Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 85 of 259
Found at i:27647594 original size:24 final size:22
Alignment explanation
Indices: 27647533--27647595 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 22
27647523 CTTCTTCACA
27647533 TTCTTTTTCTCTTTCAAACTCTT
1 TTCTTTTTCT-TTTCAAACTCTT
*
27647556 TT-TTATTCTCTTTTTCAATCTCATT
1 TTCTT-TT-TC-TTTTCAAACTC-TT
27647581 TTCTTTTTCATTTTC
1 TTCTTTTTC-TTTTC
27647596 TTTTTGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
22 2 0.06
23 4 0.12
24 18 0.55
25 7 0.21
26 2 0.06
ACGTcount: A:0.13, C:0.22, G:0.00, T:0.65
Consensus pattern (22 bp):
TTCTTTTTCTTTTCAAACTCTT
Found at i:27647607 original size:12 final size:12
Alignment explanation
Indices: 27647576--27647600 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27647566 TTTTTCAATC
27647576 TCATTTTCTTTT
1 TCATTTTCTTTT
27647588 TCATTTTCTTTT
1 TCATTTTCTTTT
27647600 T
1 T
27647601 GTTTTTCAAA
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:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:27647617 original size:12 final size:12
Alignment explanation
Indices: 27647602--27647633 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
27647592 TTTCTTTTTG
27647602 TTTTTCAAAGGC
1 TTTTTCAAAGGC
27647614 TTTTTCAAAGGC
1 TTTTTCAAAGGC
*
27647626 TTCTTCAA
1 TTTTTCAA
27647634 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (12 bp):
TTTTTCAAAGGC
Found at i:27647691 original size:5 final size:5
Alignment explanation
Indices: 27647681--27647737 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
27647671 CTTTTGCCTC
*
27647681 TCTTT TCTTT T-TATT TCATTT TCTTT T-TCT TCTTTT TCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TC-TTT TC-TTT TCTTT
27647728 TCTTT TCTTT
1 TCTTT TCTTT
27647738 GTTTTCTCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 4 0.09
5 26 0.58
6 14 0.31
7 1 0.02
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:27648674 original size:11 final size:12
Alignment explanation
Indices: 27648649--27648689 Score: 50
Period size: 10 Copynumber: 3.5 Consensus size: 12
27648639 ATTAAACACA
*
27648649 TTTTTTTCAGATT
1 TTTTTTTGA-ATT
27648662 TTTTTTT--ATT
1 TTTTTTTGAATT
27648672 TTTTTTTGAATT
1 TTTTTTTGAATT
27648684 TTTTTT
1 TTTTTT
27648690 AACTTGTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 10 0.38
12 9 0.35
13 7 0.27
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.80
Consensus pattern (12 bp):
TTTTTTTGAATT
Found at i:27648674 original size:21 final size:21
Alignment explanation
Indices: 27648648--27648690 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
27648638 CATTAAACAC
*
27648648 ATTTTTTTCAGATTTTTTTTT
1 ATTTTTTTCAGAATTTTTTTT
**
27648669 ATTTTTTTTTGAATTTTTTTT
1 ATTTTTTTCAGAATTTTTTTT
27648690 A
1 A
27648691 ACTTGTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (21 bp):
ATTTTTTTCAGAATTTTTTTT
Found at i:27649992 original size:13 final size:13
Alignment explanation
Indices: 27649974--27650011 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
27649964 TGGTCATCAT
27649974 GGTGTGAACACAA
1 GGTGTGAACACAA
27649987 GGTGTGAACACAA
1 GGTGTGAACACAA
*
27650000 AGTGTGAACACA
1 GGTGTGAACACA
27650012 TGATCAGTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.29, T:0.16
Consensus pattern (13 bp):
GGTGTGAACACAA
Found at i:27661971 original size:17 final size:17
Alignment explanation
Indices: 27661949--27661982 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
27661939 GATAAGCATA
*
27661949 TATTGTCATTGCATTTT
1 TATTGTCATTACATTTT
27661966 TATTGTCATTACATTTT
1 TATTGTCATTACATTTT
27661983 CTTTTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (17 bp):
TATTGTCATTACATTTT
Found at i:27666089 original size:34 final size:34
Alignment explanation
Indices: 27666046--27666112 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
27666036 CTGCACTGAT
*
27666046 ACTGATACTGTTACTG-AACTGGGCTAAGGCCCAC
1 ACTGATACTGGTACTGTAA-TGGGCTAAGGCCCAC
*
27666080 ACTGATACTGGTACTGTGATGGGCTAAGGCCCA
1 ACTGATACTGGTACTGTAATGGGCTAAGGCCCA
27666113 ACTAATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (34 bp):
ACTGATACTGGTACTGTAATGGGCTAAGGCCCAC
Found at i:27672883 original size:12 final size:12
Alignment explanation
Indices: 27672866--27672890 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27672856 TATCAACTCT
27672866 AAACTCTGAATC
1 AAACTCTGAATC
27672878 AAACTCTGAATC
1 AAACTCTGAATC
27672890 A
1 A
27672891 CACTAAGCTC
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:0.44, C:0.24, G:0.08, T:0.24
Consensus pattern (12 bp):
AAACTCTGAATC
Found at i:27677004 original size:38 final size:40
Alignment explanation
Indices: 27676903--27676999 Score: 167
Period size: 40 Copynumber: 2.4 Consensus size: 40
27676893 CTATCTCGGT
*
27676903 ATCACACACTTAGTGCCTCAGATAGCCGAAGCTATTTTGA
1 ATCACACACTTAGTGCCTCAAATAGCCGAAGCTATTTTGA
* *
27676943 ATCGCACACTTAGTGCCTCAAATAGCTGAAGCTATTTTGA
