTCAGGGAGATAAGACTGGATGCGATCTGCACTACTGCAACTTCAGAGAGATAAGA
1 CACTACAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* ** *
27474568 TCTAATTTTAATCCGCTCCACTAAAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTTCTC
66 TCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
* * * *
27474630 CACTACAACTTCAGGGAAATAAGACTGGATGCAATCTACTCTACTGCAACTTCAGAGAGGTAAGA
1 CACTACAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* * *
27474695 TCTAATTTTAATCCACTCCACTGCAACTTCAGTGAGATAGGATTTATTTCTTTTGTCTGCTC
66 TCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
* * * *
27474757 TACTACAACTTCAGGGAGATAAAACTGGATACGATCTGCTCTTCTGCAACTTCAGAGAGATAAGA
1 CACTACAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
*
27474822 TCTGATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTT
66 TCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTT
27474871 AACCGGTTTG
Statistics
Matches: 336, Mismatches: 32, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
127 336 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (127 bp):
CACTACAACTTCAGGGAGATAAAACTGGATGCAATCTGCTCTACTGCAACTTCAGAGAGATAAGA
TCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCTGTCTGCTC
Found at i:27474716 original size:210 final size:211
Alignment explanation
Indices: 27474199--27474733 Score: 582
Period size: 210 Copynumber: 2.5 Consensus size: 211
27474189 GCTATCTCTA
* * * *
27474199 GTCTACTCCACTGCAACTTCAGAGAGATAAGACTGGATGCGATCTGCTTTAATGCAACTTCAGAG
1 GTCTTCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAG
* *
27474264 AGATAAGATCTATAATTTTTAATCCACTCCACTGCAACCTCAGGGAGATAGGACTAGATGCAATC
66 AGATAAGATC--TAA-TTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATC
* * * * **
27474329 TGCTCTTCTGCAACTTCAGAGAGATAAGATCTGATTTTAATCCGCTTCACTGCAACTTCAGGGAG
128 TGCACTACTGCAACTTCAGAGAGATAAGATCTAATTTTAATCCGCTCCACTAAAACTTCAGGGAG
27474394 ATAAAACTGGATGCAATCT
193 ATAAAACTGGATGCAATCT
* ** * * *
27474413 G-C-TCT--TCTGCAACTTCAGAGAGATAAGATCT-GATTTTAATCCGCTCCACTGTAACTTCAG
1 GTCTTCTCCACTGCAACTTCAGAGAGATAAGA-CTGGA-TGCAATCTGCTCTACTGCAACTTCAG
* * * ** ** * * *
27474473 GGAGATAGGAT-TGATTTCTTCTGTCTGCTCCACTACAACTTCAGGGAGATAAGACTGGATGCGA
64 AGAGATAAGATCT-AATT-TT-AATCCACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAA
27474537 TCTGCACTACTGCAACTTCAGAGAGATAAGATCTAATTTTAATCCGCTCCACTAAAACTTCAGGG
126 TCTGCACTACTGCAACTTCAGAGAGATAAGATCTAATTTTAATCCGCTCCACTAAAACTTCAGGG
** * * *
27474602 AGATAGGA-TTGATTTC-TTCT
191 AGATAAAACTGGA-TGCAATCT
* * * *
27474622 GTCTTCTCCACTACAACTTCAGGGAAATAAGACTGGATGCAATCTACTCTACTGCAACTTCAGAG
1 GTCTTCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAG
* *
27474687 AGGTAAGATCTAATTTTAATCCACTCCACTGCAACTTCAGTGAGATA
66 AGATAAGATCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATA
27474734 GGATTTATTT
Statistics
Matches: 256, Mismatches: 53, Indels: 28
0.76 0.16 0.08
Matches are distributed among these distances:
208 3 0.01
209 10 0.04
210 150 0.59
211 34 0.13
212 35 0.14
213 23 0.09
214 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (211 bp):
GTCTTCTCCACTGCAACTTCAGAGAGATAAGACTGGATGCAATCTGCTCTACTGCAACTTCAGAG
AGATAAGATCTAATTTTAATCCACTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATCTGC
ACTACTGCAACTTCAGAGAGATAAGATCTAATTTTAATCCGCTCCACTAAAACTTCAGGGAGATA
AAACTGGATGCAATCT
Found at i:27479594 original size:16 final size:16
Alignment explanation
Indices: 27479569--27479603 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
27479559 TTCTATAATG
27479569 AAATGCCATGCAGTCA
1 AAATGCCATGCAGTCA
*
27479585 AAATGTCATGCAGTCA
1 AAATGCCATGCAGTCA
27479601 AAA
1 AAA
27479604 CAAAACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (16 bp):
AAATGCCATGCAGTCA
Found at i:27481105 original size:23 final size:21
Alignment explanation
Indices: 27481071--27481112 Score: 50
Period size: 21 Copynumber: 1.9 Consensus size: 21
27481061 AAATACTTTA
27481071 ATTTAAATAATACATGTATATGT
1 ATTTAAATAAT--ATGTATATGT
27481094 ATTTACAA-AATATGTATAT
1 ATTTA-AATAATATGTATAT
27481113 ATATATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
21 8 0.44
23 8 0.44
24 2 0.11
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (21 bp):
ATTTAAATAATATGTATATGT
Found at i:27481402 original size:24 final size:23
Alignment explanation
Indices: 27481375--27481421 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
27481365 TGAATAGTGT
27481375 AAGAATATATATATACATAT-TATA
1 AAGAATATATA-A-ACATATATATA
*
27481399 AAGAATGTATAAACATATATATA
1 AAGAATATATAAACATATATATA
27481422 GATTATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 5 0.24
24 10 0.48
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (23 bp):
AAGAATATATAAACATATATATA
Found at i:27481476 original size:61 final size:61
Alignment explanation
Indices: 27481396--27481556 Score: 161
Period size: 61 Copynumber: 2.6 Consensus size: 61
27481386 TATACATATT
* * *
27481396 ATAAAGAATGTATAAACATATATATAGAT-TAT-AAAA-TATGAAAAATGTATAGATATTATAA-
1 ATAAA-AATGTATATACATATATATA-ATATATAAAAACTATG-AAAAT-AATA-ATATAATAAT
27481457 A
61 A
*
27481458 ATATAAATGTATATACATATATA-AATATATAAAAACTATGAAAATAATAATATAATAATA
1 ATAAAAATGTATATACATATATATAATATATAAAAACTATGAAAATAATAATATAATAATA
**
27481518 ATAAAAGATGTATATGTATATATATACATATTATAAAAA
1 ATAAAA-ATGTATATACATATATATA-ATA-TATAAAAA
27481557 ATATATAAAC
Statistics
Matches: 84, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
59 10 0.12
60 13 0.15
61 41 0.49
62 9 0.11
63 3 0.04
64 8 0.10
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (61 bp):
ATAAAAATGTATATACATATATATAATATATAAAAACTATGAAAATAATAATATAATAATA
Found at i:27481501 original size:154 final size:154
Alignment explanation
Indices: 27481380--27481671 Score: 505
Period size: 154 Copynumber: 1.9 Consensus size: 154
27481370 AGTGTAAGAA
* *
27481380 TATATATATACATATTATAAAGAATGTATAAACATATATATAGATTATAAAATATGAAAAATGTA
1 TATATATATACATATTATAAAAAATATATAAACATATATATAGATTATAAAATATGAAAAATGTA
*
27481445 TAGATATTATAAAATATAAATGTATATACATATATAAATATATAAAAACTATGAAAATAATAATA
66 TAAATATTATAAAATATAAATGTATATACATATATAAATATATAAAAACTATGAAAATAATAATA
27481510 TAATAATAATAAAAGATGTATATG
131 TAATAATAATAAAAGATGTATATG
* *
27481534 TATATATATACATATTATAAAAAATATATAAACATATATATAGATTATATAATATGGAAAATGTA
1 TATATATATACATATTATAAAAAATATATAAACATATATATAGATTATAAAATATGAAAAATGTA
* *
27481599 TAAATATTATAAAATATAAATGTATATACATATATATATATATATAAACTATGAAAATAA-AATA
66 TAAATATTATAAAATATAAATGTATATACATATATAAATATATAAAAACTATGAAAATAATAAT-
27481663 ATAATAATA
130 ATAATAATA
27481672 TGATAATAAT
Statistics
Matches: 130, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
153 3 0.02
154 127 0.98
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (154 bp):
TATATATATACATATTATAAAAAATATATAAACATATATATAGATTATAAAATATGAAAAATGTA
TAAATATTATAAAATATAAATGTATATACATATATAAATATATAAAAACTATGAAAATAATAATA
TAATAATAATAAAAGATGTATATG
Found at i:27481763 original size:3 final size:3
Alignment explanation
Indices: 27481755--27481789 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
27481745 ATGCGTAAGT
27481755 ATA ATA ATA ATA ATAA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA A
