Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 169 of 344
Found at i:56472279 original size:28 final size:28
Alignment explanation
Indices: 56472244--56472305 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
56472234 CCCTTTAGGT
* *
56472244 CCAATCTCGTTCACATGGCTCATCAGGC
1 CCAATCTCGTTCACATGGCCCATCAAGC
56472272 CCAATCTCGTTCACATGGCCCATCAAGC
1 CCAATCTCGTTCACATGGCCCATCAAGC
56472300 CCAATC
1 CCAATC
56472306 ACTTCCCACC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.23
Consensus pattern (28 bp):
CCAATCTCGTTCACATGGCCCATCAAGC
Found at i:56474897 original size:40 final size:39
Alignment explanation
Indices: 56474806--56475068 Score: 287
Period size: 40 Copynumber: 6.6 Consensus size: 39
56474796 TCCTCGTTCA
* * * *
56474806 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
56474845 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
56474884 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
56474924 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
56474964 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
56475004 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
56475045 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
56475069 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 39 0.20
40 146 0.74
41 12 0.06
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:56475014 original size:120 final size:119
Alignment explanation
Indices: 56474806--56475068 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 119
56474796 TCCTCGTTCA
* * *
56474806 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACTTAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATT
* * *
56474871 TAATAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAATAACTTAGCAC
* * * *
56474924 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACTTAACCCGG-
* * ** * *
56474989 ATTT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
*
56475045 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
56475069 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 37 0.30
120 76 0.62
121 9 0.07
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACTTAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
Found at i:56475077 original size:41 final size:41
Alignment explanation
Indices: 56475000--56475077 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
56474990 TTTGTATCTC
* * *
56475000 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
56475041 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
56475078 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:56482315 original size:38 final size:40
Alignment explanation
Indices: 56482244--56482327 Score: 118
Period size: 38 Copynumber: 2.1 Consensus size: 40
56482234 TCCTCGTTCA
* * *
56482244 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
*
56482283 AATGCCTTCGGGAC-TAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
56482322 AATGCC
1 AATGCC
56482328 ATTAAAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
38 20 0.50
39 20 0.50
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
Found at i:56482393 original size:40 final size:40
Alignment explanation
Indices: 56482338--56482487 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
56482328 ATTAAAATAA
*
56482338 CTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAGTAT
1 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAT
* *
56482378 CTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTAT
1 CTCGCACAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAT
** * *
56482418 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-
1 CTCGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AT
* *
56482458 CTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 C-TCGCACAAATGCCTTCGGGACTTAACCCG
56482488 ACAGCATTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
39 5 0.05
40 72 0.77
41 16 0.17
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAT
Found at i:56488220 original size:5 final size:5
Alignment explanation
Indices: 56488166--56488246 Score: 58
Period size: 6 Copynumber: 15.2 Consensus size: 5
56488156 TATGTCTTTC
* * *
56488166 AAAAT AAAA- AAATT GAAAT GAAAAT AATAAT CAAAAGA AAAAT AAGAAT
1 AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT -AAAA-T AAAAT AA-AAT
56488215 AAAAT -AAAT AAAAT AAAAAT AAAAAT AAAAT A
1 AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT A
56488247 TGAGGATTCA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
4 7 0.11
5 24 0.39
6 29 0.47
7 2 0.03
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:56488220 original size:11 final size:10
Alignment explanation
Indices: 56488166--56488246 Score: 58
Period size: 11 Copynumber: 7.6 Consensus size: 10
56488156 TATGTCTTTC
56488166 AAAATAAAA-
1 AAAATAAAAT
* *
56488175 AAATTGAAAT
1 AAAATAAAAT
56488185 GAAAATAATAAT
1 -AAAATAA-AAT
*
56488197 CAAAAGAAAAAT
1 -AAAA-TAAAAT
56488209 AAGAATAAAAT
1 AA-AATAAAAT
56488220 -AAATAAAAT
1 AAAATAAAAT
56488229 AAAAATAAAAAT
1 -AAAAT-AAAAT
56488241 AAAATA
1 AAAATA
56488247 TGAGGATTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
9 15 0.26
10 2 0.04
11 21 0.37
12 17 0.30
13 2 0.04
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.19
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:56488220 original size:26 final size:25
Alignment explanation
Indices: 56488191--56488246 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 25
56488181 AAATGAAAAT
*
56488191 AATAATCAAAAGAAAAATAAGAATAA
1 AATAAT-AAAAGAAAAATAAAAATAA
*
56488217 AATAAATAAAATAAAAATAAAAATAA
1 AAT-AATAAAAGAAAAATAAAAATAA
56488243 AATA
1 AATA
56488247 TGAGGATTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 1 0.04
26 23 0.85
27 3 0.11
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.18
Consensus pattern (25 bp):
AATAATAAAAGAAAAATAAAAATAA
Found at i:56488223 original size:15 final size:15
Alignment explanation
Indices: 56488205--56488237 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
56488195 ATCAAAAGAA
56488205 AAATAAGAAT-AAAAT
1 AAATAA-AATAAAAAT
56488220 AAATAAAATAAAAAT
1 AAATAAAATAAAAAT
56488235 AAA
1 AAA
56488238 AATAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 3 0.18
15 14 0.82
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:56488229 original size:20 final size:21
Alignment explanation
Indices: 56488204--56488243 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
56488194 AATCAAAAGA
*
56488204 AAAATAAGAAT-AAAATAAAT
1 AAAATAAAAATAAAAATAAAT
56488224 AAAATAAAAATAAAAATAAA
1 AAAATAAAAATAAAAATAAA
56488244 ATATGAGGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (21 bp):
AAAATAAAAATAAAAATAAAT
Found at i:56494174 original size:47 final size:47
Alignment explanation
Indices: 56494087--56494254 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
56494077 CCCTTCGGGA
* * * * * *
56494087 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56494134 CCTGTTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56494181 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56494228 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
56494255 ACCAACCCTT
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 109 1.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56494516 original size:40 final size:39
Alignment explanation
Indices: 56494479--56494570 Score: 123
Period size: 39 Copynumber: 2.3 Consensus size: 39
56494469 GCTACTCGTT
*
56494479 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* * *
56494519 CAAATGCCTTCGAGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
56494558 CAAATGCCTTCGG
1 CAAATGCCTTCGG
56494571 ATCTTAGTCC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 32 0.70
40 14 0.30
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:56494550 original size:39 final size:40
Alignment explanation
Indices: 56494460--56494623 Score: 158
Period size: 40 Copynumber: 4.1 Consensus size: 40
56494450 CGGAATTTAA
** * *
56494460 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGAGACTTAGC
*
56494500 CCGGTTATAGTAACTCGCACAAATGCCTTCGAG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGC
* *
56494539 CCGGA-ATTAGTATCTCGCACAAATGCCTTCG-GATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGAGA-CTTAGC
* * * *
56494579 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGAGACTTAGC
56494619 CCGGA
1 CCGGA
56494624 CATCATTCGA
Statistics
Matches: 104, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
38 2 0.02
39 33 0.32
40 58 0.56
41 11 0.11
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGAGACTTAGC
Found at i:56498581 original size:13 final size:13
Alignment explanation
Indices: 56498559--56498591 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
56498549 AAGGGTTTAT
56498559 TTAT-TAAACTAA
1 TTATCTAAACTAA
56498571 TTATCTAAACTAA
1 TTATCTAAACTAA
*
56498584 TTAACTAA
1 TTATCTAA
56498592 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:56503956 original size:15 final size:15
Alignment explanation
Indices: 56503660--56503950 Score: 69
Period size: 14 Copynumber: 19.3 Consensus size: 15
56503650 ATTTTTTATC
*
56503660 TATTATATTATTATTA
1 TATTATA-TATTTTTA
*
56503676 TATTA-A-ATTTTTT
1 TATTATATATTTTTA
*
56503689 TATCATATA-TTTT-
1 TATTATATATTTTTA
* *
56503702 TATTATATATATATA
1 TATTATATATTTTTA
* *
56503717 CATTAT-TATTCTGTCA
1 TATTATATATT-T-TTA
56503733 TATT-TATATTTTGCTA
1 TATTATATATTTT--TA
56503749 TATGCTATATACTTTTT-
1 TAT--TATATA-TTTTTA
56503766 TA-TATATATTATTTA
1 TATTATATATT-TTTA
*
56503781 TCTTACTATATTTTTA
1 TATTA-TATATTTTTA
* * *
56503797 TATGAAAGATACTTATTA
1 TAT--TATATA-TTTTTA
*
56503815 TTTTATATATTTTATTA
1 TATTATATA-TTT-TTA
*
56503832 TATTATAT-TTCATTA
1 TATTATATATT-TTTA
* *
56503847 TATT-T-TATTTATG
1 TATTATATATTTTTA
* * **
56503860 TGTT-TTTA-TTACA
1 TATTATATATTTTTA
56503873 TATTATAT-TTTTTA
1 TATTATATATTTTTA
*
56503887 T-TCTATATTATTCCTTA
1 TAT-TATA-TATT-TTTA
* * *
56503904 TAATATCTATTTTTC
1 TATTATATATTTTTA
*
56503919 T-TT-TATA-TATTA
1 TATTATATATTTTTA
56503931 TATTATATATTTTTA
1 TATTATATATTTTTA
56503946 TATTA
1 TATTA
56503951 CTTATTATAC
Statistics
Matches: 197, Mismatches: 44, Indels: 69
0.64 0.14 0.22
Matches are distributed among these distances:
12 4 0.02
13 37 0.19
14 40 0.20
15 33 0.17
16 37 0.19
17 28 0.14
18 10 0.05
19 4 0.02
20 4 0.02
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (15 bp):
TATTATATATTTTTA
Found at i:56503956 original size:22 final size:21
Alignment explanation
Indices: 56503919--56503977 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
56503909 TCTATTTTTC
56503919 TTTTATATATTATATTATATA
1 TTTTATATATTATATTATATA
**
56503940 TTTT-TATATTACTTATTATACG
1 TTTTATATATTA--TATTATATA
*
56503962 GTTTATATTATTATAT
1 TTTTATA-TATTATAT
56503978 ATTTTATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 7 0.23
21 4 0.13
22 13 0.42
23 2 0.06
24 5 0.16
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.61
Consensus pattern (21 bp):
TTTTATATATTATATTATATA
Found at i:56506451 original size:21 final size:21
Alignment explanation
Indices: 56506427--56506468 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56506417 GGTTAATTTT
* * *
56506427 GTAATTTAATTAATAAACAAA
1 GTAAATTAATAAAGAAACAAA