1 ATCACACACTTAGTGCCTCAAATAGCCGAAGCTATTTTGA
27676983 ATCACACACTTAGTGCC
1 ATCACACACTTAGTGCC
27677000 AAATACCATT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (40 bp):
ATCACACACTTAGTGCCTCAAATAGCCGAAGCTATTTTGA
Found at i:27679732 original size:46 final size:46
Alignment explanation
Indices: 27679646--27679771 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
27679636 AACCCGCCCC
* * * * *
27679646 TAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
27679692 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
27679738 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
27679772 TGCTCAACCA
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:27679790 original size:46 final size:45
Alignment explanation
Indices: 27679651--27679790 Score: 131
Period size: 46 Copynumber: 3.0 Consensus size: 45
27679641 GCCCCTAAGC
* * ** * *
27679651 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
27679697 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
27679743 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
27679789 GA
1 GA
27679791 CATGTCACTT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 78 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:27685288 original size:46 final size:45
Alignment explanation
Indices: 27685195--27685280 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
27685185 TACTTTTCAC
* *
27685195 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
* *
27685241 GAACTCGGACTCAACTCAACGAGTTTGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
27685281 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:27701941 original size:29 final size:29
Alignment explanation
Indices: 27701905--27701981 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
27701895 AATCATACTC
*
27701905 ATATGGCCCATTAGGCCCAAATAACCTGT
1 ATATGGCCCATTAGGCCCAAATAACATGT
* * *
27701934 ATATGGCCAATTAGGCCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATAACATGT
*
27701963 ATATGGCCCCTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
27701982 GTCACATTCA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATAACATGT
Found at i:27702208 original size:16 final size:16
Alignment explanation
Indices: 27702187--27702221 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
27702177 GTAGCCAAAC
*
27702187 TTTCAGCTTTTTGGCA
1 TTTCAGCTTTTCGGCA
27702203 TTTCAGCTTTTCGGCA
1 TTTCAGCTTTTCGGCA
27702219 TTT
1 TTT
27702222 TTGGCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.20, G:0.17, T:0.51
Consensus pattern (16 bp):
TTTCAGCTTTTCGGCA
Found at i:27706177 original size:20 final size:20
Alignment explanation
Indices: 27706152--27706191 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
27706142 AATGTTCTTG
27706152 TTGATTTATCTTGAAAATAT
1 TTGATTTATCTTGAAAATAT
27706172 TTGATTTATCTTGAAAATAT
1 TTGATTTATCTTGAAAATAT
27706192 ACTCATTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.50
Consensus pattern (20 bp):
TTGATTTATCTTGAAAATAT
Found at i:27713081 original size:47 final size:47
Alignment explanation
Indices: 27713022--27713143 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
27713012 GCATTGGCAC
27713022 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
27713069 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* * *
27713116 TAAGATAAGGATATCATGTAAGAACATG
1 TAAGACAAGGATACCATGTAAGACCATG
27713144 CCAAGGCATC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:27713264 original size:55 final size:54
Alignment explanation
Indices: 27713130--27713316 Score: 171
Period size: 55 Copynumber: 3.4 Consensus size: 54
27713120 ATAAGGATAT
* * * * *
27713130 CATGTAAGAACATGCCAAGGCATCGCATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAGGAAAC
* * * * **
27713184 CATGTGAGACAAATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGG-TCC
1 CATGTAAGAC-CATGCCAAGGCATGGCATTGATGAGTT-CTATAAGG-AAAGGAAAC
* * * *
27713240 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAAGCAAGGATAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAGGAAAC
* * *
27713293 CACGTAAGACCATGTCAAGACATG
1 CATGTAAGACCATGCCAAGGCATG
27713317 ACAATGGTAA
Statistics
Matches: 107, Mismatches: 22, Indels: 9
0.78 0.16 0.07
Matches are distributed among these distances:
52 4 0.04
53 28 0.26
54 9 0.08
55 45 0.42
56 17 0.16
57 4 0.04
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGAAAGGAAAC
Found at i:27718023 original size:50 final size:50
Alignment explanation
Indices: 27717948--27718173 Score: 201
Period size: 50 Copynumber: 4.5 Consensus size: 50
27717938 TGAATACACG
* * * * *
27717948 TGTGTAGTACTAAGTGTAGGCTACTACGTGTACCATACTATTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGAGTCACA
* * * *
27717998 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACT-TCGA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GACTGTTGAGTCACA
* * * * * *