27481790 AAGTGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:27481776 original size:16 final size:16
Alignment explanation
Indices: 27481755--27481786 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
27481745 ATGCGTAAGT
27481755 ATAATAATAATAATAA
1 ATAATAATAATAATAA
27481771 ATAATAATAATAATAA
1 ATAATAATAATAATAA
27481787 TAAAAGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAATAATAATAATAA
Found at i:27486685 original size:20 final size:20
Alignment explanation
Indices: 27486626--27486676 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
27486616 TAAAAAAATT
*
27486626 AAAATAT-TAAAAATTAGAA
1 AAAATATATAAAAATTATAA
*
27486645 AAAATATATAAAAATTGTAA
1 AAAATATATAAAAATTATAA
27486665 AAAAT-TATAAAA
1 AAAATATATAAAA
27486677 GTTTATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (20 bp):
AAAATATATAAAAATTATAA
Found at i:27487029 original size:7 final size:7
Alignment explanation
Indices: 27486993--27487017 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
27486983 TTCTAAAAAA
27486993 TTTTATT
1 TTTTATT
27487000 TTTTATT
1 TTTTATT
27487007 TTTTATT
1 TTTTATT
27487014 TTTT
1 TTTT
27487018 CTAATTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTATT
Found at i:27487223 original size:89 final size:89
Alignment explanation
Indices: 27487033--27487233 Score: 244
Period size: 89 Copynumber: 2.3 Consensus size: 89
27487023 TTTTAATAAG
* * *
27487033 AGCAGGGGCTTAATTGC-TTTTTTGAAAAATTTTGAGGGACTTTTTGATGCATTTTGAAAGTTCA
1 AGCAGGGGATTAATTGCTTTTTTTGAAAAAGTTTGAAGGACTTTTTGATGCATTTTGAAAGTTCA
* *
27487097 AGTACCCAATTGAGTGACAAAAAA
66 AGTACCCAATTGAGTCAAAAAAAA
* * * * ** *
27487121 GGCAAGGGTTTAATTGCTTTTTTTGAATAAGTTTGAAGTCCTTTTTTATGCATTTTGAAAGTTCA
1 AGCAGGGGATTAATTGCTTTTTTTGAAAAAGTTTGAAGGACTTTTTGATGCATTTTGAAAGTTCA
**
27487186 AGTATTCAATTGAGTCCAAAAAAAA
66 AGTACCCAATTGAGT-CAAAAAAAA
*
27487211 AG-AGGGGATTAATTGTTTTTTTT
1 AGCAGGGGATTAATTGCTTTTTTT
27487234 TAATTAAAGG
Statistics
Matches: 94, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
88 14 0.15
89 72 0.77
90 8 0.09
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (89 bp):
AGCAGGGGATTAATTGCTTTTTTTGAAAAAGTTTGAAGGACTTTTTGATGCATTTTGAAAGTTCA
AGTACCCAATTGAGTCAAAAAAAA
Found at i:27489934 original size:34 final size:34
Alignment explanation
Indices: 27489896--27490002 Score: 78
Period size: 34 Copynumber: 3.1 Consensus size: 34
27489886 TCCACTCAAG
*
27489896 ATTAATGTATGTCACACTATGAACATCACAAGTA
1 ATTAATGTATGACACACTATGAACATCACAAGTA
** * * * *
27489930 ATTAAATCCAT-ACATAGTCTATCATCCA-CTCAAG--
1 ATT-AATGTATGACACA--CTATGA-ACATCACAAGTA
*
27489964 ATTAATGTATGCCACACTATGAACATCACAAGTA
1 ATTAATGTATGACACACTATGAACATCACAAGTA
27489998 ATTAA
1 ATTAA
27490003 ATCCATAAAC
Statistics
Matches: 51, Mismatches: 14, Indels: 16
0.63 0.17 0.20
Matches are distributed among these distances:
31 2 0.04
32 10 0.20
33 5 0.10
34 17 0.33
35 5 0.10
36 10 0.20
37 2 0.04
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (34 bp):
ATTAATGTATGACACACTATGAACATCACAAGTA
Found at i:27489980 original size:68 final size:68
Alignment explanation
Indices: 27489871--27490009 Score: 260
Period size: 68 Copynumber: 2.0 Consensus size: 68
27489861 TGAGTGACGA
*
27489871 ATACATAGTCCATCATCCACTCAAGATTAATGTATGTCACACTATGAACATCACAAGTAATTAAA
1 ATACATAGTCCATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
27489936 TCC
66 TCC
*
27489939 ATACATAGTCTATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
1 ATACATAGTCCATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
27490004 TCC
66 TCC
27490007 ATA
1 ATA
27490010 AACCAATCTA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (68 bp):
ATACATAGTCCATCATCCACTCAAGATTAATGTATGCCACACTATGAACATCACAAGTAATTAAA
TCC
Found at i:27490866 original size:5 final size:5
Alignment explanation
Indices: 27490856--27490909 Score: 65
Period size: 5 Copynumber: 10.8 Consensus size: 5
27490846 AATGAGAATC
** *
27490856 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -ATTT AAAGT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
27490905 CAAAA
1 -AAAA
27490910 CCAAATGTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
4 2 0.05
5 36 0.86
6 4 0.10
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:27490897 original size:19 final size:20
Alignment explanation
Indices: 27490856--27490909 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
27490846 AATGAGAATC
27490856 AAAATAAAATAAAATAAAAT
1 AAAATAAAATAAAATAAAAT
** *
27490876 AAAATAAAAT-ATTTAAAGT
1 AAAATAAAATAAAATAAAAT
27490895 AAAATAAAATCAAAA
1 AAAATAAAAT-AAAA
27490910 CCAAATGTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 16 0.59
20 10 0.37
21 1 0.04
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (20 bp):
AAAATAAAATAAAATAAAAT
Found at i:27496801 original size:24 final size:26
Alignment explanation
Indices: 27496755--27496802 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
27496745 AACTGGGTAC
*
27496755 AGTTTCATTTGAATTTTTTACTTTAT
1 AGTTACATTTGAATTTTTTACTTTAT
27496781 AGTTACATTTG-A-TTTTTACTTT
1 AGTTACATTTGAATTTTTTACTTT
27496803 TGGCTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.48
25 1 0.05
26 10 0.48
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.60
Consensus pattern (26 bp):
AGTTACATTTGAATTTTTTACTTTAT
Found at i:27498382 original size:19 final size:19
Alignment explanation
Indices: 27498358--27498403 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
27498348 CTCTCTTAGG
27498358 GTTAGGGTTT-TTAAAGTTT
1 GTTAGGGTTTATT-AAGTTT
*
27498377 GTTA-GGTTTATTAATTTT
1 GTTAGGGTTTATTAAGTTT
27498395 GTTAGGGTT
1 GTTAGGGTT
27498404 AGGGTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (19 bp):
GTTAGGGTTTATTAAGTTT
Found at i:27500923 original size:9 final size:9
Alignment explanation
Indices: 27500909--27500966 Score: 80
Period size: 9 Copynumber: 6.4 Consensus size: 9
27500899 TTTGGTTAAA
*
27500909 AATTAATCG
1 AATTAACCG
27500918 AATTAACCG
1 AATTAACCG
**
27500927 AATTGCCCG
1 AATTAACCG
27500936 AATTAACCG
1 AATTAACCG
*
27500945 AATTACCCG
1 AATTAACCG
27500954 AATTAACCG
1 AATTAACCG
27500963 AATT
1 AATT
27500967 GAATCCCTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:27500937 original size:18 final size:18
Alignment explanation
Indices: 27500916--27500967 Score: 95
Period size: 18 Copynumber: 2.9 Consensus size: 18
27500906 AAAAATTAAT
27500916 CGAATTAACCGAATTGCC
1 CGAATTAACCGAATTGCC
*
27500934 CGAATTAACCGAATTACC
1 CGAATTAACCGAATTGCC
27500952 CGAATTAACCGAATTG
1 CGAATTAACCGAATTG
27500968 AATCCCTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.23
Consensus pattern (18 bp):
CGAATTAACCGAATTGCC
Found at i:27506563 original size:117 final size:117
Alignment explanation
Indices: 27506357--27506575 Score: 402
Period size: 117 Copynumber: 1.9 Consensus size: 117
27506347 GTTTGAATCG
*
27506357 AAATGAACGAAACGAATAGAATTAGAGAAGTGAGAAACATTCAGGAATGATTATGGTTTTCTCTG
1 AAATGAACGAAACGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTTTTCTCTG
*
27506422 AAATGGAGAAATTGAATCATTTGGAAATGAATGTAGGTTTCTCAATTGAACA