56506448 GTAAATTAATAAAGAAACAAA
1 GTAAATTAATAAAGAAACAAA
56506469 AGTTTTCATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.26
Consensus pattern (21 bp):
GTAAATTAATAAAGAAACAAA
Found at i:56523911 original size:26 final size:25
Alignment explanation
Indices: 56523873--56523959 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
56523863 TTAGATTTTA
*
56523873 ATTATAAAATATATATATATGAA-TT
1 ATTATAAATTATAT-TATATGAATTT
* *
56523898 ATTAATAAATTATATTAAATTAATTT
1 ATT-ATAAATTATATTATATGAATTT
*
56523924 ATTAT-AATTATATTATAAGATATTT
1 ATTATAAATTATATTATATGA-ATTT
56523949 ATATGATAAAT
1 AT-T-ATAAAT
56523960 AAAATAATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
24 12 0.24
25 17 0.34
26 16 0.32
27 2 0.04
28 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
ATTATAAATTATATTATATGAATTT
Found at i:56523932 original size:14 final size:15
Alignment explanation
Indices: 56523895--56523940 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
56523885 ATATATATGA
*
56523895 ATTATTAATAAATTAT
1 ATTA-TAATTAATTAT
56523911 ATTA-AATTAATT-T
1 ATTATAATTAATTAT
56523924 ATTATAATTATATTAT
1 ATTATAATTA-ATTAT
56523940 A
1 A
56523941 AGATATTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.19
14 12 0.46
15 3 0.12
16 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTATAATTAATTAT
Found at i:56525186 original size:51 final size:54
Alignment explanation
Indices: 56525102--56525216 Score: 130
Period size: 51 Copynumber: 2.2 Consensus size: 54
56525092 AAGTGTCGAC
* * *
56525102 TACTGTTACTGTT-TCGGATTCGTTCTGAAGAGGTACT-T-CGTACC-TTACTGT
1 TACTGTTACTATTCT-GGATTCGTTCCGAAGAGGTACTCTGCGTACCGCTACTGT
* * * *
56525153 TACTTTTACTATTCTGGATTTGTTCCGATGAGGTACTCTGTGTACCGCTACTGT
1 TACTGTTACTATTCTGGATTCGTTCCGAAGAGGTACTCTGCGTACCGCTACTGT
56525207 TACTGTTACT
1 TACTGTTACT
56525217 GTTACTATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
51 30 0.58
52 2 0.04
53 5 0.10
54 15 0.29
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (54 bp):
TACTGTTACTATTCTGGATTCGTTCCGAAGAGGTACTCTGCGTACCGCTACTGT
Found at i:56526178 original size:11 final size:10
Alignment explanation
Indices: 56526141--56526186 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
56526131 CACTTAGACA
*
56526141 TAATTATGAT
1 TAATTATGTT
56526151 TAATTTATGTT
1 TAA-TTATGTT
56526162 TAATTATGTCT
1 TAATTATGT-T
56526173 TAATTA-G-T
1 TAATTATGTT
56526181 TAATTA
1 TAATTA
56526187 AGAAAAGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 7 0.21
10 10 0.30
11 16 0.48
ACGTcount: A:0.35, C:0.02, G:0.09, T:0.54
Consensus pattern (10 bp):
TAATTATGTT
Found at i:56527186 original size:5 final size:5
Alignment explanation
Indices: 56527166--56527204 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
56527156 TATATATATA
* *
56527166 TGAAT TGGAG TGAAT TGAAT TGAAT TGAAT TGAAT TGAA
1 TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAAT TGAA
56527205 AGAAATGCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.38, C:0.00, G:0.26, T:0.36
Consensus pattern (5 bp):
TGAAT
Found at i:56531999 original size:43 final size:43
Alignment explanation
Indices: 56531949--56532034 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
56531939 GAGATATGTG
* * *
56531949 GCATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATAGATGCAA
1 GCATCCGAGCTCATTCAGAGGTCCGAGTTCATGATAGATGCAA
* *
56531992 GCATCCGAGCTCATTCAGTGGTCCGAGTTCATGATGGATGCAA
1 GCATCCGAGCTCATTCAGAGGTCCGAGTTCATGATAGATGCAA
56532035 TTCTTGTAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (43 bp):
GCATCCGAGCTCATTCAGAGGTCCGAGTTCATGATAGATGCAA
Found at i:56534827 original size:29 final size:28
Alignment explanation
Indices: 56534785--56534851 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
56534775 CAGATCCATA
* * *
56534785 CTTATTCATTTGGCCCCTTTAGGCCCAAT
1 CTTATTCATATGG-CCCGTCAGGCCCAAT
56534814 CTTATTCATATGGCCCGTCAGGCCCAAT
1 CTTATTCATATGGCCCGTCAGGCCCAAT
**
56534842 CACATTCATA
1 CTTATTCATA
56534852 GTCATTCAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 21 0.64
29 12 0.36
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.33
Consensus pattern (28 bp):
CTTATTCATATGGCCCGTCAGGCCCAAT
Found at i:56543299 original size:43 final size:43
Alignment explanation
Indices: 56543245--56543328 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
56543235 GAGATATGTG
* * *
56543245 GCATCTGAGCTCATTGAGAGGTCTGAGTTCATTATGGATGCTA
1 GCATCCGAGCTCATTGAGAGGTCCGAGTTCATGATGGATGCTA
* * *
56543288 GCATCCGAGCTCGTTGAGTGGTCCGAGTTCATGATGTATGC
1 GCATCCGAGCTCATTGAGAGGTCCGAGTTCATGATGGATGC
56543329 GATTCATGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (43 bp):
GCATCCGAGCTCATTGAGAGGTCCGAGTTCATGATGGATGCTA
Found at i:56544622 original size:28 final size:28
Alignment explanation
Indices: 56544582--56544665 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
56544572 CACGGACGAT
*
56544582 GACACGGGCATGTCTAGGCTGTGTGAGG
1 GACACGGGCATGTCTAGGCTGTGTGAAG
*
56544610 GACACGGGCATGTCTAGGCCGTGTGAAG
1 GACACGGGCATGTCTAGGCTGTGTGAAG
* * *
56544638 GACACGGGCTTGTGCTCGACTGTGTGAA
1 GACACGGGCATGT-CTAGGCTGTGTGAA
56544666 ATCCCCTGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 38 0.78
29 11 0.22
ACGTcount: A:0.19, C:0.20, G:0.39, T:0.21
Consensus pattern (28 bp):
GACACGGGCATGTCTAGGCTGTGTGAAG
Found at i:56548494 original size:49 final size:50
Alignment explanation
Indices: 56548422--56548551 Score: 174
Period size: 49 Copynumber: 2.6 Consensus size: 50
56548412 GGTAAAGTGT
* *
56548422 CGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCATC-T-TCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCA-CATAACAAGGC
* * * *
56548471 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATAACTATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACATAACAAGGC
*
56548521 CGATGCCATGTCCCAGACATGGACTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
56548552 GACACATCTC
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
48 1 0.01
49 37 0.52
50 33 0.46
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCACATAACAAGGC
Found at i:56556384 original size:94 final size:91
Alignment explanation
Indices: 56556143--56556408 Score: 250
Period size: 94 Copynumber: 2.8 Consensus size: 91
56556133 GGTAAAGTGC
* * * *
56556143 CGATGTCATGTCCTAGACATGGTCTTACACTAGCTCTCACATAACCGT-GTCAATGCCATGTCCC
1 CGATG-CATGTCCCAGACATGGTCTTACACTGGCTCT--CATAA-CGTGGCCGATG-CATGTCCC
* **
56556207 AGACATGGTCTTACACTGACACATCTTGTAGG
61 AGACAT-GTCTTACACTAACACATCTTCAAGG
* ** ** ** * *
56556239 CGATGCATGTCCCAGACAT-GTCTTATACTGGCTAACATCCCAAGGCTGATGCATGTCCCAAACA
1 CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCAGACA
*
56556303 TGTCTTACACTAACAC-TCGTCTCAATG
66 TGTCTTACACTAACACATC-T-TCAAGG
*
56556330 CAGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGA
1 C-GATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCAGA
*
56556395 CATATCTTACACTA
64 CATGTCTTACACTA
56556409 GCTCACACAA
Statistics
Matches: 136, Mismatches: 28, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
89 2 0.01
90 15 0.11
91 18 0.13
92 11 0.08
93 14 0.10
94 58 0.43
95 13 0.10
96 5 0.04
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (91 bp):
CGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCAGACA
TGTCTTACACTAACACATCTTCAAGG
Found at i:56565148 original size:17 final size:17
Alignment explanation
Indices: 56565108--56565149 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
56565098 CTAACTTTCA
* *
56565108 TTGTTGATAATAAATAT
1 TTGTTGGTAACAAATAT
56565125 TTGTTGGTAACAAATAT
1 TTGTTGGTAACAAATAT
56565142 TTGTTGGT
1 TTGTTGGT
56565150 TTTCATGATC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.19, T:0.48
Consensus pattern (17 bp):
TTGTTGGTAACAAATAT
Found at i:56566315 original size:9 final size:9
Alignment explanation
Indices: 56566301--56566328 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
56566291 ATATTTCACA
56566301 TGTTGTTAG
1 TGTTGTTAG
56566310 TGTTGTTAG
1 TGTTGTTAG
56566319 TGTTGTTAG
1 TGTTGTTAG
56566328 T
1 T
56566329 AGATACATGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.32, T:0.57
Consensus pattern (9 bp):
TGTTGTTAG
Found at i:56570079 original size:52 final size:52
Alignment explanation
Indices: 56570016--56570158 Score: 148
Period size: 52 Copynumber: 2.7 Consensus size: 52
56570006 TTATTGTAAA
* * *
56570016 TATGTAACTAATTATAGTAAATGTATATTAAGTAATTATGATTAA-TTATAT
1 TATGTAACTAATTATGGTAAATATATATTAAGTAATTATGATGAATTTATAT
* * * *
56570067 TATGTGAACTAATTATGGTTAATATATATTAATTGATTATGGTGAATTTATAT
1 TATGT-AACTAATTATGGTAAATATATATTAAGTAATTATGATGAATTTATAT
* *
56570120 TA-GATAAACAAATTATGGTAAA-ACTATATCAAGTAATTA
1 TATG-T-AACTAATTATGGTAAATA-TATATTAAGTAATTA
56570159 ACTATTTACT
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
51 5 0.07
52 35 0.47
53 35 0.47
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.42
Consensus pattern (52 bp):
TATGTAACTAATTATGGTAAATATATATTAAGTAATTATGATGAATTTATAT
Found at i:56571761 original size:37 final size:37
Alignment explanation
Indices: 56571700--56571778 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
56571690 TTACTACGAA
* * *
56571700 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
*
56571737 GTCTTACCCAGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCT-CCACACGAAGTCATCGG
56571774 GTCTT
1 GTCTT
56571779 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
Found at i:56571975 original size:47 final size:47
Alignment explanation
Indices: 56571897--56572387 Score: 811
Period size: 47 Copynumber: 10.4 Consensus size: 47
56571887 CCCTTCGGGA
* * * * * * *
56571897 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56571944 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56571991 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56572038 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56572085 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56572132 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56572179 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56572226 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56572275 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56572322 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56572369 CTTATCACATATATACACT
1 CTTATCACATATATACACT
56572388 GTCTTGGCTG
Statistics
Matches: 424, Mismatches: 18, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 378 0.89
49 46 0.11
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56576009 original size:40 final size:41
Alignment explanation
Indices: 56575926--56576121 Score: 190
Period size: 40 Copynumber: 4.9 Consensus size: 41
56575916 CCGAATACAC
* * * * **
56575926 GTCACCAGCATGATTGCTCTTC-GGATTTAGTACGGATATA
1 GTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
*
56575966 -TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 GTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
56576006 -TCACTAGCATGAATGCTCTTCGGGACTTAGCCCAGATTTA
1 GTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
56576046 GTAACTCGCACCAATGC-CTTC-GGATCTTAGTCCGGATATA
1 GTCACTAGCACGAATGCTCTTCGGGA-CTTAGCCCGGATATA
*
56576086 GTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCCGGA
1 GTCAC-TAGCACGAATGCTCTTCGGGACTTAGCCCGGA
56576122 CATCATTCGA