27718049 TGTGTAGTACTAAGTGTAGGCTACTATGTGTATCAGA-TGGTGGGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTGAGTCACA
* * * *
27718099 TGTGTAGTACTAAGTGCAAGCTACTACATGTA-CAGGATTGTTG-GTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GACTGTTGAGTCACA
27718148 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
27718174 TGCGTATTAG
Statistics
Matches: 147, Mismatches: 21, Indels: 17
0.79 0.11 0.09
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 34 0.23
50 69 0.47
51 35 0.24
52 3 0.02
53 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGAGTCACA
Found at i:27718303 original size:27 final size:26
Alignment explanation
Indices: 27718273--27718324 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
27718263 GGGAAAATCG
27718273 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
27718300 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
27718325 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:27724385 original size:27 final size:27
Alignment explanation
Indices: 27724327--27724378 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
27724317 GGTTTATGAT
27724327 ATGATTTCATGATTGAGTGAAAATTCG
1 ATGATTTCATGATTGAGTGAAAATTCG
27724354 ATGATTTCATGATTGAGTGAAAATT
1 ATGATTTCATGATTGAGTGAAAATT
27724379 TCGTGATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (27 bp):
ATGATTTCATGATTGAGTGAAAATTCG
Found at i:27725653 original size:49 final size:48
Alignment explanation
Indices: 27725480--27725655 Score: 187
Period size: 51 Copynumber: 3.5 Consensus size: 48
27725470 TGACTACACG
* * *
27725480 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCACACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCA-A-TGTTAGGTCACA
* * *
27725530 TGTGTAGTACTAAGTGCAGGCTAC-A-ATGCGTACTCAATGACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACAT--GTAC-CAATG--TTAGGTCACA
*
27725581 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGGATTGTT-GGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACC--AATGTTAGGTCACA
27725630 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
27725656 TGCGTATCAG
Statistics
Matches: 108, Mismatches: 9, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
48 1 0.01
49 34 0.31
50 32 0.30
51 35 0.32
52 4 0.04
53 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAATGTTAGGTCACA
Found at i:27735306 original size:46 final size:46
Alignment explanation
Indices: 27735239--27735413 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
27735229 AACCCGCCCC
* * *
27735239 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCA
* * * *
27735285 TAAGTGAACTTGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTAGCATCCA
* * ** *
27735331 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCA
27735378 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
27735414 CTCAACCATC
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 2 0.02
46 67 0.64
47 33 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCA
Found at i:27735351 original size:93 final size:93
Alignment explanation
Indices: 27735244--27735414 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
27735234 GCCCCTAAGT
*** *
27735244 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTTGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27735309 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
27735337 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27735402 CGAGTTCGGATGC
66 CGAGTTCGGATGC
27735415 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:27742943 original size:93 final size:93
Alignment explanation
Indices: 27742834--27743004 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
27742824 GCCCCTAAGT
* * *
27742834 GAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27742899 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
27742927 GAACTGAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
27742992 CGAGTTCGGATGC
66 CGAGTTCGGATGC
27743005 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:27742994 original size:46 final size:46
Alignment explanation
Indices: 27742829--27743001 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
27742819 AACCCGCCCC
* * * * * *
27742829 TAAGTGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
27742875 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
27742923 TCA-CGAACT-GAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCG-GACTCAACTCAACGAGTTCGGACATTTGCATCCA
27742968 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
27743002 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 58 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 4 0.04
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:27753629 original size:46 final size:46
Alignment explanation
Indices: 27753579--27753754 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
27753569 TGGTTGAGCA
*
27753579 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