66 AAATGGAGAAATTGAATCATTTGGAAATGAATATAGGTTTCTCAATTGAACA
* *
27506474 AAATGAATGAAATGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTTTTCTCTG
1 AAATGAACGAAACGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTTTTCTCTG
27506539 AAATGGAGAAATTGAATCATTTGGAAATGAATATAGG
66 AAATGGAGAAATTGAATCATTTGGAAATGAATATAGG
27506576 AATGATAATG
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 98 1.00
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.28
Consensus pattern (117 bp):
AAATGAACGAAACGAATAGAAATAGAGAAGTGAGAAACATTCAGGAATGATTATGGTTTTCTCTG
AAATGGAGAAATTGAATCATTTGGAAATGAATATAGGTTTCTCAATTGAACA
Found at i:27506579 original size:57 final size:57
Alignment explanation
Indices: 27506516--27506632 Score: 198
Period size: 57 Copynumber: 2.1 Consensus size: 57
27506506 AGAAACATTC
* * *
27506516 AGGAATGATTATGGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATAT
1 AGGAATGATAATGGTTCTCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATAT
*
27506573 AGGAATGATAATGGTTCTCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATGT
1 AGGAATGATAATGGTTCTCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATAT
27506630 AGG
1 AGG
27506633 TTTTCTCTGA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.32
Consensus pattern (57 bp):
AGGAATGATAATGGTTCTCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATAT
Found at i:27506640 original size:46 final size:46
Alignment explanation
Indices: 27506585--27506735 Score: 169
Period size: 46 Copynumber: 3.5 Consensus size: 46
27506575 GAATGATAAT
* *
27506585 GGTTCTCTCTGAAATGGAGAAATTGAATCATTTGGAAATAAATGTA
1 GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTA
* * * *
27506631 GGTTTTCTCTGAAATGGAGAAA--CATTCA---GG-AATGATTAT-
1 GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTA
27506670 GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTA
1 GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTA
*
27506716 GG-TTTCTC-AAAATGGA-AAAT
1 GGTTTTCTCTGAAATGGAGAAAT
27506736 GAAAATGAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 17
0.76 0.10 0.15
Matches are distributed among these distances:
39 22 0.25
40 6 0.07
41 6 0.07
43 4 0.05
44 13 0.15
45 13 0.15
46 23 0.26
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.33
Consensus pattern (46 bp):
GGTTTTCTCTGAAATGGAGAAATTGAATCATTTGGAAATGAATGTA
Found at i:27512796 original size:23 final size:23
Alignment explanation
Indices: 27512765--27512816 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
27512755 AAATGTTTGG
27512765 AAGG-ATCGTCTGTTAGTTAGAT
1 AAGGAATCGTCTGTTAGTTAGAT
27512787 AAGGAATCGTCTGTTAGTTAGAT
1 AAGGAATCGTCTGTTAGTTAGAT
27512810 AAGGAAT
1 AAGGAAT
27512817 ATATGAGTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 25 0.86
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.33
Consensus pattern (23 bp):
AAGGAATCGTCTGTTAGTTAGAT
Found at i:27530346 original size:33 final size:33
Alignment explanation
Indices: 27530317--27530383 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
27530307 GATTATGCAT
27530317 TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
1 TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
* *
27530350 TGAAATGGTGAGTTATGTTCATGTTTTACGAAC
1 TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
27530383 T
1 T
27530384 TACTAAGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.42
Consensus pattern (33 bp):
TGAAATGGTAAGTTATGTTCATGTTTTATGAAC
Found at i:27531706 original size:3 final size:3
Alignment explanation
Indices: 27531685--27531750 Score: 114
Period size: 3 Copynumber: 22.0 Consensus size: 3
27531675 TCTGGCTGCC
* *
27531685 GAT GAT GAC GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
27531733 GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT
27531751 AAAGGCGCTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:27532831 original size:82 final size:81
Alignment explanation
Indices: 27532682--27532851 Score: 198
Period size: 82 Copynumber: 2.1 Consensus size: 81
27532672 TGGTCAAATG
* ** *
27532682 TCGATATTTTATGAATTATTGATACCCTTCTTAAAAAAGATACCAAAATGGCATTTTATTTTTTC
1 TCGATATTTTATGAAATATCAATACCCTTCTTAAAAAAGATACCAAAATAGCA-TTTATTTTTTC
* **
27532747 ACAAACCCTATTAAGTA
65 ACAAAACCTACAAAGTA
* * * *
27532764 TCGATATTTTCTGAAATATCAATACCTTTTCTTAAAAATGATACTAAAATAGCA-TTATTTTTCT
1 TCGATATTTTATGAAATATCAATACC-CTTCTTAAAAAAGATACCAAAATAGCATTTATTTTT-T
*
27532828 CACAAAACTTACAAAGTA
64 CACAAAACCTACAAAGTA
27532846 TCGATA
1 TCGATA
27532852 AAATTATTTT
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
81 8 0.11
82 43 0.58
83 23 0.31
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (81 bp):
TCGATATTTTATGAAATATCAATACCCTTCTTAAAAAAGATACCAAAATAGCATTTATTTTTTCA
CAAAACCTACAAAGTA
Found at i:27535346 original size:26 final size:26
Alignment explanation
Indices: 27535310--27535361 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
27535300 AGGTATGAAT
27535310 GATAATTTGAATGGTTAAGGCACTAA
1 GATAATTTGAATGGTTAAGGCACTAA
27535336 GATAATTTGAATGGTTAAGGCACTAA
1 GATAATTTGAATGGTTAAGGCACTAA
27535362 CCCTCATGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.31
Consensus pattern (26 bp):
GATAATTTGAATGGTTAAGGCACTAA
Found at i:27536464 original size:34 final size:34
Alignment explanation
Indices: 27536421--27536485 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
27536411 CAGTTCAGTT
*
27536421 GGCCTTAGCCCATTACAGTGACAGTATCAGTGTA
1 GGCCTTAGCCCATTACAGTGACAGTAACAGTGTA
27536455 GGCCTTAGCCCATTACAGTGACAGTAACAGT
1 GGCCTTAGCCCATTACAGTGACAGTAACAGT
27536486 TCAAACATGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (34 bp):
GGCCTTAGCCCATTACAGTGACAGTAACAGTGTA
Found at i:27536789 original size:27 final size:27
Alignment explanation
Indices: 27536752--27536966 Score: 290
Period size: 27 Copynumber: 7.8 Consensus size: 27
27536742 ATAACATTAA
27536752 GCAT-ACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
27536778 GCCTAACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
27536805 GCATAACCGTCATTTTATAACATAAGAGCTTGG
1 GCATAACAGTCATTTTATAACAT---AG---GG
27536838 GCATAACAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
27536865 GCATAACCGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
* * *
27536892 GCATAACTGTTATTTTATAATATA-GG
1 GCATAACAGTCATTTTATAACATAGGG
*
27536918 GCATAATAGTCATTTTATAACATAGGG
1 GCATAACAGTCATTTTATAACATAGGG
*
27536945 GCATAACAATCATTTTATAACA
1 GCATAACAGTCATTTTATAACA
27536967 GCTTGGGGGT
Statistics
Matches: 167, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
26 25 0.15
27 114 0.68
30 4 0.02
33 24 0.14
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (27 bp):
GCATAACAGTCATTTTATAACATAGGG
Found at i:27536853 original size:60 final size:55
Alignment explanation
Indices: 27536759--27536966 Score: 280
Period size: 60 Copynumber: 3.8 Consensus size: 55
27536749 TAAGCATACA
*
27536759 GTCATTTTATAACAT-AGGGGCCTAACAGTCATTTTATAACATAGGGGCATAACC
1 GTCATTTTATAACATAAGGGGCATAACAGTCATTTTATAACATAGGGGCATAACC
27536813 GTCATTTTATAACATAAGAGCTTGGGCATAACAGTCATTTTATAACATAGGGGCATAACC