Statistics
Matches: 129, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
39 21 0.16
40 88 0.68
41 20 0.16
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (41 bp):
GTCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:56576462 original size:29 final size:29
Alignment explanation
Indices: 56576428--56576501 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
56576418 TAATCAACCA
* *
56576428 CGCACACTTAGTGCCATGTACTTT-ACA-CT
1 CGCACACTTAGTGCCATGCA-TTTCA-AGCC
56576457 CGCACACTTAGTGCCATGCATTTCAAGCC
1 CGCACACTTAGTGCCATGCATTTCAAGCC
56576486 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
56576502 ATCTCACAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 4 0.10
29 37 0.90
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAGCC
Found at i:56576544 original size:43 final size:43
Alignment explanation
Indices: 56576483--56576585 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
56576473 TGCATTTCAA
56576483 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
56576526 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
56576569 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
56576586 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:56578498 original size:37 final size:37
Alignment explanation
Indices: 56578448--56578526 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
56578438 TTATTACGAA
* *
56578448 GTCTTACCCGGACATAA-TCTCCACACAAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACAAAGTCATCGG
**
56578485 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACAAAGTCATCGG
56578522 GTCTT
1 GTCTT
56578527 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACAAAGTCATCGG
Found at i:56578723 original size:47 final size:47
Alignment explanation
Indices: 56578645--56579131 Score: 807
Period size: 47 Copynumber: 10.4 Consensus size: 47
56578635 CCCTTCGGGA
* * * * * * *
56578645 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56578692 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56578739 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56578786 CTTATTACATATATACACTTTCACATTCATCACATCGGCGATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56578833 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56578880 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56578927 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56578974 CTTATCACATATATACACTTTCACATTCATCACATCGG-CATTA-GC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56579019 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56579066 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56579113 CTTATCACATATATACACT
1 CTTATCACATATATACACT
56579132 GTCTTGGCTG
Statistics
Matches: 419, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
45 40 0.10
46 9 0.02
47 370 0.88
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56588562 original size:46 final size:45
Alignment explanation
Indices: 56588495--56588668 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
56588485 ATGTAACCCG
*
56588495 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGCATTCGCAT
*
56588541 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGC-A--T
* *** *
56588587 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG-CATTCGCAT
*
56588634 CCAT-AGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
56588669 ATGTTCAACC
Statistics
Matches: 110, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 30 0.27
46 40 0.36
47 31 0.28
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGCATTCGCAT
Found at i:56588615 original size:93 final size:92
Alignment explanation
Indices: 56588503--56588671 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
56588493 CGCCATAAGT
*
56588503 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCA
56588567 ACGAGCTCGGATGCCTAGTTACATCTCTC
64 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
56588596 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
*
56588661 GAGTTCGGATG
66 GAGCTCGGATG
56588672 TTCAACCATC
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
92 35 0.49
93 37 0.51
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:56611785 original size:122 final size:122
Alignment explanation
Indices: 56611568--56611811 Score: 470
Period size: 122 Copynumber: 2.0 Consensus size: 122
56611558 CCTTAAATGG
56611568 TTTTTGCATGCAAAACAAAATAAAAATAAATATTAGCTCATTGATTATCCATCGTTTAGAAAATA
1 TTTTTGCATGCAAAACAAAATAAAAATAAATATTAGCTCATTGATTATCCATCGTTTAGAAAATA
*
56611633 CTAAGCTGCATGTTGTGGTCGGATCATAATGCAAGAAGATAGCTTGTGTTAATAGAT
66 CTAAGCTACATGTTGTGGTCGGATCATAATGCAAGAAGATAGCTTGTGTTAATAGAT
56611690 TTTTTGCATGCAAAACAAAATAAAAATAAATATTAGCTCATTGATTATCCATCGTTTAGAAAATA
1 TTTTTGCATGCAAAACAAAATAAAAATAAATATTAGCTCATTGATTATCCATCGTTTAGAAAATA
*
56611755 CTAAGCTACATGTTGTGGTTGGATCATAATGCAAGAAGATAGCTTGTGTTAATAGAT
66 CTAAGCTACATGTTGTGGTCGGATCATAATGCAAGAAGATAGCTTGTGTTAATAGAT
56611812 GATCTAAATA
Statistics
Matches: 120, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
122 120 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (122 bp):
TTTTTGCATGCAAAACAAAATAAAAATAAATATTAGCTCATTGATTATCCATCGTTTAGAAAATA
CTAAGCTACATGTTGTGGTCGGATCATAATGCAAGAAGATAGCTTGTGTTAATAGAT
Found at i:56622211 original size:366 final size:366
Alignment explanation
Indices: 56621539--56622270 Score: 1455
Period size: 366 Copynumber: 2.0 Consensus size: 366
56621529 CCATTCCATC
56621539 TATGCCCGCTTGTCCATTTACTTAAACCTATTTATTCTTTTTTCATGCATAAAAAGGAAGTGTGT
1 TATGCCCGCTTGTCCATTTACTTAAACCTATTTATTCTTTTTTCATGCATAAAAAGGAAGTGTGT
56621604 CCCTTGTATCGGGATTGTTAGAGATAAATAATTTTTTGCATTGTTCCCCTAACTTCCTCCTATCT
66 CCCTTGTATCGGGATTGTTAGAGATAAATAATTTTTTGCATTGTTCCCCTAACTTCCTCCTATCT
56621669 TCCTCACTAGGTTGGTGACCACATTTAAAAGTTTTAGTCTTGCCATTGATTTTCATAGTTAATTA
131 TCCTCACTAGGTTGGTGACCACATTTAAAAGTTTTAGTCTTGCCATTGATTTTCATAGTTAATTA
56621734 TTTTTCTCTAAACCAATGATAGATCTAAAAGTGGCCAGGAAAGGTCTACCTAATACGATCAGTAT
196 TTTTTCTCTAAACCAATGATAGATCTAAAAGTGGCCAGGAAAGGTCTACCTAATACGATCAGTAT
56621799 CTCACGATCTTCCTCAAAATCAAGCATCCCAAAATCTGTCGAAATAATGAAACTGCGCACTTTGA
261 CTCACGATCTTCCTCAAAATCAAGCATCCCAAAATCTGTCGAAATAATGAAACTGCGCACTTTGA
56621864 CTAACACATCCTCTAGTACAGGTTTTGGATGAACTGAAGAT
326 CTAACACATCCTCTAGTACAGGTTTTGGATGAACTGAAGAT
56621905 TATGCCCGCTTGTCCATTTACTTAAACCTATTTATTCTTTTTTCATGCATAAAAAGGAAGTGTGT
1 TATGCCCGCTTGTCCATTTACTTAAACCTATTTATTCTTTTTTCATGCATAAAAAGGAAGTGTGT
56621970 CCCTTGTATCGGGATTGTTAGAGATAAATAATTTTTTGCATTGTTCCCCTAACTTCCTCCTATCT
66 CCCTTGTATCGGGATTGTTAGAGATAAATAATTTTTTGCATTGTTCCCCTAACTTCCTCCTATCT
56622035 TCCTCACTAGGTTGGTGACCACATTTAAAAGTTTTAGTCTTGCCATTGATTTTCATAGTTAATTA
131 TCCTCACTAGGTTGGTGACCACATTTAAAAGTTTTAGTCTTGCCATTGATTTTCATAGTTAATTA
56622100 TTTTTCTCTAAACCAATGATAGATCTAAAAGTGGCCAGGAAAGGTCTACCTAATACGATCAGTAT
196 TTTTTCTCTAAACCAATGATAGATCTAAAAGTGGCCAGGAAAGGTCTACCTAATACGATCAGTAT
*
56622165 CTCACGATCTTCCTCAAAATCAAGCATCCCAAAATCTGTTGAAATAATGAAACTGCGCACTTTGA
261 CTCACGATCTTCCTCAAAATCAAGCATCCCAAAATCTGTCGAAATAATGAAACTGCGCACTTTGA
56622230 CTAACACATCCTCTAGTACAGGTTTTGGATGAACTGAAGAT
326 CTAACACATCCTCTAGTACAGGTTTTGGATGAACTGAAGAT
56622271 CTATCAGTCA
Statistics
Matches: 365, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
366 365 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (366 bp):
TATGCCCGCTTGTCCATTTACTTAAACCTATTTATTCTTTTTTCATGCATAAAAAGGAAGTGTGT
CCCTTGTATCGGGATTGTTAGAGATAAATAATTTTTTGCATTGTTCCCCTAACTTCCTCCTATCT
TCCTCACTAGGTTGGTGACCACATTTAAAAGTTTTAGTCTTGCCATTGATTTTCATAGTTAATTA
TTTTTCTCTAAACCAATGATAGATCTAAAAGTGGCCAGGAAAGGTCTACCTAATACGATCAGTAT
CTCACGATCTTCCTCAAAATCAAGCATCCCAAAATCTGTCGAAATAATGAAACTGCGCACTTTGA
CTAACACATCCTCTAGTACAGGTTTTGGATGAACTGAAGAT
Found at i:56626226 original size:74 final size:72
Alignment explanation
Indices: 56626140--56626281 Score: 223
Period size: 74 Copynumber: 1.9 Consensus size: 72
56626130 AAAATAAGCC
* *
56626140 ATTTTATGCATGAAAACTATATAATAAAGA-ATAAAATCACGTTTTAATAATTTCTATGACCTAA
1 ATTTTATACATGAAAACTATATAATAAA-ACATAAAATCACATTTTAATAATTTC--TGACCTAA
56626204 TTTCATGCTT
63 TTTCATGCTT
*
56626214 ATTTTATACATGAAAACTATATAATAAAACATAAAATCACATTTTAATAATTTCTGTCCTAATTT
1 ATTTTATACATGAAAACTATATAATAAAACATAAAATCACATTTTAATAATTTCTGACCTAATTT
56626279 CAT
66 CAT
56626282 ACTTTCACAT
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
72 13 0.20
73 1 0.02
74 50 0.78
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (72 bp):
ATTTTATACATGAAAACTATATAATAAAACATAAAATCACATTTTAATAATTTCTGACCTAATTT
CATGCTT
Found at i:56629707 original size:50 final size:49
Alignment explanation
Indices: 56629640--56629965 Score: 219
Period size: 49 Copynumber: 6.6 Consensus size: 49
56629630 GAGATGTGTC
*
56629640 AGTGCAAGACCATGTCTAGGACATGGCATCAGTACGGATATGCGAGAGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAGTACGGATATG-GAGAGCT
* * * *
56629690 AGTGTAAGATCATGTCTA-CAGCATAGCATCAGCCT-C-GATGAT-GATAG-T
1 AGTGTAAGACCATGTCTAGGA-CATGGCATCAG--TACGGAT-ATGGAGAGCT
* * * *
56629738 CAGTGTAAGACCATGTCTAGGACATCGCATCGGCATGGATATGCGAGAGCT
1 -AGTGTAAGACCATGTCTAGGACATGGCATCAGTACGGATATG-GAGAGCT
* * * *
56629789 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-C-GATGAT-GATA-TT
1 AGTGTAAGACCATGTCTAGGACATGGCATCAG--TACGGAT-ATGGAGAGCT
* * * * *
56629837 CAGTGTAAAACCATGTTTGGGACACGGCATCAGCACGGATATGTGAGAGCT
1 -AGTGTAAGACCATGTCTAGGACATGGCATCAGTACGGATATG-GAGAGCT
* * *
56629888 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-C-GATGAT-GATAG-T
1 AGTGTAAGACCATGTCTAGGACATGGCATCAG--TACGGAT-ATGGAGAGCT
*
56629936 CAGTGTAAGACCATGTCTGGGACATGGCAT
1 -AGTGTAAGACCATGTCTAGGACATGGCAT
56629966 AGGCACCTTA
Statistics
Matches: 221, Mismatches: 31, Indels: 49
0.73 0.10 0.16
Matches are distributed among these distances:
48 8 0.04
49 101 0.46
50 101 0.46
51 10 0.05
52 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCAGTACGGATATGGAGAGCT
Found at i:56629754 original size:49 final size:49
Alignment explanation
Indices: 56629456--56629965 Score: 350
Period size: 50 Copynumber: 10.6 Consensus size: 49
56629446 TGCTTGAGCT
* * * * *
56629456 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTC
* * * * *
56629502 AGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGA-GACGAGT-GCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGA-TAGTC
* * * * *
56629550 AGTGTAAGA-CATGTTTGGGACAT-GCATTGGCCTCG-GGACG-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGAT-AGTC
* * *
56629596 AGTATAAGA-TATGTCTGGGACAT-GCAACGG-CTACGA-GATG-T-GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATGATGATAGTC
* * * *
56629640 AGTGCAAGACCATGTCTAGGACATGGCATCAG--TACGGAT-ATGCGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-C-GATGAT--GATAGTC
* ** * *
56629689 TAGTGTAAGATCATGTCT-ACAGCATAGCATCAGCCTCGATGATGATAGTC
1 -AGTGTAAGACCATGTCTGGGA-CATGGCATCGGCCTCGATGATGATAGTC
* * * * *
56629739 AGTGTAAGACCATGTCTAGGACATCGCATCGGCATGGAT-ATGCGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAT--GATAGTC
*
56629788 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATATTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTC
* * * * * *
56629838 AGTGTAAAACCATGTTTGGGACACGGCATCAGCAC-GGAT-ATG-TGAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATGATGAT-AG-TC
56629887 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTC
56629937 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
56629966 AGGCACCTTA
Statistics
Matches: 370, Mismatches: 58, Indels: 69
0.74 0.12 0.14
Matches are distributed among these distances:
44 10 0.03
45 17 0.05
46 65 0.18
47 28 0.08
48 29 0.08
49 104 0.28
50 105 0.28
51 10 0.03
52 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATAGTC
Found at i:56629818 original size:99 final size:99
Alignment explanation
Indices: 56629456--56629965 Score: 488
Period size: 99 Copynumber: 5.3 Consensus size: 99
56629446 TGCTTGAGCT
* *
56629456 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC--ATTAT--GAGAGCCAGTGTAAGACCAT
1 AGTGTAAGACCATGTCTAGGACATCGCATCAG-CACGGA-TATGCGAGAGCTAGTGTAAGACCAT
* * * * *
56629515 GTTTGGGACATGGCATCGGCATTGA-GACGAGT-GCC
64 GTCTGGGACATGGCATCGGCCTCGATGATGA-TAGTC
* * ** * * * * *
56629550 AGTGTAAGA-CATGTTTGGGACAT-GCATTGGCCTCGG-GA--CGTA-AGCCAGTATAAGA-TAT
1 AGTGTAAGACCATGTCTAGGACATCGCATCAG-CACGGATATGCG-AGAGCTAGTGTAAGACCAT
*
56629608 GTCTGGGACAT-GCAACGG-CTACGA-GATG-T-GTC
64 GTCTGGGACATGGCATCGGCCT-CGATGATGATAGTC
* * * *
56629640 AGTGCAAGACCATGTCTAGGACATGGCATCAGTACGGATATGCGAGAGCTAGTGTAAGATCATGT
1 AGTGTAAGACCATGTCTAGGACATCGCATCAGCACGGATATGCGAGAGCTAGTGTAAGACCATGT
** * *
56629705 CT-ACAGCATAGCATCAGCCTCGATGATGATAGTC
66 CTGGGA-CATGGCATCGGCCTCGATGATGATAGTC
* *
56629739 AGTGTAAGACCATGTCTAGGACATCGCATCGGCATGGATATGCGAGAGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTAGGACATCGCATCAGCACGGATATGCGAGAGCTAGTGTAAGACCATGT
*
56629804 CTGGGACATGGCATCGGCCTCGATGATGATATTC
66 CTGGGACATGGCATCGGCCTCGATGATGATAGTC
* * * *
56629838 AGTGTAAAACCATGTTTGGGACA-CGGCATCAGCACGGATATGTGAGAGCTAGTGTAAGACCATG
1 AGTGTAAGACCATGTCTAGGACATC-GCATCAGCACGGATATGCGAGAGCTAGTGTAAGACCATG
56629902 TCTGGGACATGGCATCGGCCTCGATGATGATAGTC
65 TCTGGGACATGGCATCGGCCTCGATGATGATAGTC
* *
56629937 AGTGTAAGACCATGTCTGGGACATGGCAT
1 AGTGTAAGACCATGTCTAGGACATCGCAT
56629966 AGGCACCTTA
Statistics
Matches: 346, Mismatches: 49, Indels: 37
0.80 0.11 0.09
Matches are distributed among these distances:
90 11 0.03
91 16 0.05
92 17 0.05
93 13 0.04
94 58 0.17
95 10 0.03
96 8 0.02
97 6 0.02
98 2 0.01
99 204 0.59
100 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (99 bp):
AGTGTAAGACCATGTCTAGGACATCGCATCAGCACGGATATGCGAGAGCTAGTGTAAGACCATGT
CTGGGACATGGCATCGGCCTCGATGATGATAGTC
Found at i:56637469 original size:22 final size:22
Alignment explanation
Indices: 56637429--56637513 Score: 91
Period size: 22 Copynumber: 3.9 Consensus size: 22
56637419 AGAATGGCCA
* **
56637429 AGAGCCATAAACAAAATGGTTAT
1 AGAGCCATAATCAGGATGG-TAT
* * *
56637452 A-AACCATAATCAGGATGGCAC
1 AGAGCCATAATCAGGATGGTAT
*
56637473 AGAGCCATAATCAGGATGATAT
1 AGAGCCATAATCAGGATGGTAT
56637495 AGAGCCATAATCAGGATGG
1 AGAGCCATAATCAGGATGG
56637514 CACAAAGCTA
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 2 0.04
22 47 0.94
23 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.22, T:0.19
Consensus pattern (22 bp):
AGAGCCATAATCAGGATGGTAT
Found at i:56638124 original size:81 final size:78
Alignment explanation
Indices: 56638007--56638222 Score: 263
Period size: 81 Copynumber: 2.7 Consensus size: 78
56637997 TCATTTTGCC
* * *
56638007 CTACAAGGGTATTTCGATAATTTTACACTACAAGGGTATTTTGGTAATTGTACACTACAAGGGTA
1 CTACAAGGGTATTTCGATAATTTCACA-AACGAGGGTATTTTGGTAATTGTACACTACAAGGGTA
*
56638072 TTTTGATAATTGTACA
65 TTTCGATAATT-T-CA
*
56638088 CTACAAGGGTATTTCGGTAATTTCACAAACCGAGGGTATTTTGGTAATTGTACACTACAAGGGTA
1 CTACAAGGGTATTTCGATAATTTCACAAA-CGAGGGTATTTTGGTAATTGTACACTACAAGGGTA
*
56638153 TTTCGGTAATTTCA
65 TTTCGATAATTTCA
* * * *
56638167 CAAACCGAGGGTATTTCGATAA-TTCTACAATTCGAGGGTATTTTGGTAATTTTACA
1 C-TA-CAAGGGTATTTCGATAATTTC-ACAA-ACGAGGGTATTTTGGTAATTGTACA
56638223 AACCGAGGTC
Statistics
Matches: 119, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
79 3 0.03
80 6 0.05
81 110 0.92
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.36
Consensus pattern (78 bp):
CTACAAGGGTATTTCGATAATTTCACAAACGAGGGTATTTTGGTAATTGTACACTACAAGGGTAT
TTCGATAATTTCA
Found at i:56638223 original size:27 final size:27
Alignment explanation
Indices: 56638008--56638223 Score: 211
Period size: 27 Copynumber: 8.0 Consensus size: 27
56637998 CATTTTGCCC
* *
56638008 TACAAGGGTATTTCGATAATTTTACAC
1 TACAAGGGTATTTCGGTAATTTTACAA
* * *
56638035 TACAAGGGTATTTTGGTAATTGTACAC
1 TACAAGGGTATTTCGGTAATTTTACAA
* * * *
56638062 TACAAGGGTATTTTGATAATTGTACAC
1 TACAAGGGTATTTCGGTAATTTTACAA
*
56638089 TACAAGGGTATTTCGGTAATTTCACAA
1 TACAAGGGTATTTCGGTAATTTTACAA
* * * *
56638116 -ACCGAGGGTATTTTGGTAATTGTACAC
1 TA-CAAGGGTATTTCGGTAATTTTACAA
*
56638143 TACAAGGGTATTTCGGTAATTTCACAA
1 TACAAGGGTATTTCGGTAATTTTACAA
* * *
56638170 -ACCGAGGGTATTTCGATAATTCTACAA
1 TA-CAAGGGTATTTCGGTAATTTTACAA
* * *
56638197 TTCGAGGGTATTTTGGTAATTTTACAA
1 TACAAGGGTATTTCGGTAATTTTACAA
56638224 ACCGAGGTCT
Statistics
Matches: 158, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 155 0.98
28 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.36
Consensus pattern (27 bp):
TACAAGGGTATTTCGGTAATTTTACAA
Found at i:56638227 original size:54 final size:54
Alignment explanation
Indices: 56638012--56638230 Score: 289
Period size: 54 Copynumber: 4.1 Consensus size: 54
56638002 TTGCCCTACA
* * * *
56638012 AGGGTATTTCGATAATTTTACACTACAAGGGTATTTTGGTAATTGT-ACACTA-CA
1 AGGGTATTTCGATAATTGTACACTACAAGGGTATTTCGGTAATT-TCACA-AACCG
*
56638066 AGGGTATTTTGATAATTGTACACTACAAGGGTATTTCGGTAATTTCACAAACCG
1 AGGGTATTTCGATAATTGTACACTACAAGGGTATTTCGGTAATTTCACAAACCG
* *
56638120 AGGGTATTTTGGTAATTGTACACTACAAGGGTATTTCGGTAATTTCACAAACCG
1 AGGGTATTTCGATAATTGTACACTACAAGGGTATTTCGGTAATTTCACAAACCG
* * * * * *
56638174 AGGGTATTTCGATAATTCTACAATTCGAGGGTATTTTGGTAATTTTACAAACCG
1 AGGGTATTTCGATAATTGTACACTACAAGGGTATTTCGGTAATTTCACAAACCG
56638228 AGG
1 AGG
56638231 TCTTAACGAC
Statistics
Matches: 149, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
53 2 0.01
54 147 0.99
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.35
Consensus pattern (54 bp):
AGGGTATTTCGATAATTGTACACTACAAGGGTATTTCGGTAATTTCACAAACCG
Found at i:56639140 original size:10 final size:10
Alignment explanation
Indices: 56639125--56639149 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
56639115 TCTGATTGTC
56639125 GAACCCAAAG
1 GAACCCAAAG
56639135 GAACCCAAAG
1 GAACCCAAAG
56639145 GAACC
1 GAACC
56639150 AAGAGTACTA
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:0.48, C:0.32, G:0.20, T:0.00
Consensus pattern (10 bp):
GAACCCAAAG
Found at i:56647307 original size:18 final size:17
Alignment explanation
Indices: 56647284--56647317 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
56647274 GTTTACCTAT
56647284 TATTATTATTCGTTTATC
1 TATTATTATT-GTTTATC
56647302 TATTATTATTGTTTAT
1 TATTATTATTGTTTAT
56647318 ATTACAGGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTATTATTGTTTATC
Found at i:56647320 original size:15 final size:17
Alignment explanation
Indices: 56647284--56647321 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
56647274 GTTTACCTAT
56647284 TATTATTATTCGTTTATC
1 TATTATTATTCGTTTA-C
56647302 TATTATTATT-GTTTA-
1 TATTATTATTCGTTTAC
56647317 TATTA
1 TATTA
56647322 CAGGCTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
17 5 0.25
18 10 0.50
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.63
Consensus pattern (17 bp):
TATTATTATTCGTTTAC
Found at i:56662715 original size:18 final size:18
Alignment explanation
Indices: 56662692--56662727 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
56662682 AGGTTAAATG
*
56662692 TGAAAAATTAGAATTTAA
1 TGAAAAATTAAAATTTAA
56662710 TGAAAAATTAAAATTTAA
1 TGAAAAATTAAAATTTAA
56662728 ATAAGTCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
TGAAAAATTAAAATTTAA
Found at i:56665529 original size:19 final size:19
Alignment explanation
Indices: 56665492--56665529 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
56665482 ACCTGTCAAA
*
56665492 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
56665511 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
56665530 TAAATTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:56668236 original size:22 final size:22
Alignment explanation
Indices: 56668220--56668262 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
56668210 AATGGTTATA
56668220 AACCATAATCAAGATGGCACAC
1 AACCATAATCAAGATGGCACAC
*
56668242 AGCCATAATCAAGATGGCACA
1 AACCATAATCAAGATGGCACA
56668263 AGGCTATCGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.26, G:0.16, T:0.14
Consensus pattern (22 bp):
AACCATAATCAAGATGGCACAC
Found at i:56668412 original size:27 final size:27
Alignment explanation
Indices: 56668328--56668413 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
56668318 ATCGGTATAT
* * *
56668328 AGCCACGGGTAAATATGATTGACACAG
1 AGCCACAGGTAAATATGATTGGCACAA
* * * **
56668355 AGTCATCA-ATAAATATGATAGGCACTT
1 AGCCA-CAGGTAAATATGATTGGCACAA
56668382 AGCCACAGGTAAATATGATTGGCACAA
1 AGCCACAGGTAAATATGATTGGCACAA
56668409 AGCCA
1 AGCCA
56668414 TAATCAAGAT
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
26 2 0.04
27 42 0.93
28 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (27 bp):
AGCCACAGGTAAATATGATTGGCACAA
Found at i:56668879 original size:27 final size:27
Alignment explanation
Indices: 56668783--56668871 Score: 115
Period size: 27 Copynumber: 3.3 Consensus size: 27
56668773 TGCCCTAGAG
* * * *
56668783 GGGTATTTTGCTAATTTTACATTACAA
1 GGGTATTTCGGTAATTATACACTACAA
* *
56668810 GGGTATATCGGTAACTATACACTACAA
1 GGGTATTTCGGTAATTATACACTACAA
*
56668837 GGGTATTTCGGTAATTATACACTATAA
1 GGGTATTTCGGTAATTATACACTACAA
56668864 GGGTATTT
1 GGGTATTT
56668872 TAGTAATTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGGTAATTATACACTACAA
Found at i:56668922 original size:27 final size:27
Alignment explanation
Indices: 56668891--56669050 Score: 155
Period size: 27 Copynumber: 6.0 Consensus size: 27
56668881 AAAAAACTTG
* **
56668891 GGGTATTTCGGTAATTTTACAATTTGA
1 GGGTATTTCGATAATTTTACAAACTGA
* * *
56668918 AGGTATTTAGGTAATTTTACAAACT-A
1 GGGTATTTCGATAATTTTACAAACTGA
*
56668944 GGGGTA-TTCGATAATTTTACAAACCG-
1 -GGGTATTTCGATAATTTTACAAACTGA
* *
56668970 GGAGTATTTTGATAATTTTACAAACTAA
1 GG-GTATTTCGATAATTTTACAAACTGA
* * * * *
56668998 AGGTATTTCGGTAAATTTACAATCCGA
1 GGGTATTTCGATAATTTTACAAACTGA
56669025 GGGTATTTCGATAATTTTACAAACTG
1 GGGTATTTCGATAATTTTACAAACTG
56669051 GAGTCTACAC
Statistics
Matches: 105, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
25 2 0.02
26 20 0.19
27 82 0.78
28 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAACTGA
Found at i:56668990 original size:80 final size:81
Alignment explanation
Indices: 56668893--56669048 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 81
56668883 AAAACTTGGG
* ** * *
56668893 GTATTTCGGTAATTTTACAATTTGAAGGTATTTAGGTAATTTTACAAACTAG-GGGTA-TTCGAT
1 GTATTTCGATAATTTTACAAACTAAAGGTATTTAGGTAAATTTACAAAC-AGAGGGTATTTCGAT
56668956 AATTTTACAAACCGGGA
65 AATTTTACAAACCGGGA
* * * *
56668973 GTATTTTGATAATTTTACAAACTAAAGGTATTTCGGTAAATTTACAATCCGAGGGTATTTCGATA
1 GTATTTCGATAATTTTACAAACTAAAGGTATTTAGGTAAATTTACAAACAGAGGGTATTTCGATA
56669038 ATTTTACAAAC
66 ATTTTACAAAC
56669049 TGGAGTCTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.02
80 46 0.71
81 18 0.28