27753625 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * * **
27753670 CATCCGAACTCATTGAGTTGAGTCTGATTTCACTTATGGATGCAAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
27753718 CCCGAGCTCGTTTAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
27753755 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 61 0.59
47 27 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:27753735 original size:93 final size:93
Alignment explanation
Indices: 27753576--27753747 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
27753566 GGATGGTTGA
* * ***
27753576 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
27753641 TGAGTCCGAGTTCATGAAATGTAACTAG
66 TGAGTCCGAGTTCATGAAATGTAACTAG
* * * *
27753669 GCATCCGAACTCATTGAGTTGAGTCTGATTTCACTTATGGATGCAAACACCCGAGCTCGTTTAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
27753734 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
27753748 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAAATGTAACTAG
Found at i:27757780 original size:17 final size:17
Alignment explanation
Indices: 27757746--27757780 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
27757736 CGCCATGCAA
27757746 TCCCTATTTTTAGTTTT
1 TCCCTATTTTTAGTTTT
*
27757763 TCCCATATTTTTTGTTTT
1 TCCC-TATTTTTAGTTTT
27757781 GTTTTAGATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.11, C:0.17, G:0.06, T:0.66
Consensus pattern (17 bp):
TCCCTATTTTTAGTTTT
Found at i:27759973 original size:15 final size:17
Alignment explanation
Indices: 27759955--27759986 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
27759945 TAGCATATTT
27759955 TACCAAA-TCA-ATTCA
1 TACCAAACTCACATTCA
27759970 TACCAAACTCACATTCA
1 TACCAAACTCACATTCA
27759987 CAAGTATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (17 bp):
TACCAAACTCACATTCA
Found at i:27766334 original size:21 final size:21
Alignment explanation
Indices: 27766310--27766356 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
27766300 AACTTTACGT
27766310 ACATACCTGTACGAACTCGTA
1 ACATACCTGTACGAACTCGTA
27766331 ACATACCTGTACGAACTCGTA
1 ACATACCTGTACGAACTCGTA
27766352 ACATA
1 ACATA
27766357 GTCATATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (21 bp):
ACATACCTGTACGAACTCGTA
Found at i:27766620 original size:42 final size:42
Alignment explanation
Indices: 27766460--27766621 Score: 128
Period size: 42 Copynumber: 3.8 Consensus size: 42
27766450 CAAGACGCCA
* ** * * *
27766460 ATGCCATATCCCAGATATGGTCTTACATGGGATCACATTTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCATATATCG
* * * **
27766502 ATGCCGATAGCCTAGCTATGGTCTTACACGATGTC-TCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCAT-ATATCG
* * * * * * *
27766545 ATGTCATGTCTCAAACATGGTCTTATACAAAATCATATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCATATATCG
*
27766587 ATGCCATATCCCAGATATGGTCTTACATGAAATCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCA
27766622 CACATAACCC
Statistics
Matches: 87, Mismatches: 30, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
42 56 0.64
43 31 0.36
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCATATATCG
Found at i:27771904 original size:17 final size:17
Alignment explanation
Indices: 27771882--27771916 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
27771872 TGAAAATAGG
27771882 CTCATTAAGAATATTAA
1 CTCATTAAGAATATTAA
*
27771899 CTCATTAAGAATTTTAA
1 CTCATTAAGAATATTAA
27771916 C
1 C
27771917 CCCTAAGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (17 bp):
CTCATTAAGAATATTAA
Found at i:27773867 original size:49 final size:50
Alignment explanation
Indices: 27773787--27774032 Score: 289
Period size: 49 Copynumber: 4.9 Consensus size: 50
27773777 AGCTATTGTG
* *
27773787 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * ** * *
27773837 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGAAAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
27773887 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
27773937 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
27773987 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
27774033 GCTTCGGCTA
Statistics
Matches: 162, Mismatches: 32, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
49 79 0.49
50 47 0.29
51 36 0.22
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:27776510 original size:42 final size:42
Alignment explanation
Indices: 27776371--27776532 Score: 121
Period size: 42 Copynumber: 3.8 Consensus size: 42
27776361 TAAGATGCCA
* * ** * *
27776371 ATGCCATATCCCAAATATGGTCTTACATGGGATCACATATCA
1 ATGCCATATCCCAAACATGGTCTTACACGAAATCATATATCG
* * ** *
27776413 ATGCCGATAGCCC-AGCTATGGTCTTACACGATGTC-TCATATTG
1 ATGCC-ATATCCCAAAC-ATGGTCTTACACGAAATCAT-ATATCG
* * *
27776456 ATTCCATGTCCCAAACATGGTCTTACACAAAATCATATATCG
1 ATGCCATATCCCAAACATGGTCTTACACGAAATCATATATCG
* * * *
27776498 ATGCCATATCCCAGATATTGTCTTACACTAAATCA