1 GTCATTTTATAACAT-A-AG---GGGCATAACAGTCATTTTATAACATAGGGGCATAACC
* * * **
27536873 GTCATTTTATAACAT-AGGGGCATAACTGTTATTTTATAATATA-GGGCATAATA
1 GTCATTTTATAACATAAGGGGCATAACAGTCATTTTATAACATAGGGGCATAACC
*
27536926 GTCATTTTATAACAT-AGGGGCATAACAATCATTTTATAACA
1 GTCATTTTATAACATAAGGGGCATAACAGTCATTTTATAACA
27536967 GCTTGGGGGT
Statistics
Matches: 138, Mismatches: 10, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
53 45 0.33
54 38 0.28
57 4 0.03
60 51 0.37
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (55 bp):
GTCATTTTATAACATAAGGGGCATAACAGTCATTTTATAACATAGGGGCATAACC
Found at i:27536857 original size:87 final size:80
Alignment explanation
Indices: 27536752--27536966 Score: 297
Period size: 87 Copynumber: 2.6 Consensus size: 80
27536742 ATAACATTAA
*
27536752 GCAT-ACAGTCATTTTATAACATAGGGGCCTAACAGTCATTTTATAACATAGGGGCATAACCGTC
1 GCATAACAGTCATTTTATAACATAGGGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTC
*
27536816 ATTTTATAACATAAGAGCTTGG
66 ATTTTAT-A-AT---A--TAGG
* * *
27536838 GCATAACAGTCATTTTATAACATAGGGGCATAACCGTCATTTTATAACATAGGGGCATAACTGTT
1 GCATAACAGTCATTTTATAACATAGGGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTC
27536903 ATTTTATAATATAGG
66 ATTTTATAATATAGG
* *
27536918 GCATAATAGTCATTTTATAACATAGGGGCATAACAATCATTTTATAACA
1 GCATAACAGTCATTTTATAACATAGGGGCATAACAGTCATTTTATAACA
27536967 GCTTGGGGGT
Statistics
Matches: 120, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
80 49 0.41
82 1 0.01
85 2 0.02
86 5 0.04
87 63 0.52
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (80 bp):
GCATAACAGTCATTTTATAACATAGGGGCATAACAGTCATTTTATAACATAGGGGCATAACCGTC
ATTTTATAATATAGG
Found at i:27560025 original size:18 final size:20
Alignment explanation
Indices: 27559979--27560020 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
27559969 GCCATGGATG
*
27559979 TATTATGCCAATATAATTGA
1 TATTGTGCCAATATAATTGA
27559999 TTGATTGTGCCAATATAATTGA
1 -T-ATTGTGCCAATATAATTGA
27560021 ATGTGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (20 bp):
TATTGTGCCAATATAATTGA
Found at i:27565351 original size:27 final size:28
Alignment explanation
Indices: 27565188--27565338 Score: 241
Period size: 28 Copynumber: 5.4 Consensus size: 28
27565178 GAGATTGGCG
* * * *
27565188 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
27565217 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
27565245 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
27565273 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
27565301 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
27565328 CTGAGTGTGCG
1 CTAAGTGTGCG
27565339 GACTTAATAT
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
27 24 0.21
28 78 0.67
29 15 0.13
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:27568324 original size:26 final size:27
Alignment explanation
Indices: 27568295--27568347 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
27568285 CACCAATGAT
27568295 TCGGG-GAATCAACACTTAGCAACCCC
1 TCGGGAGAATCAACACTTAGCAACCCC
*
27568321 TCGGGAGAATCAGCACTTAGCAACCCC
1 TCGGGAGAATCAACACTTAGCAACCCC
27568348 CTTCACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.30, C:0.34, G:0.21, T:0.15
Consensus pattern (27 bp):
TCGGGAGAATCAACACTTAGCAACCCC
Found at i:27568403 original size:102 final size:101
Alignment explanation
Indices: 27568222--27568554 Score: 531
Period size: 102 Copynumber: 3.3 Consensus size: 101
27568212 CTAATGAGTC
**
27568222 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
27568287 CCAATGATTCGGGGAATCAACACTTAGCAACCCCTCG
66 CCAATGATT-GGGGAATCAGCACTTAGCAACCCCTCG
* * *
27568324 GGAGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTCGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
27568389 CCAATGAGTTGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGA-TTGGGGAATCAGCACTTAGCAACCCCTCG
*
27568426 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAACACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* *
27568491 CCAATGAATAGGGGAATCAGCACTTAGTAACCCCTCG
66 CCAATG-ATTGGGGAATCAGCACTTAGCAACCCCTCG
* *
27568528 GGGGAATCAGCACCTAGCAAGCCCTTT
1 GGGGAATCAGCACTTAGCAACCCCTTT
27568555 TTATTCAATG
Statistics
Matches: 213, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
102 210 0.99
103 3 0.01
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (101 bp):
GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGATTGGGGAATCAGCACTTAGCAACCCCTCG
Found at i:27568434 original size:27 final size:27
Alignment explanation
Indices: 27568399--27568451 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
27568389 CCAATGAGTT
27568399 GGGGAATCAGCACTTAGCAACCCCTTG
1 GGGGAATCAGCACTTAGCAACCCCTTG
27568426 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACTTAGCAACCCCTT
27568452 TCACATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.30, G:0.25, T:0.19
Consensus pattern (27 bp):
GGGGAATCAGCACTTAGCAACCCCTTG
Found at i:27568552 original size:27 final size:27
Alignment explanation
Indices: 27568501--27568552 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
27568491 CCAATGAATA
* *
27568501 GGGGAATCAGCACTTAGTAACCCCTCG
1 GGGGAATCAGCACCTAGCAACCCCTCG
*
27568528 GGGGAATCAGCACCTAGCAAGCCCT
1 GGGGAATCAGCACCTAGCAACCCCT
27568553 TTTTATTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.15
Consensus pattern (27 bp):
GGGGAATCAGCACCTAGCAACCCCTCG
Found at i:27575881 original size:69 final size:69
Alignment explanation
Indices: 27575795--27575927 Score: 230
Period size: 69 Copynumber: 1.9 Consensus size: 69
27575785 CCAATGAGTC
* ** *
27575795 GGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGTTCATCACTTAGCAACCC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCC
27575860 CTCG
66 CTCG
27575864 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACC
27575928 ACCAATGAGT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 60 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (69 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCC
CTCG
Found at i:27575953 original size:33 final size:33
Alignment explanation
Indices: 27575908--27576062 Score: 106
Period size: 33 Copynumber: 4.6 Consensus size: 33
27575898 AAGATACGGT
27575908 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
* * *
27575941 GGAATCAACACTTAGCAACC-TC--T---TGGG
1 GGAATCAGCACTTAGCAACCACCAATGAGTCGG
* *
27575968 GGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGG
1 GGAATCAGCACTTAGCAACCAC---CA-A--TGAG-T-CGG
* * *
27576009 TGGAATCAACACTTAGCAACCACCAATGAATAGG
1 -GGAATCAGCACTTAGCAACCACCAATGAGTCGG
*
27576043 GGAATCAGCACTTAGTAACC
1 GGAATCAGCACTTAGCAACC
27576063 CCTCGGGGGA
Statistics
Matches: 94, Mismatches: 13, Indels: 30
0.69 0.09 0.22
Matches are distributed among these distances:
27 22 0.23
30 1 0.01
31 1 0.01
32 1 0.01
33 37 0.39
34 2 0.02
35 1 0.01
36 3 0.03
38 1 0.01
39 2 0.02
40 1 0.01
41 2 0.02
42 20 0.21
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (33 bp):
GGAATCAGCACTTAGCAACCACCAATGAGTCGG
Found at i:27576092 original size:27 final size:27
Alignment explanation