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (81 bp):
GTATTTCGATAATTTTACAAACTAAAGGTATTTAGGTAAATTTACAAACAGAGGGTATTTCGATA
ATTTTACAAACCGGGA
Found at i:56669041 original size:54 final size:54
Alignment explanation
Indices: 56668838--56669049 Score: 196
Period size: 54 Copynumber: 3.9 Consensus size: 54
56668828 ACACTACAAG
* * *** * * ***
56668838 GGTATTTCGGTAATTATACACTATAAGGGTATTTTAG-TAATTTAAAAAACTTGG
1 GGTATTTCGGTAATTTTACAATCCGAGGGTA-TTTAGATAATTTTACAAACTAAA
** * * **
56668892 GGTATTTCGGTAATTTTACAATTTGAAGGTATTTAGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTTACAATCCGAGGGTATTTAGATAATTTTACAAACTAAA
* * *
56668946 GGTA-TTCGATAATTTTACAAACCG-GGAGTATTTTGATAATTTTACAAACTAAA
1 GGTATTTCGGTAATTTTACAATCCGAGG-GTATTTAGATAATTTTACAAACTAAA
* *
56668999 GGTATTTCGGTAAATTTACAATCCGAGGGTATTTCGATAATTTTACAAACT
1 GGTATTTCGGTAATTTTACAATCCGAGGGTATTTAGATAATTTTACAAACT
56669050 GGAGTCTACA
Statistics
Matches: 133, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
52 1 0.01
53 47 0.35
54 83 0.62
55 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (54 bp):
GGTATTTCGGTAATTTTACAATCCGAGGGTATTTAGATAATTTTACAAACTAAA
Found at i:56669054 original size:80 final size:79
Alignment explanation
Indices: 56668875--56669054 Score: 200
Period size: 80 Copynumber: 2.2 Consensus size: 79
56668865 GGTATTTTAG
* * * * ** * *
56668875 TAATTTAAAAAACTTGGGGTATTTCGGTAATTTTACAATTTGAAGGTATTTAGGTAATTTTACAA
1 TAATTTTACAAAC-TGGAGTATTTCGATAATTTTACAAACTAAAGGTATTTAGGTAAATTTACAA
*
56668940 ACTAGGGGTATTCGA
65 ACGAGGGGTATTCGA
* * *
56668955 TAATTTTACAAACCGGGAGTATTTTGATAATTTTACAAACTAAAGGTATTTCGGTAAATTTACAA
1 TAATTTTACAAA-CTGGAGTATTTCGATAATTTTACAAACTAAAGGTATTTAGGTAAATTTACAA
*
56669020 TCCGA-GGGTATTTCGA
65 -ACGAGGGGTA-TTCGA
56669036 TAATTTTACAAACTGGAGT
1 TAATTTTACAAACTGGAGT
56669055 CTACACGACC
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
80 63 0.76
81 20 0.24
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.37
Consensus pattern (79 bp):
TAATTTTACAAACTGGAGTATTTCGATAATTTTACAAACTAAAGGTATTTAGGTAAATTTACAAA
CGAGGGGTATTCGA
Found at i:56680761 original size:29 final size:30
Alignment explanation
Indices: 56680729--56680804 Score: 100
Period size: 29 Copynumber: 2.6 Consensus size: 30
56680719 TCGGCTATTG
56680729 ATTATGAAAAGGGATGGTGATAACCATC-A
1 ATTATGAAAAGGGATGGTGATAACCATCGA
* * *
56680758 ATTATGGAAAGGGGTGGTGATGACCATCGA
1 ATTATGAAAAGGGATGGTGATAACCATCGA
* *
56680788 ACTATAAAAAGGGATGG
1 ATTATGAAAAGGGATGG
56680805 CTTCGGGTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 25 0.64
30 14 0.36
ACGTcount: A:0.38, C:0.09, G:0.30, T:0.22
Consensus pattern (30 bp):
ATTATGAAAAGGGATGGTGATAACCATCGA
Found at i:56680835 original size:29 final size:30
Alignment explanation
Indices: 56680794--56680863 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 30
56680784 TCGAACTATA
* *
56680794 AAAAGGGATGGCTTCGGGTATC-AATCATT
1 AAAAGGGATGGCTTCGGCTATCAAATCATG
*
56680823 AAAAGGGATGGCTTCGGCTATCAAATTATG
1 AAAAGGGATGGCTTCGGCTATCAAATCATG
56680853 AAAAGGGATGG
1 AAAAGGGATGG
56680864 TAATGACCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.24
Consensus pattern (30 bp):
AAAAGGGATGGCTTCGGCTATCAAATCATG
Found at i:56680902 original size:30 final size:30
Alignment explanation
Indices: 56680850--56680921 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 30
56680840 CTATCAAATT
* * **
56680850 ATGAAAAGGGATGGTAATGACCATTGAACC
1 ATGAAAAGGGATGATAACGACCATCAAACC
* **
56680880 ATGAAAAGGGATGATGACGACCATCAAATT
1 ATGAAAAGGGATGATAACGACCATCAAACC
56680910 ATGAAAAGGGAT
1 ATGAAAAGGGAT
56680922 AGCTTTTACT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.43, C:0.11, G:0.26, T:0.19
Consensus pattern (30 bp):
ATGAAAAGGGATGATAACGACCATCAAACC
Found at i:56681312 original size:13 final size:13
Alignment explanation
Indices: 56681289--56681322 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
56681279 AAACATATTA
56681289 TAAACATTTTGTGT
1 TAAA-ATTTTGTGT
56681303 TAAAATTTTGTGT
1 TAAAATTTTGTGT
56681316 TAGAAAT
1 TA-AAAT
56681323 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.47
Consensus pattern (13 bp):
TAAAATTTTGTGT
Found at i:56682671 original size:40 final size:40
Alignment explanation
Indices: 56682612--56682829 Score: 341
Period size: 40 Copynumber: 5.5 Consensus size: 40
56682602 CGGATGATAA
*
56682612 CCGGGCTAAGAT-CCAAAGGCATTTGTGCTAGTGACTATAT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACTATAT
*
56682652 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
56682692 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
* *
56682732 CCGGGCTGAGTCCCGAAGGCATTTGTGCTAGTGATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
* * *
56682772 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTCTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
*
56682812 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56682830 TACTTGAGTT
Statistics
Matches: 166, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 16 0.10
40 150 0.90
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT
Found at i:56690090 original size:28 final size:28
Alignment explanation
Indices: 56690054--56690128 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
56690044 TCAAATATGT
* *
56690054 CACTCAGTGTACGAAATATTGAGAATGG
1 CACTTAGTGTACGAAATATTGAGAATGA
*
56690082 CACTTAGTGTACGAGATATTGAGAATGA
1 CACTTAGTGTACGAAATATTGAGAATGA
* *
56690110 CACTTAGTGTGCAAAATAT
1 CACTTAGTGTACGAAATAT
56690129 CAAATGATTC
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (28 bp):
CACTTAGTGTACGAAATATTGAGAATGA
Found at i:56728950 original size:28 final size:28
Alignment explanation
Indices: 56728919--56729064 Score: 116
Period size: 29 Copynumber: 5.1 Consensus size: 28
56728909 GTGAGCATGG
56728919 ATAT-AATGTGATTTGGGCCGGATGGGCC
1 ATATAAATGTGA-TTGGGCCGGATGGGCC
* ** *
56728947 ATATAAATGAGATTGGGCCTAACGGGCC
1 ATATAAATGTGATTGGGCCGGATGGGCC
* * * * *
56728975 ATATGAATGTCAATTTGGCCTGATGGGCT
1 ATATAAATGT-GATTGGGCCGGATGGGCC
* * *
56729004 ATATGAACGTGAATTGGGTCGGATGGGCC
1 ATATAAATGTG-ATTGGGCCGGATGGGCC
* *
56729033 ATATAAATGAGATTGGGCC-TAGTGGGCC
1 ATATAAATGTGATTGGGCCGGA-TGGGCC
56729061 ATAT
1 ATAT
56729065 GCATGTATGT
Statistics
Matches: 92, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
27 1 0.01
28 42 0.46
29 49 0.53
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCGGATGGGCC
Found at i:56736795 original size:29 final size:28
Alignment explanation
Indices: 56736712--56736862 Score: 126
Period size: 29 Copynumber: 5.4 Consensus size: 28
56736702 GTGAGCATGG
* *
56736712 ATAT-AATGTGATTTGGGCCAGATGGACC
1 ATATGAATGTGA-TTGGGCCTGATGGGCC
** * * *
56736740 ATAAAAATGAGATTGGGCCTAACGGGCC
1 ATATGAATGTGATTGGGCCTGATGGGCC
*
56736768 ATATGAATGTGAATTTGGCCTGATGGGCC
1 ATATGAATGTG-ATTGGGCCTGATGGGCC
* * *
56736797 ATATGAACGTGAATTGGGTCGGATGGGCC
1 ATATGAATGTG-ATTGGGCCTGATGGGCC
* * *
56736826 ATATAAATGAGATTGGGCTTG-TGGGCC
1 ATATGAATGTGATTGGGCCTGATGGGCC
*
56736853 ATATGCATGT
1 ATATGAATGT
56736863 ATGTAGGGTT
Statistics
Matches: 96, Mismatches: 25, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
27 13 0.14
28 30 0.31
29 53 0.55
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.27
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTGATGGGCC
Found at i:56742285 original size:20 final size:20
Alignment explanation
Indices: 56742248--56742285 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
56742238 AATATAATGT
*
56742248 AAATAATAGAAATTAAATAA
1 AAATAATAGAAATGAAATAA
56742268 AAATAATTAG-AATGAAAT
1 AAATAA-TAGAAATGAAAT
56742286 TAAATCTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (20 bp):
AAATAATAGAAATGAAATAA
Found at i:56742296 original size:25 final size:28
Alignment explanation
Indices: 56742229--56742297 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 28
56742219 ATAAAGGGGG
*
56742229 ATTAAATCTAATATAATGTAAATAATAGAA
1 ATTAAATCTAA-ATAATGT-AAGAATAGAA
**
56742259 ATTAAATAAAAATAAT-T-AGAAT-GAA
1 ATTAAATCTAAATAATGTAAGAATAGAA
56742284 ATTAAATCTAAATA
1 ATTAAATCTAAATA
56742298 TATCAAGTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
25 15 0.44
26 4 0.12
28 1 0.03
29 5 0.15
30 9 0.26
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (28 bp):
ATTAAATCTAAATAATGTAAGAATAGAA
Found at i:56768773 original size:16 final size:16
Alignment explanation
Indices: 56768754--56768785 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56768744 AATTGTTTTA
56768754 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
56768770 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
56768786 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:56769060 original size:50 final size:50
Alignment explanation
Indices: 56768996--56769577 Score: 519
Period size: 50 Copynumber: 11.5 Consensus size: 50
56768986 CTAGTACGCA
* * * * *
56768996 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTAGTATACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * * * ** *
56769046 TAGTAGCCTGCACTTAGTACTACACACTTGA-TTGAAGTTAAT-GGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT-AA--CAATCTGGTACACG
* * *
56769097 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* *
56769147 TTGTAGCCT-CACTTAGTACTACACACGTGACCTAAGC-ATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CAATCTGGTACACG
* ** * *
56769196 TAGTAGCCTGCACTTAGTACTACACAAGTGATCGAAACTATC-GAGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAATCTG-GTACACG
* * * ** *
56769247 TAGCAACCTGCACTTAGTACTACACATGCCACCTAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* ** *
56769297 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAA-AACTCTCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA-TCTGGT--ACACG
* * * * ** *
56769349 TAGTAGACTGCACTTAGTACTATACACGTGACCTATCCATCTAATACATG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* ** * * *
56769399 TAGTATCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAATCTGGTACACG
* *
56769450 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
* * *** *
56769500 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTATCTTAAACACA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACAATCTGGTACACG
* *
56769552 TAGTAGCTTGCACATAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
56769578 TGTGTTCTCA
Statistics
Matches: 425, Mismatches: 89, Indels: 34
0.78 0.16 0.06
Matches are distributed among these distances:
49 48 0.11
50 187 0.44
51 111 0.26
52 78 0.18
53 1 0.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAATCTGGTACACG
Found at i:56769295 original size:101 final size:101
Alignment explanation
Indices: 56769097--56769579 Score: 528
Period size: 101 Copynumber: 4.8 Consensus size: 101
56769087 TGGGTATGCA
* * * * * *
56769097 TAGTAGCCTGCACTTAGTACTACACATGTGACC-TATCAATCCG-GTACACGTTGTAGCCT-CAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAAACTAT-CGAGTACACATAGTAGCCTGCAC
* *
56769159 TTAGTACTACACACGTGACCTAAGC-ATCTGATACACG
65 TTAGTACTACACATGCGACCTAA-CAATCTGATACACG
* * * * *
56769196 TAGTAGCCTGCACTTAGTACTACACAAGTGATCGAAACTATCGAGTACACATAGCAACCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAAACTATCGAGTACACATAGTAGCCTGCACT
* * *
56769261 TAGTACTACACATGCCACCTAACAATCCGGTACACG
66 TAGTACTACACATGCGACCTAACAATCTGATACACG
* * * * *