1 ATGCCATATCCCAAACATGGTCTTACACGAAATCA
27776533 CACATAACCC
Statistics
Matches: 91, Mismatches: 24, Indels: 10
0.73 0.19 0.08
Matches are distributed among these distances:
42 60 0.66
43 31 0.34
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAAACATGGTCTTACACGAAATCATATATCG
Found at i:27778248 original size:43 final size:43
Alignment explanation
Indices: 27778196--27778290 Score: 120
Period size: 43 Copynumber: 2.2 Consensus size: 43
27778186 TCCTAGATAG
* * *
27778196 GGTCTTACACGAAATC-GATTAACGATGCCAATGTCCCAAACAT
1 GGTCTTACACGAAATCTCAAT-ACAATGCCAATGTCCCAAACAT
* * *
27778239 GGTCCTACACGTAATCTCAATACAATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAATCTCAATACAATGCCAATGTCCCAAACAT
27778282 GGTCTTACA
1 GGTCTTACA
27778291 TGTAAACACA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 42 0.95
44 2 0.05
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
GGTCTTACACGAAATCTCAATACAATGCCAATGTCCCAAACAT
Found at i:27792102 original size:16 final size:16
Alignment explanation
Indices: 27792081--27792114 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
27792071 AACATTGTTC
27792081 TGGTTCTTAAGATGCT
1 TGGTTCTTAAGATGCT
27792097 TGGTTCTTAAGATGCT
1 TGGTTCTTAAGATGCT
27792113 TG
1 TG
27792115 CTATAGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.44
Consensus pattern (16 bp):
TGGTTCTTAAGATGCT
Found at i:27794342 original size:88 final size:87
Alignment explanation
Indices: 27794179--27794358 Score: 324
Period size: 88 Copynumber: 2.1 Consensus size: 87
27794169 ACATCCAAAA
*
27794179 TCCCGTCGCAAATTATTGATATTCCAAACTTAAACACGTATTATCTCTCTAGAGTTCAAATCACT
1 TCCCTTCGCAAATTATTGATATTCCAAACTTAAACACGTATTATCTCTCTAGAGTTCAAATCACT
*
27794244 TGGTTCTCAACTTTTGTTGTGT
66 TGGTTCTCAACATTTGTTGTGT
*
27794266 TCCCTTCGCAAATTGATTGATATTCCAAACTTAAACACGTATTATCTCTCTAGAGTTCAGATCAC
1 TCCCTTCGCAAATT-ATTGATATTCCAAACTTAAACACGTATTATCTCTCTAGAGTTCAAATCAC
27794331 TTGGTTCTCAACATTTGTTGTGT
65 TTGGTTCTCAACATTTGTTGTGT
27794354 TCCCT
1 TCCCT
27794359 GGTAGGAAAA
Statistics
Matches: 89, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
87 13 0.15
88 76 0.85
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.39
Consensus pattern (87 bp):
TCCCTTCGCAAATTATTGATATTCCAAACTTAAACACGTATTATCTCTCTAGAGTTCAAATCACT
TGGTTCTCAACATTTGTTGTGT
Found at i:27797594 original size:14 final size:15
Alignment explanation
Indices: 27797575--27797613 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
27797565 TAAGTAAAAA
27797575 ATAATATAAA-ATTT
1 ATAATATAAACATTT
27797589 ATAATATATAACATTT
1 ATAATATA-AACATTT
27797605 ATAA-ATAAA
1 ATAATATAAA
27797614 GTTTTATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 10 0.43
15 5 0.22
16 8 0.35
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATATAAACATTT
Found at i:27797597 original size:16 final size:16
Alignment explanation
Indices: 27797578--27797608 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
27797568 GTAAAAAATA
27797578 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
27797594 ATATAACATTTATAA
1 ATATAAAATTTATAA
27797609 ATAAAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:27801249 original size:26 final size:26
Alignment explanation
Indices: 27801202--27801253 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
27801192 TATCCTCCTA
** *
27801202 TTTGAGTTGGTTGGAGGTCCCTTGAG
1 TTTGAGTTGGTCAGAGGACCCTTGAG
*
27801228 TTTGAGTTGGTCAGATGACCCTTGAG
1 TTTGAGTTGGTCAGAGGACCCTTGAG
27801254 GTTAAACTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.15, C:0.13, G:0.35, T:0.37
Consensus pattern (26 bp):
TTTGAGTTGGTCAGAGGACCCTTGAG
Found at i:27802692 original size:13 final size:13
Alignment explanation
Indices: 27802668--27802703 Score: 51
Period size: 11 Copynumber: 3.0 Consensus size: 13
27802658 ATATATTTTT
27802668 TAAAAAATT-ATA
1 TAAAAAATTAATA
27802680 T-AAAAA-TAATA
1 TAAAAAATTAATA
27802691 TAAAAAATTAATA
1 TAAAAAATTAATA
27802704 CAGGCGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.05
11 9 0.43
12 6 0.29
13 5 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAAAAATTAATA
Found at i:27804743 original size:15 final size:16
Alignment explanation
Indices: 27804725--27804754 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27804715 CTGTAAAGAT
27804725 TATACATT-TCATATA
1 TATACATTCTCATATA
27804740 TATACATTCTCATAT
1 TATACATTCTCATAT
27804755 CTCTTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:27811945 original size:15 final size:16
Alignment explanation
Indices: 27811925--27811954 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27811915 CTGTAAAGAT
27811925 TATACATT-TCATATA
1 TATACATTCTCATATA
27811940 TATACATTCTCATAT
1 TATACATTCTCATAT
27811955 CTCTTACTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.17, G:0.00, T:0.47
Consensus pattern (16 bp):
TATACATTCTCATATA
Found at i:27821102 original size:3 final size:3
Alignment explanation