Indices: 27576041--27576092 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
27576031 CCAATGAATA
* *
27576041 GGGGAATCAGCACTTAGTAACCCCTCG
1 GGGGAATCAGCACCTAGCAACCCCTCG
*
27576068 GGGGAATCAGCACCTAGCAAGCCCT
1 GGGGAATCAGCACCTAGCAACCCCT
27576093 TTTTATTCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.31, G:0.27, T:0.15
Consensus pattern (27 bp):
GGGGAATCAGCACCTAGCAACCCCTCG
Found at i:27576093 original size:102 final size:102
Alignment explanation
Indices: 27575847--27576094 Score: 406
Period size: 102 Copynumber: 2.4 Consensus size: 102
27575837 GTGGGTTCAT
*
27575847 CACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAA
1 CACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAA
* * *
27575912 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAA
66 TCAACACTTAGCAACCACCAATGAATAGGGGAATCAA
* *
27575949 CACTTAGCAACCTCTTGGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAA
1 CACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAA
*
27576014 TCAACACTTAGCAACCACCAATGAATAGGGGAATCAG
66 TCAACACTTAGCAACCACCAATGAATAGGGGAATCAA
* * *
27576051 CACTTAGTAACCCCTCGGGGGAATCAGCACCTAGCAAGCCCTTT
1 CACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCTTT
27576095 TTATTCAATG
Statistics
Matches: 134, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 134 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (102 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGAA
TCAACACTTAGCAACCACCAATGAATAGGGGAATCAA
Found at i:27581525 original size:22 final size:23
Alignment explanation
Indices: 27581500--27581553 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
27581490 ACTAATGAAT
27581500 AGAGAGCACTA-AAGTGCTAAAC
1 AGAGAGCACTAGAAGTGCTAAAC
*
27581522 AGAGAGCAC-AGATGTGCTAAAC
1 AGAGAGCACTAGAAGTGCTAAAC
*
27581544 GGAGAGCACT
1 AGAGAGCACT
27581554 GTCGTGCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.41, C:0.19, G:0.28, T:0.13
Consensus pattern (23 bp):
AGAGAGCACTAGAAGTGCTAAAC
Found at i:27582498 original size:16 final size:17
Alignment explanation
Indices: 27582471--27582502 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
27582461 CATTTTAAGC
27582471 TTTCTGTTTCTTTCTTA
1 TTTCTGTTTCTTTCTTA
27582488 TTTCT-TTTCTTTCTT
1 TTTCTGTTTCTTTCTT
27582503 TTGTTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTCTGTTTCTTTCTTA
Found at i:27601791 original size:23 final size:23
Alignment explanation
Indices: 27601748--27601791 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
27601738 TAAAAATAGA
* *
27601748 ATTTTATATATAGATATGATTTT
1 ATTTTAAATATAGATAAGATTTT
27601771 ATTTTAAATAT-GATAAAGATT
1 ATTTTAAATATAGAT-AAGATT
27601792 AAATCAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (23 bp):
ATTTTAAATATAGATAAGATTTT
Found at i:27609149 original size:22 final size:22
Alignment explanation
Indices: 27609118--27609166 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
27609108 TACGTACATT
*
27609118 CCCGTGTGCAACCCCTCACACC
1 CCCGTATGCAACCCCTCACACC
*
27609140 CCCGTATGCAACCCCTCACACG
1 CCCGTATGCAACCCCTCACACC
27609162 CCCGT
1 CCCGT
27609167 GTGAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.18, C:0.53, G:0.14, T:0.14
Consensus pattern (22 bp):
CCCGTATGCAACCCCTCACACC
Found at i:27617219 original size:50 final size:50
Alignment explanation
Indices: 27617160--27617288 Score: 138
Period size: 50 Copynumber: 2.6 Consensus size: 50
27617150 GTCATTAGGG
* * * *
27617160 TTACCGATTCTTAGCTCATATGAGCCTAAC-GATTTACAGCTCTTGAGAGC
1 TTACTGATTCTTAGCTCATATGAGCAT-ACTAATTTACAGCTCGTGAGAGC
* *
27617210 TTACTGATTCTTGGCTCGTATGAGCATACTAATTTACAGCTCGTGAGAGC
1 TTACTGATTCTTAGCTCATATGAGCATACTAATTTACAGCTCGTGAGAGC
* *
27617260 ATA-TCGATTCATAGCTCGA-ATGAGCATAC
1 TTACT-GATTCTTAGCTC-ATATGAGCATAC
27617289 GTGCATAGGA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
49 3 0.05
50 63 0.95
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (50 bp):
TTACTGATTCTTAGCTCATATGAGCATACTAATTTACAGCTCGTGAGAGC
Found at i:27617251 original size:25 final size:26
Alignment explanation
Indices: 27617223--27617288 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 26
27617213 CTGATTCTTG
*
27617223 GCTCGTATGAGCATACT-AATTTACA
1 GCTCGTATGAGCATACTCAATTCACA
* *
27617248 GCTCGTGA-GAGCATA-TCGATTCATA
1 GCTCGT-ATGAGCATACTCAATTCACA
*
27617273 GCTCGAATGAGCATAC
1 GCTCGTATGAGCATAC
27617289 GTGCATAGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
24 2 0.06
25 30 0.91
26 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (26 bp):
GCTCGTATGAGCATACTCAATTCACA
Found at i:27618843 original size:26 final size:26
Alignment explanation
Indices: 27618810--27618861 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
27618800 GTATGTATGA
27618810 TTTTGATTGGTTTTGATATGAATATT
1 TTTTGATTGGTTTTGATATGAATATT
27618836 TTTTGATTGGTTTTGATATGAATATT
1 TTTTGATTGGTTTTGATATGAATATT
27618862 GAAATGATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (26 bp):
TTTTGATTGGTTTTGATATGAATATT
Found at i:27627807 original size:15 final size:15
Alignment explanation
Indices: 27627787--27627818 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
27627777 TTACCATTTG
27627787 TTATTACTTTTATTA
1 TTATTACTTTTATTA
27627802 TTATTACTTTTATTA
1 TTATTACTTTTATTA
27627817 TT
1 TT
27627819 TTTAATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATTACTTTTATTA
Found at i:27627827 original size:15 final size:15
Alignment explanation
Indices: 27627787--27627827 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
27627777 TTACCATTTG
*
27627787 TTATTACTTTTATTA
1 TTATTAATTTTATTA
*
27627802 TTATTACTTTTATTA
1 TTATTAATTTTATTA
*
27627817 TTTTTAATTTT
1 TTATTAATTTT
27627828 CCAAAAGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTAATTTTATTA
Found at i:27638818 original size:16 final size:16
Alignment explanation
Indices: 27638797--27638853 Score: 59
Period size: 16 Copynumber: 3.7 Consensus size: 16
27638787 TTATATGCCA
27638797 TAATTAAATTATTAAT
1 TAATTAAATTATTAAT
27638813 TAATTAAA--ATTAATT
1 TAATTAAATTATTAA-T
*
27638828 TAATT-AATTACTAAT
1 TAATTAAATTATTAAT
27638843 T-ATTAGAATTA
1 TAATTA-AATTA
27638854 ACCTTAATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 10 0.29
15 8 0.23
16 17 0.49
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
TAATTAAATTATTAAT
Found at i:27638832 original size:19 final size:17
Alignment explanation
Indices: 27638797--27638847 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
27638787 TTATATGCCA
27638797 TAATT-AAATTATTAAT
1 TAATTAAAATTATTAAT
27638813 TAATTAAAATTAATTTAAT
1 TAATTAAAATT-A-TTAAT
*
27638832 TAATTACTAATTATTA
1 TAATTA-AAATTATTA
27638848 GAATTAACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.17
17 5 0.17
18 4 0.13
19 12 0.40
20 4 0.13
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (17 bp):
TAATTAAAATTATTAAT
Found at i:27638843 original size:30 final size:30
Alignment explanation
Indices: 27638797--27638864 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
27638787 TTATATGCCA
* *
27638797 TAATTAAATTATTAATTAATTAAAATTAA-TT
1 TAATT-AATTACTAATT-ATTAAAATTAACCT
*