56769297 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTCTCTTA-AACACATAGTAGACTGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AAAACTATC-GAGTACACATAGTAGCCTGCA
* * * * * * *
56769361 CTTAGTACTATACACGTGACCTATCCATCTAATACATG
64 CTTAGTACTACACATGCGACCTAACAATCTGATACACG
* * * *
56769399 TAGTATCCTGCACTTAGTACTACACACGTGATCGAAACTATCGGGTACACATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAAAACTATCGAGTACACATAGTAGCCTGCACT
*
56769464 TAGTACTACACATGCGACCTAACAATCTGGTACACG
66 TAGTACTACACATGCGACCTAACAATCTGATACACG
* * * *
56769500 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTATCTTA-AACACATAGTAGCTTGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AAAACTATC-GAGTACACATAGTAGCCTGCA
*
56769564 CATAGTACTACACATG
64 CTTAGTACTACACATG
56769580 TGTTCTCACA
Statistics
Matches: 315, Mismatches: 60, Indels: 15
0.81 0.15 0.04
Matches are distributed among these distances:
99 33 0.10
100 17 0.05
101 146 0.46
102 118 0.37
103 1 0.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAAAACTATCGAGTACACATAGTAGCCTGCACT
TAGTACTACACATGCGACCTAACAATCTGATACACG
Found at i:56769421 original size:203 final size:202
Alignment explanation
Indices: 56769097--56769577 Score: 702
Period size: 203 Copynumber: 2.4 Consensus size: 202
56769087 TGGGTATGCA
* * * * * *
56769097 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA-TC-CGGT--ACACGTTGTAGCCT-C
1 TAGTAGCCTGCACTTAGTATTACACACGTGACCTA-AAACTCTC-TTAAACACATAGTAG-CTGC
* *
56769157 ACTTAGTACTACACACGTGACCTAAGCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACA
63 ACTTAGTACTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTACACA
56769222 AGTGATCGAAACTATCGAGTACACATAGCAACCTGCACTTAGTACTACACATGCCACCTAACAAT
128 AGTGATCGAAACTATCGAGTACACATAGCAACCTGCACTTAGTACTACACATGCCACCTAACAAT
56769287 CCGGTACACG
193 CCGGTACACG
56769297 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTCTCTTAAACACATAGTAGACTGCAC
1 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTCTCTTAAACACATAGTAG-CTGCAC
* * * * *
56769362 TTAGTACTATACACGTGACCTATCCATCTAATACATGTAGTATCCTGCACTTAGTACTACACACG
65 TTAGTACTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTACACAAG
* * * * *
56769427 TGATCGAAACTATCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAATCT
130 TGATCGAAACTATCGAGTACACATAGCAACCTGCACTTAGTACTACACATGCCACCTAACAATCC
56769492 GGTACACG
195 GGTACACG
*
56769500 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTATCTTAAACACATAGTAGCTTGCAC
1 TAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTCTCTTAAACACATAGTAGC-TGCAC
*
56769565 ATAGTACTACACA
65 TTAGTACTACACA
56769578 TGTGTTCTCA
Statistics
Matches: 253, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
199 2 0.01
200 36 0.14
201 1 0.00
202 12 0.05
203 202 0.80
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (202 bp):
TAGTAGCCTGCACTTAGTATTACACACGTGACCTAAAACTCTCTTAAACACATAGTAGCTGCACT
TAGTACTACACACGTGACCTAACCATCTAATACACGTAGTAGCCTGCACTTAGTACTACACAAGT
GATCGAAACTATCGAGTACACATAGCAACCTGCACTTAGTACTACACATGCCACCTAACAATCCG
GTACACG
Found at i:56769960 original size:19 final size:20
Alignment explanation
Indices: 56769932--56769978 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
56769922 AAGAACATGT
56769932 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
56769953 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
56769972 TATATAT
1 TATATAT
56769979 ACTTACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:56789945 original size:13 final size:13
Alignment explanation
Indices: 56789929--56789961 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
56789919 ATTGATTAAA
*
56789929 TTAGTTAATTAGT
1 TTAGATAATTAGT
56789942 TTAGATAATTAGT
1 TTAGATAATTAGT
56789955 TTA-ATAA
1 TTAGATAA
56789962 AAAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:56791915 original size:28 final size:28
Alignment explanation
Indices: 56791853--56792005 Score: 263
Period size: 28 Copynumber: 5.5 Consensus size: 28
56791843 TATTAAGTCT
* *
56791853 GCACACTCAGTGCTATATAATC-AACTC
1 GCACACTTAGTGCTACATAATCAAACTC
*
56791880 GCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTACATAATCAAACTC
*
56791908 GCACACTTAGTGCTACATAATCAAGCTC
1 GCACACTTAGTGCTACATAATCAAACTC
56791936 GCACACTTAGTGCTACATAATCAAACTC
1 GCACACTTAGTGCTACATAATCAAACTC
56791964 GCACACTTAGTGCTACATAATCAAACTC
1 GCACACTTAGTGCTACATAATCAAACTC
56791992 GCACACTTAGTGCT
1 GCACACTTAGTGCT
56792006 GTACAATTTA
Statistics
Matches: 121, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 21 0.17
28 100 0.83
ACGTcount: A:0.33, C:0.28, G:0.12, T:0.26
Consensus pattern (28 bp):
GCACACTTAGTGCTACATAATCAAACTC
Found at i:56791944 original size:56 final size:55
Alignment explanation
Indices: 56791853--56792030 Score: 266
Period size: 56 Copynumber: 3.2 Consensus size: 55
56791843 TATTAAGTCT
* *
56791853 GCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTATATAATCAAACTC
1 GCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTATATAATCAAACTC
*
56791908 GCACACTTAGTGCTACATAATCAAGCTCGCACACTTAGTGCTACATAATCAAACTC
1 GCACACTTAGTGCTACATAATCAA-CTCGCACACTTAGTGCTATATAATCAAACTC
* * * *
56791964 GCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTGTACAATTTAAACCC
1 GCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCTATATAA-TCAAACTC
56792021 GCACACTTAG
1 GCACACTTAG
56792031 CGCCAATCTC
Statistics
Matches: 112, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
55 22 0.20
56 72 0.64
57 18 0.16
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.26
Consensus pattern (55 bp):
GCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTATATAATCAAACTC
Found at i:56797920 original size:40 final size:40
Alignment explanation
Indices: 56797874--56798117 Score: 357
Period size: 40 Copynumber: 6.1 Consensus size: 40
56797864 ACTAAGATCT
*
56797874 GAAGGCATTTGTGCTAGTGACTATATTCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
56797914 GAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* * *
56797954 GAAGGCATTTGTACTAGTTACTATATTCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* * *
56797994 AAAGGCATTTGTGCTAGTGGCTATATCCGAGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
*
56798034 GAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
* * *
56798074 GAAGGCATTTGTGCGAGTTG-CTATATCC-AGCTAAATCCC
1 GAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTCCC
56798113 GAAGG
1 GAAGG
56798118 TACTTGGGTT
Statistics
Matches: 185, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
39 14 0.08
40 169 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
GAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
Found at i:56801127 original size:6 final size:6
Alignment explanation
Indices: 56801116--56801162 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
56801106 AATCCTCTTA
* * *
56801116 TATTTT TATTTT TATTTT TATTCT TCTTTT TATTTT TATTTT CATTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TATTT
56801163 CAATTTTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:56801169 original size:24 final size:25
Alignment explanation
Indices: 56801117--56801182 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
56801107 ATCCTCTTAT
*
56801117 ATTTTTATTTTTATTTTTATTCTTC
1 ATTTTTATTTTTATTTTCATTCTTC
56801142 -TTTTTATTTTTATTTTCA-T-TTC
1 ATTTTTATTTTTATTTTCATTCTTC
*
56801164 AATTTTATTATTTTATTTT
1 ATTTTTA-T-TTTTATTTT
56801183 GAAAGACATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
22 3 0.08
23 6 0.17
24 18 0.50
25 9 0.25
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (25 bp):
ATTTTTATTTTTATTTTCATTCTTC
Found at i:56804100 original size:13 final size:13
Alignment explanation
Indices: 56804084--56804116 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
56804074 TTTGATTAAA
*
56804084 TTAGTTAATTAGT
1 TTAGATAATTAGT
56804097 TTAGATAATTAGT
1 TTAGATAATTAGT
56804110 TTA-ATAA
1 TTAGATAA
56804117 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:56807665 original size:14 final size:14
Alignment explanation
Indices: 56807646--56807672 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
56807636 TTCCTGAGCC
56807646 TAGGGGCAAAAGTT
1 TAGGGGCAAAAGTT
56807660 TAGGGGCAAAAGT
1 TAGGGGCAAAAGT
56807673 GTAATTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.37, T:0.19
Consensus pattern (14 bp):
TAGGGGCAAAAGTT
Found at i:56808166 original size:46 final size:46
Alignment explanation
Indices: 56808116--56808288 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
56808106 TGGTTGAGCA
*
56808116 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
56808162 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
56808209 TCTGAACTCATTGATTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
56808255 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56808289 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 59 0.59
47 26 0.26
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:56808272 original size:93 final size:93
Alignment explanation
Indices: 56808113--56808283 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
56808103 GGATGGTTGA
* * *
56808113 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
56808178 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
56808206 GCATCTGAACTCATTGATTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
56808271 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56808284 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:56815393 original size:28 final size:28
Alignment explanation
Indices: 56815353--56815416 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
56815343 TGGGAAGTAG
* * *
56815353 TTGGGCTTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
*
56815381 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
56815409 TTGGGCCT
1 TTGGGCCT
56815417 AAAGTGGCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.19, C:0.16, G:0.38, T:0.28
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:56815769 original size:27 final size:27
Alignment explanation
Indices: 56815733--56815991 Score: 285
Period size: 27 Copynumber: 9.7 Consensus size: 27
56815723 TAATAAAGAT
* *
56815733 AAATTACTGAAATACGCTCTATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56815760 AAATTGCTGAAATACCCTCGATTTCTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
56815787 AGATTA-TCGAAATACCCTCGA-TTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* *
56815813 AAATTATTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56815840 AAATTA-TGAAACACCTTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * * *
56815866 AAATTACCGAAATACCTTTGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56815893 AAATTATTGAAATACCCT-TATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
56815919 AAATTA-TCGAAATACCCTCGATTTGTA
1 AAATTACT-GAAATACCCTCGATTTGTA
* * *
56815946 AAATTACCGAAACACCCCCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
56815973 AAATTAATAGAAATACCCT
1 AAATTACT-GAAATACCCT
56815992 TGTAGTGTAA
Statistics
Matches: 195, Mismatches: 29, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
25 1 0.01
26 67 0.34
27 119 0.61
28 8 0.04
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:56815814 original size:53 final size:54
Alignment explanation
Indices: 56815733--56815991 Score: 276