Indices: 27821096--27821300 Score: 99
Period size: 3 Copynumber: 69.3 Consensus size: 3
27821086 TACTACTACC
* * * *
27821096 AAT AAT AAT AAT AGTT AA- AA- AAT AAT AAT ACT AGT AAT AGT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
27821140 TAC AAC AAT GAT AA- AAGT AAT AA- AAT AA- GAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
27821183 -AT CAAT AAT AAT AA- AAGT AAA AGAT AA- AAT AGT AAT AAT AAT AAT
1 AAT -AAT AAT AAT AAT AA-T AAT A-AT AAT AAT AAT AAT AAT AAT AAT
* ** * *
27821228 AAC AAT AAT AAGT -AT GTT AAT AAT AGT AAT AAT AAC AAT AAT ACA-
1 AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT
*
27821273 AAT AAT AAT -AT ATAT AAA AAT AAT AAT A
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT A
27821301 GTTAGAAATA
Statistics
Matches: 154, Mismatches: 30, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
2 19 0.12
3 120 0.78
4 15 0.10
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:27821394 original size:21 final size:21
Alignment explanation
Indices: 27821370--27821414 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27821360 AAATACAAGT
* *
27821370 ATAATAATAATGGTAATAAAA
1 ATAAAAATAATAGTAATAAAA
*
27821391 ATAAAAATAATAGTAATAATA
1 ATAAAAATAATAGTAATAAAA
27821412 ATA
1 ATA
27821415 CGTTAAGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
ATAAAAATAATAGTAATAAAA
Found at i:27823340 original size:20 final size:20
Alignment explanation
Indices: 27823315--27823353 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
27823305 AAACGTTAAC
*
27823315 ATGATTAATAATAATAATAA
1 ATGATTAATAATAAAAATAA
*
27823335 ATGATTATTAATAAAAATA
1 ATGATTAATAATAAAAATA
27823354 TGACGGGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
ATGATTAATAATAAAAATAA
Found at i:27826267 original size:41 final size:41
Alignment explanation
Indices: 27826122--27826335 Score: 245
Period size: 41 Copynumber: 5.2 Consensus size: 41
27826112 CAGAGCAATA
* * *
27826122 GCCGCTAAAAACCAGAGCATTAGCGACGTTTTTCGCTAAAAC
1 GCCGCTAAAAACCAGAGCATTAGCGGCG-CTTTCGATAAAAC
* * * * * *
27826164 GCCGCTAAAAA-TAGAGCAATAGGGGTGCTTTCGGTAAAAT
1 GCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAAC
* *
27826204 GCCACT-AAAACCAAAGCATTAGCGGCGCTTTC-AGTAAAAC
1 GCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGA-TAAAAC
*
27826244 GCCGCTAAAAACCAGAGCATTAGCAGCGCTTTCGATAAAAC
1 GCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAAC
* * *
27826285 GCCACTAAAAACTAGAGCATTAGTGGCGCTTTCGATAAAAC
1 GCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAAC
*
27826326 TCCGCTAAAA
1 GCCGCTAAAA
27826336 GTCATATAAC
Statistics
Matches: 143, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
39 4 0.03
40 41 0.29
41 86 0.60
42 12 0.08
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (41 bp):
GCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAAC
Found at i:27826275 original size:81 final size:81
Alignment explanation
Indices: 27826126--27826335 Score: 253
Period size: 81 Copynumber: 2.6 Consensus size: 81
27826116 GCAATAGCCG
* * * * ** *
27826126 CTAAAAACCAGAGCATTAGCGACGTTTTTCGCTAAAACGCCGCTAAAAATAGAGCAATAGGGGTG
1 CTAAAAACCAGAGCATTAGCGGCG-CTTTCGATAAAACGCCGCTAAAAACAGAGCAATAGCAGCG
* *
27826191 CTTTCGGTAAAATGCCA
65 CTTTCGATAAAACGCCA
* *
27826208 CT-AAAACCAAAGCATTAGCGGCGCTTTC-AGTAAAACGCCGCTAAAAACCAGAGCATTAGCAGC
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCGA-TAAAACGCCGCTAAAAA-CAGAGCAATAGCAGC
27826271 GCTTTCGATAAAACGCCA
64 GCTTTCGATAAAACGCCA
* * *
27826289 CTAAAAACTAGAGCATTAGTGGCGCTTTCGATAAAACTCCGCTAAAA
1 CTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAA
27826336 GTCATATAAC
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
80 21 0.19
81 47 0.43
82 40 0.37
83 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (81 bp):
CTAAAAACCAGAGCATTAGCGGCGCTTTCGATAAAACGCCGCTAAAAACAGAGCAATAGCAGCGC
TTTCGATAAAACGCCA
Found at i:27826424 original size:24 final size:23
Alignment explanation
Indices: 27826393--27826445 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
27826383 AATCTATAAC
27826393 CCCT-AAAACACTAAACCCTTAAA
1 CCCTAAAAACACTAAACCC-TAAA
* *
27826416 CCTTAAAAACTCTAAACCCTAAA
1 CCCTAAAAACACTAAACCCTAAA
27826439 CCCTAAA
1 CCCTAAA
27826446 CTATAACCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (23 bp):
CCCTAAAAACACTAAACCCTAAA
Found at i:27826470 original size:29 final size:29
Alignment explanation
Indices: 27826368--27826474 Score: 85
Period size: 29 Copynumber: 3.6 Consensus size: 29
27826358 AAACCACAAA
* * * *
27826368 AAAATCATAAACACTAATCTATAACCCCT
1 AAAATCCTAAACCCTAAACTATAACCCTT
**
27826397 AAAA-CACTAAACCCTTAAACCT-TAAAAACTCT
1 AAAATC-CTAAACCC-TAAA-CTAT-AACCCT-T
*
27826429 -AAACCCTAAACCCTAAACTATAACCCTT
1 AAAATCCTAAACCCTAAACTATAACCCTT
27826457 AAAATCCTAAACCCTAAA
1 AAAATCCTAAACCCTAAA
27826475 AAACATCATA
Statistics
Matches: 61, Mismatches: 9, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