27638828 TAATTAATTACTAATTATTAGAATTAACCT
1 TAATTAATTACTAATTATTAAAATTAACCT
27638858 TAATTAA
1 TAATTAA
27638865 ATAAAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 10 0.30
30 18 0.55
31 5 0.15
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (30 bp):
TAATTAATTACTAATTATTAAAATTAACCT
Found at i:27643662 original size:16 final size:18
Alignment explanation
Indices: 27643641--27643679 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
27643631 GGAAGAATTT
27643641 TAGAGAGAGTAGA-A-AG
1 TAGAGAGAGTAGAGAGAG
27643657 TAGAGAGAGTAGAGAGAG
1 TAGAGAGAGTAGAGAGAG
27643675 TAGAG
1 TAGAG
27643680 GGAATTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 1 0.05
18 7 0.33
ACGTcount: A:0.46, C:0.00, G:0.41, T:0.13
Consensus pattern (18 bp):
TAGAGAGAGTAGAGAGAG
Found at i:27643667 original size:9 final size:9
Alignment explanation
Indices: 27643641--27643679 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
27643631 GGAAGAATTT
27643641 TAGAGAGAG
1 TAGAGAGAG
27643650 TAGA-A-AG
1 TAGAGAGAG
27643657 TAGAGAGAG
1 TAGAGAGAG
27643666 TAGAGAGAG
1 TAGAGAGAG
27643675 TAGAG
1 TAGAG
27643680 GGAATTCGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 6 0.21
8 2 0.07
9 20 0.71
ACGTcount: A:0.46, C:0.00, G:0.41, T:0.13
Consensus pattern (9 bp):
TAGAGAGAG
Found at i:27643692 original size:15 final size:15
Alignment explanation
Indices: 27643672--27643700 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
27643662 AGAGTAGAGA
27643672 GAGTAGAGGGAATTC
1 GAGTAGAGGGAATTC
27643687 GAGTAGAGGGAATT
1 GAGTAGAGGGAATT
27643701 TTAGAGCTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.41, T:0.21
Consensus pattern (15 bp):
GAGTAGAGGGAATTC
Found at i:27647122 original size:51 final size:50
Alignment explanation
Indices: 27647005--27647142 Score: 151
Period size: 50 Copynumber: 2.8 Consensus size: 50
27646995 TATTATCATT
* * * *
27647005 CGATACACGTAGTAGCTTTCACATAGTACTACACATGTG-ATTAAACTTTC
1 CGATACACGTAGTAGCCTGCAC-TAGTACTACACACGTGAATTAAACTATC
* *
27647055 CGGTTCACGTAGTAGCCTGCACTTAGTACTACACACGTGACCATT-AA-TATC
1 CGATACACGTAGTAGCCTGCAC-TAGTACTACACACGTGA--ATTAAACTATC
27647106 CGATACACGTAGTAGCCTGCAC-A-TACTACACACGTGA
1 CGATACACGTAGTAGCCTGCACTAGTACTACACACGTGA
27647143 TTGAAGCTAT
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
48 14 0.18
49 1 0.01
50 33 0.43
51 23 0.30
52 2 0.03
53 3 0.04
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (50 bp):
CGATACACGTAGTAGCCTGCACTAGTACTACACACGTGAATTAAACTATC
Found at i:27648656 original size:50 final size:50
Alignment explanation
Indices: 27648472--27648657 Score: 273
Period size: 50 Copynumber: 3.7 Consensus size: 50
27648462 ACATGCCATA
** * *
27648472 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGCCAAT
** * *
27648523 GCCATGTCCCAGACATGGTCTTACGGGGGACCTTTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
*
27648573 GCCATGTCGCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
*
27648623 GCCATGTCCAAGACATGGTCTTACATGGGACCTCT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCT
27648658 TTACTCAAAT
Statistics
Matches: 120, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 92 0.77
51 28 0.23
ACGTcount: A:0.19, C:0.30, G:0.25, T:0.26
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:27648773 original size:13 final size:13
Alignment explanation
Indices: 27648752--27648781 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
27648742 GCTTGGATCA
27648752 TCATCAAATAAAT
1 TCATCAAATAAAT
*
27648765 TCATGAAATAAAT
1 TCATCAAATAAAT
27648778 TCAT
1 TCAT
27648782 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:27650771 original size:37 final size:37
Alignment explanation
Indices: 27650710--27650788 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
27650700 TTATTACGAA
* * * *
27650710 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
*
27650747 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
27650784 GTCTT
1 GTCTT
27650789 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:27650985 original size:47 final size:47
Alignment explanation
Indices: 27650907--27651462 Score: 961
Period size: 47 Copynumber: 11.7 Consensus size: 47
27650897 CCCTTCGGGA
* * * * * *
27650907 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27650954 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27651001 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27651048 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27651095 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27651144 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27651191 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27651238 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27651285 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27651334 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27651381 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27651428 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
27651463 AGAATCCTAA
Statistics
Matches: 491, Mismatches: 13, Indels: 10
0.96 0.03 0.02
Matches are distributed among these distances:
46 1 0.00
47 396 0.81
49 94 0.19
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27651241 original size:190 final size:190
Alignment explanation
Indices: 27650907--27651462 Score: 992
Period size: 190 Copynumber: 2.9 Consensus size: 190
27650897 CCCTTCGGGA
* * * * * * *
27650907 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
27650970 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
27651035 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27651095 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
27651160 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
27651225 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27651285 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
27651350 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* * *
27651415 TCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCACAT
131 TCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACAT
27651463 AGAATCCTAA
Statistics
Matches: 355, Mismatches: 10, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
188 10 0.03
189 2 0.01
190 343 0.97
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27651502 original size:143 final size:141
Alignment explanation
Indices: 27650907--27651462 Score: 961
Period size: 143 Copynumber: 3.9 Consensus size: 141
27650897 CCCTTCGGGA
* * * * * * * *
27650907 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
27650972 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
27651037 GGCCATTAGGC
131 GGCCATTAGGC
27651048 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
27651113 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
27651178 TCGGCCATTAGGC
129 TCGGCCATTAGGC
27651191 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
27651256 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
27651321 TCGGCCATTAGGC
129 TCGGCCATTAGGC
27651334 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