Period size: 53 Copynumber: 4.8 Consensus size: 54
56815723 TAATAAAGAT
* * ** *
56815733 AAATTA-CTGAAATACGCTCTATTTGTAAAATTGCTGAAATACCCTCGATTTCTA
1 AAATTATC-GAAATACCCTCGATTTGTAAAATTAATGAAATACCCTCGATTTGTA
* * *
56815787 AGATTATCGAAATACCCTCGA-TTGTAAAATTATTGAAATACCCTCAATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTAATGAAATACCCTCGATTTGTA
* * ** * * *
56815840 AAATTAT-GAAACACCTTCGATTTGTAAAATTACCGAAATACCTTTGATTTATA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTAATGAAATACCCTCGATTTGTA
* *
56815893 AAATTATTGAAATACCCT-TATTTGTAAAATT-ATCGAAATACCCTCGATTTGTA
1 AAATTATCGAAATACCCTCGATTTGTAAAATTAAT-GAAATACCCTCGATTTGTA
* * *
56815946 AAATTACCGAAACACCCCCGATTTGTAAAATTAATAGAAATACCCT
1 AAATTATCGAAATACCCTCGATTTGTAAAATTAAT-GAAATACCCT
56815992 TGTAGTGTAA
Statistics
Matches: 169, Mismatches: 30, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
52 11 0.07
53 109 0.64
54 36 0.21
55 13 0.08
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (54 bp):
AAATTATCGAAATACCCTCGATTTGTAAAATTAATGAAATACCCTCGATTTGTA
Found at i:56815895 original size:80 final size:80
Alignment explanation
Indices: 56815733--56815991 Score: 342
Period size: 80 Copynumber: 3.2 Consensus size: 80
56815723 TAATAAAGAT
* * * * * *
56815733 AAATTACTGAAATACGCTCTATTTGTAAAATTGCTGAAATACCCTCGATTTCTAAGATTATCGAA
1 AAATTATTGAAATACCCTCTATTTGTAAAATT-ATGAAATACCCTCGATTTGTAAAATTACCGAA
56815798 ATACCCTCGA-TTGTA
65 ATACCCTCGATTTGTA
* * *
56815813 AAATTATTGAAATACCCTCAATTTGTAAAATTATGAAACACCTTCGATTTGTAAAATTACCGAAA
1 AAATTATTGAAATACCCTCTATTTGTAAAATTATGAAATACCCTCGATTTGTAAAATTACCGAAA
* * *
56815878 TACCTTTGATTTATA
66 TACCCTCGATTTGTA
56815893 AAATTATTGAAATACCCT-TATTTGTAAAATTATCGAAATACCCTCGATTTGTAAAATTACCGAA
1 AAATTATTGAAATACCCTCTATTTGTAAAATTAT-GAAATACCCTCGATTTGTAAAATTACCGAA
* *
56815957 ACACCCCCGATTTGTA
65 ATACCCTCGATTTGTA
*
56815973 AAATTAATAGAAATACCCT
1 AAATT-ATTGAAATACCCT
56815992 TGTAGTGTAA
Statistics
Matches: 155, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
79 48 0.31
80 95 0.61
81 12 0.08
ACGTcount: A:0.39, C:0.18, G:0.10, T:0.34
Consensus pattern (80 bp):
AAATTATTGAAATACCCTCTATTTGTAAAATTATGAAATACCCTCGATTTGTAAAATTACCGAAA
TACCCTCGATTTGTA
Found at i:56816000 original size:28 final size:28
Alignment explanation
Indices: 56815969--56816058 Score: 85
Period size: 27 Copynumber: 3.3 Consensus size: 28
56815959 ACCCCCGATT
*
56815969 TGTAAAATTAATAGAAATACCCTTGTAG
1 TGTAAAATTACTAGAAATACCCTTGTAG
* * * *
56815997 TGTAAATTTGCCA-AAATACCCTTATAG
1 TGTAAAATTACTAGAAATACCCTTGTAG
* * *
56816024 TGTAAAATGACT-GACATACCCCTGTAG
1 TGTAAAATTACTAGAAATACCCTTGTAG
*
56816051 GGTAAAAT
1 TGTAAAAT
56816059 GACTGTTTTG
Statistics
Matches: 48, Mismatches: 13, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
27 39 0.81
28 9 0.19
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (28 bp):
TGTAAAATTACTAGAAATACCCTTGTAG
Found at i:56823290 original size:26 final size:26
Alignment explanation
Indices: 56823254--56823306 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
56823244 CCACCATCCC
56823254 AGATAGGGTCTTACTCGCACACATAT
1 AGATAGGGTCTTACTCGCACACATAT
56823280 AGATAGGGTCTTACTCGCACACATAT
1 AGATAGGGTCTTACTCGCACACATAT
56823306 A
1 A
56823307 TCGGAGTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (26 bp):
AGATAGGGTCTTACTCGCACACATAT
Found at i:56823439 original size:56 final size:56
Alignment explanation
Indices: 56823286--56823439 Score: 200
Period size: 56 Copynumber: 2.8 Consensus size: 56
56823276 ATATAGATAG
* *
56823286 GGTCTTACTCGCACACATATATCGGAGTCACATATCGATACCAACGTACAAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTACAAAACGT
** * * * *
56823342 GGTCTTACTCATACACATATATCGGAATCACAAATCAATGCCAACGTATAAAATGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTACAAAACGT
* ** *
56823398 GGTCTTACTCGCACATATATATCAAAATCACATGTCGATGCC
1 GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCC
56823440 TCATATACAT
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 82 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCGATGCCAACGTACAAAACGT
Found at i:56827803 original size:40 final size:40
Alignment explanation
Indices: 56827746--56827844 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
56827736 TTGAATGATG
* * *
56827746 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTAC-AAGTGACCAAA
* * *
56827786 TCCGGACTAAGATCCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTACAAGTGACCAAA
56827826 TCCGGACTAAGATCCGAAG
1 TCCGGACTAAGATCCGAAG
56827845 TGTAACACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
40 44 0.86
41 7 0.14
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.23
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTACAAGTGACCAAA
Found at i:56829225 original size:27 final size:27
Alignment explanation
Indices: 56829195--56829372 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
56829185 ATATTGAGTC
* *
56829195 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
56829222 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
56829249 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
56829277 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
56829304 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * * *
56829331 TGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
56829358 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56829373 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:56831227 original size:40 final size:40
Alignment explanation
Indices: 56831172--56831303 Score: 212
Period size: 40 Copynumber: 3.3 Consensus size: 40
56831162 GGCTGTTACA
56831172 CGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCC
* *
56831212 CGAAGGCATTTGTGCGAGTTACTAAATCTGGGTCAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCC
* *
56831252 CGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCC
1 CGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCC
56831292 CGAAGGCATTTG
1 CGAAGGCATTTG
56831304 AACGAGTAGC
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
40 83 0.98
41 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCC
Found at i:56839296 original size:120 final size:120
Alignment explanation
Indices: 56839064--56839322 Score: 280
Period size: 120 Copynumber: 2.2 Consensus size: 120
56839054 TTGAATGATG
* *
56839064 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
56839129 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTACGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
* * * *
56839184 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGG-GTCAAG-TCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACT-AAGAT-CCGAAGGCA
* * * *
56839246 TTTGTGCGAGATACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATA
63 TTTGTACGAGATACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAA
* *
56839304 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56839323 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
119 19 0.16
120 90 0.76
121 9 0.08
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:56839303 original size:40 final size:40
Alignment explanation
Indices: 56839064--56839289 Score: 282
Period size: 40 Copynumber: 5.7 Consensus size: 40
56839054 TTGAATGATG
* * * *
56839064 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
56839104 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56839144 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56839184 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56839224 TCCGGG-TCAAGTCCCGAAGGCATTTGTGCGAGATACTATAA
1 TCCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56839265 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56839290 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
39 2 0.01
40 157 0.93
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56849870 original size:38 final size:38
Alignment explanation
Indices: 56849819--56849893 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
56849809 AATGGTAAGA
*
56849819 TACTTTATCAAACTGTCTTTCAAGTACACTGATACTGG
1 TACTTTATCAAACTGTCTTTCAAGTACACGGATACTGG
56849857 TACTTTATCAAACTGTCTTTCAAGTACACGGATACTG
1 TACTTTATCAAACTGTCTTTCAAGTACACGGATACTG
56849894 TTAATAATCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.36
Consensus pattern (38 bp):
TACTTTATCAAACTGTCTTTCAAGTACACGGATACTGG
Found at i:56851380 original size:24 final size:24
Alignment explanation
Indices: 56851348--56851398 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
56851338 AATTTTATGA
56851348 CATAGCATTTTTGGTAAGGCAAAG
1 CATAGCATTTTTGGTAAGGCAAAG
56851372 CATAGCATTTTTGGTAAGGCAAAG
1 CATAGCATTTTTGGTAAGGCAAAG
56851396 CAT
1 CAT
56851399 TATATAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (24 bp):
CATAGCATTTTTGGTAAGGCAAAG
Found at i:56855909 original size:26 final size:26
Alignment explanation
Indices: 56855866--56855923 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
56855856 AAAAATTTAA
**
56855866 AATATAAAAATGCTAAAGATAGTTTTT
1 AATATAAAAA-GCTAAAGATAGAATTT
56855893 AATATAAAAA-CTAAAAGATAGAATTT
1 AATATAAAAAGCT-AAAGATAGAATTT
56855919 AATAT
1 AATAT
56855924 TTCAACATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 16 0.57
27 10 0.36
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (26 bp):
AATATAAAAAGCTAAAGATAGAATTT
Found at i:56857185 original size:22 final size:22
Alignment explanation
Indices: 56857143--56857186 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56857133 TGTATAAACC
* *
56857143 AAATAAACTTTATTTCAGTAAA
1 AAATAAACTTAATATCAGTAAA
*
56857165 AAATAAACTTAATATCTGTAAA
1 AAATAAACTTAATATCAGTAAA
56857187 CTGAAATAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (22 bp):
AAATAAACTTAATATCAGTAAA
Found at i:56859846 original size:12 final size:12
Alignment explanation
Indices: 56859829--56859858 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
56859819 AAAGATAATG
56859829 GTATATATATAT
1 GTATATATATAT
56859841 GTATATATATAT
1 GTATATATATAT
56859853 GTATAT
1 GTATAT
56859859 TTATCCCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (12 bp):
GTATATATATAT
Found at i:56867106 original size:26 final size:26
Alignment explanation
Indices: 56867058--56867110 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
56867048 TATTTTGATG
*
56867058 TTTTATACAACATTTTGTTTATATAT
1 TTTTATACAACATTTTGTATATATAT
56867084 TTTTATAC-ACATTTATGTATATATAT
1 TTTTATACAACATTT-TGTATATATAT
56867110 T
1 T
56867111 AATTTAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTATACAACATTTTGTATATATAT
Found at i:56880122 original size:137 final size:137
Alignment explanation
Indices: 56879977--56880726 Score: 1180
Period size: 137 Copynumber: 5.5 Consensus size: 137
56879967 CAGATCTCCT
*
56879977 TGAAGTTTCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
1 TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
* * * *
56880042 AGATAGCAAATTTTATTTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTATAAACCACAAATCTC
66 AGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
56880107 ATCTC-C
131 ATCTCTC
* * * *
56880113 TTGAAGTTTCAGTGGAGTAGATCAACACAAGTCTTATCTCTCTGAAGTTGCAATGGAGCAGACTA
1 -TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTA
* * *
56880178 AAGAAAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAACCACAGATAT
65 AAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCT
56880243 CATCTCTC
130 CATCTCTC
*
56880251 TGAAGTTGCAATAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
1 TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
*
56880316 AGATAGCAAATCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
66 AGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
56880381 ATCTCTC
131 ATCTCTC
* * * *
56880388 TGAAGTTACAGTAGGGTAGATCAACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAA
1 TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
*
56880453 AGATAGCAAATCTTATTTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
66 AGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
*
56880518 ATCTCTA
131 ATCTCTC
* * *
56880525 TGATGTTGCAGTAGAGTATATCACCACAAGTCTTATCTC-CTTGAAGTTGCAGTGGAGCAGACTA
1 TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCAC-TGAAGTTGCAGTGGAGCAGACTA
* * * *
56880589 AAGGTCGCAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAACCATAGATCT
65 AAGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCT
56880654 CATCTCTC
130 CATCTCTC
* * * * *
56880662 TAAAGTTGCAGTAGAGTAGATCAACACAGGTCATATCTCCCTGAAGTTGCAGTGAAGCAGACTAA
1 TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
56880727 TGATGCAGTA
Statistics
Matches: 566, Mismatches: 44, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
136 1 0.00
137 563 0.99
138 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (137 bp):
TGAAGTTGCAGTAGAGTAGATCAACACAAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAA
AGATAGCAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTC
ATCTCTC
Found at i:56880203 original size:45 final size:45
Alignment explanation
Indices: 56880007--56880630 Score: 247
Period size: 45 Copynumber: 13.7 Consensus size: 45
56879997 TCAACACAAG
* *
56880007 TCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
* * * * * *
56880052 TTTTATTTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTATAAACCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA---AGAAA--GCAAA
* * * * * * *
56880103 TCTCATCTCCTTGAAGTTTCAGTGGAGTAGA-T-CA-ACA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
* *
56880144 TCTTATCTCTCTGAAGTTGCAATGGAGCAGACTAAAGAAAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
* * * * * *
56880189 TCTTATTTCCCTGAAGTTGCAGTGGAACAAATTGAAGCTATAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA---AGAAAGCA-A-A
* * * * * * * * *
56880240 TATCATCTCTCTGAAGTTGCAATAGAGTAGA-T-CA-ACA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
* *
56880281 TCTTATCTCACTGAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
* * * * * *
56880326 TCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA---AGAAAGCA-A-A
* * * * * * *
56880377 TCTCATCTCTCTGAAGTTACAGTAGG-GTAGA-T-CA-ACA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGT-GGAGCAGACTAAAGAAAGCAAA
* *
56880418 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTAAAGATAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
* * * * * *
56880463 TCTTATTTCCTTGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AA---AGAAAGCA-A-A
* ** * * * * * ** *
56880514 TCTCATCTCTATGATGTTGCAGTAGAGTATA-T-CA-CCA-CAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
* ***
56880555 TCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGGTCGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
* * *
56880600 TCTTATTTCCCTGAAGTTGTAGTGGAACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
56880631 TTGAAGCTAT
Statistics
Matches: 418, Mismatches: 119, Indels: 84
0.67 0.19 0.14
Matches are distributed among these distances:
40 2 0.00
41 100 0.24
42 7 0.02
43 10 0.02
44 13 0.03
45 154 0.37
46 8 0.02
49 19 0.05
50 7 0.02
51 96 0.23
52 2 0.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGAAAGCAAA
Found at i:56880765 original size:62 final size:62
Alignment explanation
Indices: 56880668--56880788 Score: 179
Period size: 62 Copynumber: 2.0 Consensus size: 62
56880658 TCTCTAAAGT
* *** *
56880668 TGCAGTAGAGTAGATCAACACAGGTCATATCTCCCTGAAGTTGCAGTGAAGCAGACTAATGA
1 TGCAGTAGAGCAGATCAACACAAACCATATCTCCCTGAAGTCGCAGTGAAGCAGACTAATGA
* *
56880730 TGCAGTAGAGCAGATCAACACAAACCTTATCTCCCTGAAGTCGCAGTGGAGCAGACTAA
1 TGCAGTAGAGCAGATCAACACAAACCATATCTCCCTGAAGTCGCAGTGAAGCAGACTAA
56880789 AGATAGCAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (62 bp):
TGCAGTAGAGCAGATCAACACAAACCATATCTCCCTGAAGTCGCAGTGAAGCAGACTAATGA
Found at i:56880908 original size:199 final size:199
Alignment explanation
Indices: 56880531--56880912 Score: 539
Period size: 199 Copynumber: 1.9 Consensus size: 199
56880521 TCTATGATGT
* * * ** * * * *
56880531 TGCAGTAGAGTATATCACCACAAGTCTTATCTCCTTGAAGTTGCAGTGGAGCAGACTAAAGGTCG
1 TGCAGTAGAGCAGATCAACACAAACCTTATCTCCCTGAAGTCGCAGTGGAGCAGACTAAAGATAG
* * * *
56880596 CAAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGCTATAAACCATAGATCTCATCTCT
66 CAAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCT
* * ***
56880661 CTAAAGTTGCAGTAGAGTAGATCAACACAGGTCATATCTCCCTGAAGTTGCAGTGAAGCAGACTA
131 CTAAAGTTGCAGTAGAGCAGATCAAAACAAAACATATCTCCCTGAAGTTGCAGTGAAGCAGACTA
56880726 ATGA
196 ATGA
56880730 TGCAGTAGAGCAGATCAACACAAACCTTATCTCCCTGAAGTCGCAGTGGAGCAGACTAAAGATAG
1 TGCAGTAGAGCAGATCAACACAAACCTTATCTCCCTGAAGTCGCAGTGGAGCAGACTAAAGATAG
* *
56880795 CAAATCTTATCTCCATGAAGTTGCATTGGAACAGATTGAAGCTATAAATCACAGATCTCATCTCT
66 CAAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCT
* * * * *
56880860 CTGAAGTTGTAGTAGAGCAGATCAAAACAAAACCTATCTTCTTGAAGTTGCAG
131 CTAAAGTTGCAGTAGAGCAGATCAAAACAAAACATATCTCCCTGAAGTTGCAG
56880913 AGGAGCGATA
Statistics
Matches: 158, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
199 158 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (199 bp):
TGCAGTAGAGCAGATCAACACAAACCTTATCTCCCTGAAGTCGCAGTGGAGCAGACTAAAGATAG
CAAATCTTATCTCCATGAAGTTGCAGTGGAACAGATTGAAGCTATAAACCACAGATCTCATCTCT
CTAAAGTTGCAGTAGAGCAGATCAAAACAAAACATATCTCCCTGAAGTTGCAGTGAAGCAGACTA
ATGA
Found at i:56882601 original size:26 final size:26
Alignment explanation
Indices: 56882553--56882605 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
56882543 TATTTTGATG
*
56882553 TTTTATACAACATTTTGTTTATATAT
1 TTTTATACAACATTTTGTATATATAT
56882579 TTTTATAC-ACATTTATGTATATATAT
1 TTTTATACAACATTT-TGTATATATAT
56882605 T
1 T
56882606 AATTTAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTATACAACATTTTGTATATATAT
Found at i:56884814 original size:12 final size:12
Alignment explanation
Indices: 56884783--56884807 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56884773 TTGTGTGTTC
56884783 TTTATTTTATTT
1 TTTATTTTATTT
56884795 TTTATTTTATTT
1 TTTATTTTATTT
56884807 T
1 T
56884808 ATTTTTTTCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:56889185 original size:5 final size:5
Alignment explanation
Indices: 56889175--56889202 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
56889165 TTATGTGTTC
56889175 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT
56889203 TTTCACAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:56890869 original size:24 final size:25
Alignment explanation
Indices: 56890834--56890884 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
56890824 GGTTGTACCT
*
56890834 AAAATATGAATATATA-TTTTTTCA
1 AAAATATAAATATATATTTTTTTCA
56890858 AAAATATAAATATATATTTTTTTCA
1 AAAATATAAATATATATTTTTTTCA
56890883 AA
1 AA
56890885 CTTTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 15 0.60
25 10 0.40
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (25 bp):
AAAATATAAATATATATTTTTTTCA
Found at i:56891191 original size:19 final size:19
Alignment explanation
Indices: 56891163--56891199 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56891153 ATTCAATAAC
56891163 CTATAACTATATATAAATA
1 CTATAACTATATATAAATA
* *
56891182 CTATATCTATCTATAAAT
1 CTATAACTATATATAAAT
56891200 GCAGGGCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.41
Consensus pattern (19 bp):
CTATAACTATATATAAATA
Found at i:56892998 original size:28 final size:28
Alignment explanation
Indices: 56892956--56893022 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
56892946 TGTGTCCCTA
* *
56892956 GCCCGCGTTCTTCACACGGCCTTGACAC
1 GCCCGTGTCCTTCACACGGCCTTGACAC
* *
56892984 GTCCGTGTCCTTCACACGGCCTTGACAT
1 GCCCGTGTCCTTCACACGGCCTTGACAC
56893012 GCCCGTGTCCT
1 GCCCGTGTCCT
56893023 AGCCCTTGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.12, C:0.40, G:0.22, T:0.25
Consensus pattern (28 bp):
GCCCGTGTCCTTCACACGGCCTTGACAC
Found at i:56894112 original size:46 final size:43
Alignment explanation
Indices: 56894013--56894181 Score: 133
Period size: 46 Copynumber: 3.7 Consensus size: 43
56894003 TCAACTTGTA
* * * * *
56894013 GCCGATGCATGTCCCAGACATGTCTTACACTGGCGTACATCTTGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCCT-C-TC-TAAT
**
56894059 GTTGATGCATGTCCCAAACATGTCTTACACTAGCCCTCGTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAG-CCTC-TCT-AAT
*
56894105 GCCGATGCCATGTCCCAAACATGGTCTTAGACTAG-CTCTCATAATGT
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCCTCTC-TAA--T
* *
56894152 GGCCGATGCATGTCCCAGACATGCCTTACA
1 -GCCGATGCATGTCCCAAACATGTCTTACA
56894182 TTAACTCACA
Statistics
Matches: 101, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
45 5 0.05
46 48 0.48
47 30 0.30
48 18 0.18
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.27
Consensus pattern (43 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCCTCTCTAAT
Found at i:56895490 original size:31 final size:31
Alignment explanation
Indices: 56895452--56895520 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 31
56895442 AATAGCGGTG
56895452 TTTTAGATAGTATG-AAAAATCAATAAGGG-TA
1 TTTTAGATAGTA-GCAAAAATCAAT-AGGGATA
56895483 TTTTAGATAGTAGCAAAAATCAATAGGGATA
1 TTTTAGATAGTAGCAAAAATCAATAGGGATA
*
56895514 ATTTAGA
1 TTTTAGA
56895521 CATCATAACT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
30 5 0.14
31 30 0.86
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (31 bp):
TTTTAGATAGTAGCAAAAATCAATAGGGATA
Found at i:56904285 original size:42 final size:43
Alignment explanation
Indices: 56904237--56904341 Score: 122
Period size: 43 Copynumber: 2.5 Consensus size: 43
56904227 TGAGATTTAT
* *
56904237 GTGTAAGACCATGTCTGGGAGACCGACATC-ATATATGATTTC
1 GTGTAAGACCATGTCTGGGACACCGACATCGATATATGATTAC
* * ** * *
56904279 GTGTAAGACCCTGTCTAGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGACACCGACATCGATATATGATTAC
*
56904322 ATGTAAGACCATGTCTGGGA
1 GTGTAAGACCATGTCTGGGA
56904342 TGTTGGCATT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
42 24 0.47
43 27 0.53
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACACCGACATCGATATATGATTAC
Found at i:56904918 original size:24 final size:23
Alignment explanation
Indices: 56904889--56904946 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 23
56904879 AGAATATGAT
56904889 TGAGACTATGGGATTTGTCTTGG
1 TGAGACTATGGGATTTGTCTTGG
56904912 TAGAGACTATGGGATTTGTCTTGG
1 T-GAGACTATGGGATTTGTCTTGG
56904936 TGTAGACTATG
1 TG-AGACTATG
56904947 TGATGGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
23 2 0.06
24 31 0.94
ACGTcount: A:0.21, C:0.09, G:0.33, T:0.38
Consensus pattern (23 bp):
TGAGACTATGGGATTTGTCTTGG
Done.