28 2 0.03
29 32 0.52
30 9 0.15
31 16 0.26
32 2 0.03
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (29 bp):
AAAATCCTAAACCCTAAACTATAACCCTT
Found at i:27826474 original size:7 final size:7
Alignment explanation
Indices: 27826393--27826474 Score: 51
Period size: 7 Copynumber: 11.0 Consensus size: 7
27826383 AATCTATAAC
27826393 CCCTAAAA
1 CCCT-AAA
*
27826401 CACTAAA
1 CCCTAAA
27826408 CCCTTAAA
1 CCC-TAAA
*
27826416 CCTTAAAAA
1 CCCT--AAA
*
27826425 CTCTAAA
1 CCCTAAA
27826432 CCCTAAA
1 CCCTAAA
27826439 CCCTAAA
1 CCCTAAA
27826446 --CTATAA
1 CCCTA-AA
27826452 CCCTTAAAA
1 CCC-T-AAA
*
27826461 TCCTAAA
1 CCCTAAA
27826468 CCCTAAA
1 CCCTAAA
27826475 AAACATCATA
Statistics
Matches: 58, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
5 3 0.05
6 2 0.03
7 31 0.53
8 11 0.19
9 10 0.17
10 1 0.02
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.21
Consensus pattern (7 bp):
CCCTAAA
Found at i:27826593 original size:7 final size:7
Alignment explanation
Indices: 27826582--27826645 Score: 58
Period size: 7 Copynumber: 9.0 Consensus size: 7
27826572 TTTATTTTTG
*
27826582 GGTTTAG
1 GGTTTAA
27826589 GGTTTAA
1 GGTTTAA
**
27826596 TATTTAA
1 GGTTTAA
27826603 GGTTTAA
1 GGTTTAA
*
27826610 GGTTTAT
1 GGTTTAA
27826617 GGTTT-A
1 GGTTTAA
*
27826623 GGTTTTTAT
1 GG--TTTAA
27826632 GGTTTAA
1 GGTTTAA
27826639 GGTTTAA
1 GGTTTAA
27826646 TGACCATGGG
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
6 2 0.04
7 38 0.84
8 3 0.07
9 2 0.04
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (7 bp):
GGTTTAA
Found at i:27826632 original size:15 final size:16
Alignment explanation
Indices: 27826598--27826643 Score: 62
Period size: 15 Copynumber: 3.1 Consensus size: 16
27826588 GGGTTTAATA
*
27826598 TTTAAGGTTTAAGG--
1 TTTATGGTTTAAGGTT
27826612 TTTATGGTTT-AGGTT
1 TTTATGGTTTAAGGTT
27826627 TTTATGGTTTAAGGTT
1 TTTATGGTTTAAGGTT
27826643 T
1 T
27826644 AATGACCATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 3 0.11
14 9 0.32
15 10 0.36
16 6 0.21
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (16 bp):
TTTATGGTTTAAGGTT
Found at i:27832968 original size:24 final size:23
Alignment explanation
Indices: 27832941--27833009 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 23
27832931 CAAACACATT
27832941 CTACCATTGTTTCTAATCTCACCG
1 CTACCA-TGTTTCTAATCTCACCG
*
27832965 CTA-CA-GTATCTAATCTCACCG
1 CTACCATGTTTCTAATCTCACCG
* * * *
27832986 CCACCACTATTTTTAACCTCACCG
1 CTACCA-TGTTTCTAATCTCACCG
27833010 GAGGTAAACA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
21 17 0.47
22 2 0.06
23 2 0.06
24 15 0.42
ACGTcount: A:0.25, C:0.36, G:0.07, T:0.32
Consensus pattern (23 bp):
CTACCATGTTTCTAATCTCACCG
Found at i:27835482 original size:8 final size:8
Alignment explanation
Indices: 27835471--27835502 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
27835461 CTAGATCGGT
27835471 AAAAGCCG
1 AAAAGCCG
27835479 AAAAGCCG
1 AAAAGCCG
*
27835487 AAATGCCG
1 AAAAGCCG
27835495 AAAAGCCG
1 AAAAGCCG
27835503 GCATTTCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:27837766 original size:31 final size:31
Alignment explanation
Indices: 27837731--27837846 Score: 205
Period size: 31 Copynumber: 3.7 Consensus size: 31
27837721 AAAAACGCCT
27837731 CAAATAGTTTTAGCGGCGCTTAAAAGTGCGA
1 CAAATAGTTTTAGCGGCGCTTAAAAGTGCGA
* *
27837762 CAAATGGTTTTAGCGGCGCTTAAAAGTGCCA
1 CAAATAGTTTTAGCGGCGCTTAAAAGTGCGA
27837793 CAAATAGTTTTAGCGGCGCTTAAAAGTGCGA
1 CAAATAGTTTTAGCGGCGCTTAAAAGTGCGA
*
27837824 CAAATGGTTTTAGCGGCGCTTAA
1 CAAATAGTTTTAGCGGCGCTTAA
27837847 GGCCTAAAAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 80 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (31 bp):
CAAATAGTTTTAGCGGCGCTTAAAAGTGCGA
Found at i:27837911 original size:18 final size:18
Alignment explanation
Indices: 27837888--27837979 Score: 67
Period size: 18 Copynumber: 5.1 Consensus size: 18
27837878 TGCTGTAGTG
*
27837888 TCAGTAGCAATTAGTTAT
1 TCAGTAGCAATCAGTTAT
** * **
27837906 TCAGTAATAATCATTTGC
1 TCAGTAGCAATCAGTTAT
27837924 TCAGTAGCAATCAGTTAT
1 TCAGTAGCAATCAGTTAT
* * * *
27837942 TCAATAACGATCAATTAT
1 TCAGTAGCAATCAGTTAT
* * *
27837960 TTAGTAGCAGTCAGTCAT
1 TCAGTAGCAATCAGTTAT
27837978 TC
1 TC
27837980 GATACTTTTA
Statistics
Matches: 51, Mismatches: 23, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
18 51 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (18 bp):
TCAGTAGCAATCAGTTAT
Found at i:27837966 original size:36 final size:36
Alignment explanation
Indices: 27837888--27837979 Score: 94
Period size: 36 Copynumber: 2.6 Consensus size: 36
27837878 TGCTGTAGTG
* * * * *
27837888 TCAGTAGCAATTAGTTATTCAGTAATAATCATTTGC
1 TCAGTAGCAATCAGTTATTCAATAACAATCAATTAC
* *
27837924 TCAGTAGCAATCAGTTATTCAATAACGATCAATTAT
1 TCAGTAGCAATCAGTTATTCAATAACAATCAATTAC
* * *
27837960 TTAGTAGCAGTCAGTCATTC
1 TCAGTAGCAATCAGTTATTC