27651399 TTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCACAT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCACAT
27651463 AGAATCCTAA
Statistics
Matches: 399, Mismatches: 11, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
140 1 0.00
141 117 0.29
143 281 0.70
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:27655466 original size:67 final size:66
Alignment explanation
Indices: 27655377--27655607 Score: 266
Period size: 67 Copynumber: 3.5 Consensus size: 66
27655367 CTCTATATGT
* * * *
27655377 TGCCATAGTCGAGCTATGGTCTTACAGAGTATAGCCCATGTTTAACGTCCTGGTGGACTCCCTTT
1 TGCCATAGCCGAGCTATGGTCTTACA-AGTATACCCCATGTTTAACATCCTGGTAGACTCCCTTT
27655442 GC
65 GC
* * * *
27655444 TGCCATAGCCGAGCCATAGTCTTAACAA-TATACCCCAAGTTTAACATCCTGATAGACTCCCTTT
1 TGCCATAGCCGAGCTATGGTCTT-ACAAGTATACCCCATGTTTAACATCCTGGTAGACTCCCTTT
27655508 GC
65 GC
* * * * *
27655510 TTCCATAGCCGGGCTATGGTCTTACATAGTATATCCCATGTTTAACATCCTAGCAGACTCCCTTT
1 TGCCATAGCCGAGCTATGGTCTTACA-AGTATACCCCATGTTTAACATCCTGGTAGACTCCCTTT
27655575 GC
65 GC
*** *
27655577 AATCATAGCCTAGCTATGGTCTTACACAGTA
1 TGCCATAGCCGAGCTATGGTCTTACA-AGTA
27655608 AACATCTTTT
Statistics
Matches: 138, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
65 3 0.02
66 53 0.38
67 79 0.57
68 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (66 bp):
TGCCATAGCCGAGCTATGGTCTTACAAGTATACCCCATGTTTAACATCCTGGTAGACTCCCTTTG
C
Found at i:27658107 original size:29 final size:29
Alignment explanation
Indices: 27658057--27658190 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
27658047 TTTCAGAGTC
27658057 TCACCACAAAGGCGTT-C-TTTAAAAGAGA
1 TCACCACAAAGGC-TTCCTTTTAAAAGAGA
** * *
27658085 TTGCCTCAAAGGCTTCCTTTTAACAA-ATA
1 TCACCACAAAGGCTTCCTTTTAA-AAGAGA
* *
27658114 TCACCACAAAGGCTTTCTTTTAACAGAGA
1 TCACCACAAAGGCTTCCTTTTAAAAGAGA
* *
27658143 TCACCATAAAGGCTTCCTTTTAACAGAGA
1 TCACCACAAAGGCTTCCTTTTAAAAGAGA
27658172 TCACCACAAAGGCTTCCTT
1 TCACCACAAAGGCTTCCTT
27658191 ACAGAAACTG
Statistics
Matches: 89, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
27 2 0.02
28 12 0.13
29 73 0.82
30 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (29 bp):
TCACCACAAAGGCTTCCTTTTAAAAGAGA
Found at i:27658157 original size:58 final size:57
Alignment explanation
Indices: 27658057--27658186 Score: 181
Period size: 58 Copynumber: 2.3 Consensus size: 57
27658047 TTTCAGAGTC
* ** *
27658057 TCACCACAAAGGCGTTCTTTAAAAGAGATTGCCTCAAAGGCTTCCTTTTAACAAATA
1 TCACCACAAAGGCTTTCTTTAAAAGAGATCACCTCAAAGGCTTCCTTTTAACAAAGA
* *
27658114 TCACCACAAAGGCTTTCTTTTAACAGAGATCACCAT-AAAGGCTTCCTTTTAACAGAGA
1 TCACCACAAAGGCTTTC-TTTAAAAGAGATCACC-TCAAAGGCTTCCTTTTAACAAAGA
27658172 TCACCACAAAGGCTT
1 TCACCACAAAGGCTT
27658187 CCTTACAGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
57 16 0.25
58 48 0.74
59 1 0.02
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.27
Consensus pattern (57 bp):
TCACCACAAAGGCTTTCTTTAAAAGAGATCACCTCAAAGGCTTCCTTTTAACAAAGA
Found at i:27669051 original size:20 final size:20
Alignment explanation
Indices: 27669026--27669064 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
27669016 TACTTTCTTC
27669026 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
27669046 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
27669065 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:27674472 original size:41 final size:41
Alignment explanation
Indices: 27674393--27674683 Score: 314
Period size: 41 Copynumber: 7.1 Consensus size: 41
27674383 CATAGGTACT
* *
27674393 ATTCAGGGGTACCGAAGT-CAAACAGGGTGGCACATATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACA-GG-GGCACGTATGTGCA
* * *
27674435 ATTCAGTGGTATCAAAGTATAAACAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * * * *
27674476 ATTTAAGGGTACCGAAGTACAAACAGGGGCACATATGTGTA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
**
27674517 ATTCAGGGGTACCAAAGTACAAACAGGGGCACACATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * * * * * *
27674558 ATTCAAGGGTATCGAAGTACAAAAATGGGCACGTATATTCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * * *
27674599 ATTTAGGGGTACCAAAGTATAAACTGGGACACGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
* * * *
27674640 ATTCAGGGGTATCGAAGTACAAATAAGGGCACGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
27674681 ATT
1 ATT
27674684 TAGGAAATAA
Statistics
Matches: 202, Mismatches: 46, Indels: 3
0.80 0.18 0.01
Matches are distributed among these distances:
41 180 0.89
42 17 0.08
43 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (41 bp):
ATTCAGGGGTACCAAAGTACAAACAGGGGCACGTATGTGCA
Found at i:27674514 original size:82 final size:82
Alignment explanation
Indices: 27674393--27674683 Score: 359
Period size: 82 Copynumber: 3.5 Consensus size: 82
27674383 CATAGGTACT
* * *
27674393 ATTCAGGGGTACCGAAGT-CAAACAGGGTGGCACATATGTGCAATTCAGTGGTATCAAAGTATAA
1 ATTCAAGGGTACCGAAGTACAAACA-GG-GGCACATATGTGCAATTCAGGGGTACCAAAGTATAA
27674457 ACAGGGGCACGTATGTGCA
64 ACAGGGGCACGTATGTGCA
* * *
27674476 ATTTAAGGGTACCGAAGTACAAACAGGGGCACATATGTGTAATTCAGGGGTACCAAAGTACAAAC
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTATAAAC
**
27674541 AGGGGCACACATGTGCA
66 AGGGGCACGTATGTGCA
* * * * * * *
27674558 ATTCAAGGGTATCGAAGTACAAAAATGGGCACGTATATTCAATTTAGGGGTACCAAAGTATAAAC
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTATAAAC
* *
27674623 TGGGACACGTATGTGCA
66 AGGGGCACGTATGTGCA
* * * * *
27674640 ATTCAGGGGTATCGAAGTACAAATAAGGGCACGTATGTGCAATT
1 ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATT
27674684 TAGGAAATAA
Statistics
Matches: 180, Mismatches: 27, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
82 156 0.87
83 18 0.10
84 6 0.03
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (82 bp):
ATTCAAGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGGGGTACCAAAGTATAAAC
AGGGGCACGTATGTGCA
Found at i:27674588 original size:123 final size:123
Alignment explanation
Indices: 27674393--27674683 Score: 370
Period size: 123 Copynumber: 2.4 Consensus size: 123
27674383 CATAGGTACT
*
27674393 ATTCAGGGGTACCGAAGT-CAAACAGGGTGGCACATATGTGCAATTCAGTGGTATCAAAGTATAA
1 ATTCAGGGGTACCGAAGTACAAACA-GG-GGCACATATGTGCAATTCAGTGGTATCAAAGTACAA
* * * * *
27674457 ACAGGGGCACGTATGTGCAATTTAAGGGTACCGAAGTACAAACAGGGGCACATATGTGTA
64 AAAGGGGCACGTATATGCAATTTAAGGGTACCAAAGTACAAACAGGGACACATATGTGCA
* * *
27674517 ATTCAGGGGTACCAAAGTACAAACAGGGGCACACATGTGCAATTCAAG-GGTATCGAAGTACAAA
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTC-AGTGGTATCAAAGTACAAA
* * * * * *
27674581 AATGGGCACGTATATTCAATTTAGGGGTACCAAAGTATAAACTGGGACACGTATGTGCA
65 AAGGGGCACGTATATGCAATTTAAGGGTACCAAAGTACAAACAGGGACACATATGTGCA
* * * *
27674640 ATTCAGGGGTATCGAAGTACAAATAAGGGCACGTATGTGCAATT
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATT
27674684 TAGGAAATAA
Statistics
Matches: 144, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
123 117 0.81
124 21 0.15
125 6 0.04
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (123 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAATTCAGTGGTATCAAAGTACAAAA
AGGGGCACGTATATGCAATTTAAGGGTACCAAAGTACAAACAGGGACACATATGTGCA
Found at i:27680052 original size:26 final size:27
Alignment explanation
Indices: 27680023--27680090 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 27
27680013 ATTTTCCATG
27680023 TCATATTTTA-GTATATCAA-ATAATT
1 TCATATTTTATGTATATCAAGATAATT
* *
27680048 ATCAT-TTCTATGTATTTCAAGTATAATT
1 -TCATATTTTATGTATATCAAG-ATAATT
27680076 TCATGATTTTATGTA
1 TCAT-ATTTTATGTA
27680091 ATTATCATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
25 4 0.12
26 12 0.35
27 4 0.12
28 6 0.18
29 8 0.24
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (27 bp):
TCATATTTTATGTATATCAAGATAATT
Found at i:27680322 original size:67 final size:67
Alignment explanation
Indices: 27680214--27680345 Score: 201
Period size: 67 Copynumber: 2.0 Consensus size: 67
27680204 TTTTCAATTC
* * * *
27680214 AGAGAGGACACTCCCGCAAACCTCATTTCTTACAACGGGATTACCAGTCTAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAACAGGATTACCAATCCAGGCTAAATCCCCTG
27680279 CA
66 CA
* **
27680281 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGTAGGATTACCAATCCAGGCTAAATCCCCTG
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAACAGGATTACCAATCCAGGCTAAATCCCCTG
27680346 TAATATAAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
67 58 1.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCAAACCTCATTTCTTACAACAGGATTACCAATCCAGGCTAAATCCCCTG
CA
Found at i:27684382 original size:43 final size:43
Alignment explanation
Indices: 27684318--27684411 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
27684308 ACCTATATGG
*
27684318 GACACACGACTATGTCGAATGGCCGTGTGTCACACACAATTGA
1 GACACACGACTATGTCAAATGGCCGTGTGTCACACACAATTGA
* * *
27684361 GACACACGACTGTGTCAAATGGCTGTGTGTCACACACAGTTGA
1 GACACACGACTATGTCAAATGGCCGTGTGTCACACACAATTGA
27684404 GACACACG
1 GACACACG
27684412 CCCGTATCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (43 bp):
GACACACGACTATGTCAAATGGCCGTGTGTCACACACAATTGA
Found at i:27689572 original size:25 final size:25
Alignment explanation
Indices: 27689530--27689583 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
27689520 TTTTCTCAGA
*
27689530 AATTTAATTAATATAAAATATTA-AT
1 AATTTAATAAATATAAAA-ATTAGAT
27689555 AATTTAATAAAT-TGAAAAATTAGAT
1 AATTTAATAAATAT-AAAAATTAGAT
27689580 AATT
1 AATT
27689584 AAATTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
AATTTAATAAATATAAAAATTAGAT
Found at i:27697415 original size:123 final size:122
Alignment explanation
Indices: 27697223--27697465 Score: 477
Period size: 123 Copynumber: 2.0 Consensus size: 122
27697213 GAAGAGAGAG
27697223 AAGATGTGAATGCTTGAGGTGTGTTCTAAAATGACCTACCTAAGGGGGTTTTTATAGCTGAGGAG
1 AAGATGTGAATGCTTGAGGTGTGTTCTAAAATGACCTACCTAAGGGGGTTTTTATAGCTGAGGAG
27697288 GGCTGCTAAAAATAGCTAAAATTATCAGCCAAAGAGCCCTCCCTTGGTCGGCCACGA
66 GGCTGCTAAAAATAGCTAAAATTATCAGCCAAAGAGCCCTCCCTTGGTCGGCCACGA
27697345 AAGATGTGAATGCTTGAGGTGTGTTTCTAAAATGACCTACCTAAGGGGGTTTTTATAGCTGAGGA
1 AAGATGTGAATGCTTGAGGTGTG-TTCTAAAATGACCTACCTAAGGGGGTTTTTATAGCTGAGGA
27697410 GGGCTGCTAAAAATAGCTAAAATTATCAGCCAAAGAGCCCTCCCTTGGTCGGCCAC
65 GGGCTGCTAAAAATAGCTAAAATTATCAGCCAAAGAGCCCTCCCTTGGTCGGCCAC
27697466 ACATGGCAAA
Statistics
Matches: 120, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
122 23 0.19
123 97 0.81
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (122 bp):
AAGATGTGAATGCTTGAGGTGTGTTCTAAAATGACCTACCTAAGGGGGTTTTTATAGCTGAGGAG
GGCTGCTAAAAATAGCTAAAATTATCAGCCAAAGAGCCCTCCCTTGGTCGGCCACGA
Found at i:27698337 original size:41 final size:41
Alignment explanation
Indices: 27698262--27698448 Score: 239
Period size: 41 Copynumber: 4.5 Consensus size: 41
27698252 AGTGTAAGCA
* * *
27698262 GGCACGTACGTGCTATTTAGGGGGTACCGAAGTACAAATAGG
1 GGCACGTATGTGCAATTTA-GGGGTACCGAAGTACAAACAGG
* * *
27698304 GGCACATATGTGCAATTTAGGGGTACTGAAGTACAAATAGG
1 GGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
* *
27698345 GACACGTATGTGCAATTCAGGGGTACCGAAGTACAAACAGG
1 GGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
* * * * *
27698386 GGCATGTATGTGTAATTCAGGGGTATCAAAGTACAAACAGG
1 GGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
*
27698427 GGCACGTATGTACAATTTAGGG
1 GGCACGTATGTGCAATTTAGGG
27698449 AATAGTTAAG
Statistics
Matches: 127, Mismatches: 18, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 111 0.87
42 16 0.13
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.22
Consensus pattern (41 bp):
GGCACGTATGTGCAATTTAGGGGTACCGAAGTACAAACAGG
Found at i:27701368 original size:25 final size:25
Alignment explanation
Indices: 27701334--27701398 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
27701324 ATACCCTCAA
27701334 AGGGTAAAATAACCAAAATACCTCT
1 AGGGTAAAATAACCAAAATACCTCT
*
27701359 GGGGTAAAATAACCAAAATACCTCT
1 AGGGTAAAATAACCAAAATACCTCT
* *
27701384 AGGATAAAATTACCA
1 AGGGTAAAATAACCA
27701399 TTTTACCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.18, G:0.14, T:0.20
Consensus pattern (25 bp):
AGGGTAAAATAACCAAAATACCTCT
Found at i:27720896 original size:13 final size:13
Alignment explanation
Indices: 27720880--27720907 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
27720870 TTTTAACCAC
27720880 TTTAATTAATTAA
1 TTTAATTAATTAA
27720893 TTTAATTAATTAA
1 TTTAATTAATTAA
27720906 TT
1 TT
27720908 AAAATCCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:27727770 original size:47 final size:47
Alignment explanation
Indices: 27727719--27728368 Score: 1086
Period size: 47 Copynumber: 13.7 Consensus size: 47
27727709 TTAGGATTCT
* * *
27727719 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
27727766 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
27727813 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
27727860 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
27727909 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
27727958 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
27728005 ATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
27728052 ATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
27728099 ATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
27728146 ATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
27728193 ATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
27728240 ATGTGATGAACGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
27728287 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
27728334 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
27728369 TCCCGAAGGG
Statistics
Matches: 583, Mismatches: 17, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 486 0.83
49 96 0.16
ACGTcount: A:0.32, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:27727794 original size:25 final size:25
Alignment explanation
Indices: 27727766--27727844 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
27727756 CTAATGGCCG
27727766 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
27727791 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
27727813 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
27727838 ATGTGAT
1 ATGTGAT
27727845 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Done.