27837980 GATACTTTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 46 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (36 bp):
TCAGTAGCAATCAGTTATTCAATAACAATCAATTAC
Found at i:27840278 original size:9 final size:9
Alignment explanation
Indices: 27840264--27840349 Score: 118
Period size: 9 Copynumber: 9.6 Consensus size: 9
27840254 ATAAGTATAA
27840264 AATTAACCG
1 AATTAACCG
27840273 AATTAACCG
1 AATTAACCG
*
27840282 AATTAATCG
1 AATTAACCG
27840291 AATTAACCG
1 AATTAACCG
* *
27840300 AATTACCCA
1 AATTAACCG
* *
27840309 AATTACCCA
1 AATTAACCG
27840318 AATTAACCG
1 AATTAACCG
*
27840327 AATTAACCT
1 AATTAACCG
27840336 AATTAACCG
1 AATTAACCG
27840345 AATTA
1 AATTA
27840350 TTTGTATAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 69 1.00
ACGTcount: A:0.45, C:0.22, G:0.07, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:27840381 original size:6 final size:6
Alignment explanation
Indices: 27840370--27840422 Score: 70
Period size: 6 Copynumber: 8.5 Consensus size: 6
27840360 ATTATATGTT
* *
27840370 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTA GTTTTAGA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA
27840420 TTT
1 TTT
27840423 ATTAAATTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 33 0.80
7 7 0.17
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:27840463 original size:13 final size:13
Alignment explanation
Indices: 27840447--27840471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27840437 AATTTTTATG
27840447 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
27840460 ATTGGGTTGGGT
1 ATTGGGTTGGGT
27840472 TGGGTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:27842944 original size:52 final size:52
Alignment explanation
Indices: 27842882--27842986 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
27842872 TTATAATATG
27842882 TACTTAATTAAATGATATAGCATTAATTTAATAAATGACATGTCATGTTCAC
1 TACTTAATTAAATGATATAGCATTAATTTAATAAATGACATGTCATGTTCAC
27842934 TACTTAATTAAATGATATAGCATTAATTTAATAAATGACATGTCATGTTCAC
1 TACTTAATTAAATGATATAGCATTAATTTAATAAATGACATGTCATGTTCAC
27842986 T
1 T
27842987 TGACTCATTG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (52 bp):
TACTTAATTAAATGATATAGCATTAATTTAATAAATGACATGTCATGTTCAC
Found at i:27842969 original size:23 final size:24
Alignment explanation
Indices: 27842885--27842971 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 24
27842875 TAATATGTAC
27842885 TTAATTAAATGATATAGCATTAAT
1 TTAATTAAATGATATAGCATTAAT
* *
27842909 TTAA-TAAATGACAT-GTCATGTTCACTAC
1 TTAATTAAATGATATAG-CA--TT-A--AT
27842937 TTAATTAAATGATATAGCATTAAT
1 TTAATTAAATGATATAGCATTAAT
27842961 TTAA-TAAATGA
1 TTAATTAAATGA
27842972 CATGTCATGT
Statistics
Matches: 51, Mismatches: 4, Indels: 17
0.71 0.06 0.24
Matches are distributed among these distances:
22 1 0.02
23 18 0.35
24 9 0.18
25 2 0.04
26 2 0.04
27 2 0.04
28 5 0.10
29 11 0.22
30 1 0.02
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (24 bp):
TTAATTAAATGATATAGCATTAAT
Found at i:27847581 original size:8 final size:8
Alignment explanation
Indices: 27847570--27847599 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
27847560 AAAATTTTAA
27847570 AAAAATAT
1 AAAAATAT
27847578 AAAAATTAT
1 AAAAA-TAT
27847587 AAAAATAT
1 AAAAATAT
27847595 AAAAA
1 AAAAA
27847600 AATATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAAATAT
Found at i:27847592 original size:17 final size:17
Alignment explanation
Indices: 27847526--27847599 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
27847516 GCGAAAATTA
*
27847526 ATAAAACTTAATAAAAA-
1 ATAAAAATT-ATAAAAAT
* *
27847543 ATAAAAA--ATAATACT
1 ATAAAAATTATAAAAAT
* *
27847558 ATAAAATTTTAAAAAAAT
1 ATAAAA-ATTATAAAAAT
27847576 ATAAAAATTATAAAAAT
1 ATAAAAATTATAAAAAT
27847593 ATAAAAA
1 ATAAAAA
27847600 AATATTTAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 8
0.72 0.15 0.13
Matches are distributed among these distances:
14 5 0.11
15 6 0.14
17 22 0.50
18 11 0.25
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAAAAATTATAAAAAT
Found at i:27847601 original size:10 final size:10
Alignment explanation
Indices: 27847538--27847604 Score: 52
Period size: 10 Copynumber: 6.9 Consensus size: 10
27847528 AAAACTTAAT
27847538 AAAAAATA-A
1 AAAAAATATA
27847547 AAAATAATACTA
1 AAAA-AATA-TA
* * *
27847559 TAAAATTTTA
1 AAAAAATATA
27847569 AAAAAATAT-
1 AAAAAATATA
27847578 -AAAAAT-TA
1 AAAAAATATA
*
27847586 TAAAAATATA
1 AAAAAATATA
27847596 AAAAAATAT
1 AAAAAATAT
27847605 TTAAATTTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
7 1 0.02
8 6 0.13
9 10 0.22
10 22 0.49
11 2 0.04
12 4 0.09
ACGTcount: A:0.72, C:0.01, G:0.00, T:0.27
Consensus pattern (10 bp):
AAAAAATATA
Found at i:27851015 original size:37 final size:37
Alignment explanation
Indices: 27850955--27851030 Score: 107
Period size: 37 Copynumber: 2.1 Consensus size: 37
27850945 TATTACGAAA
* * *
27850955 TCTTACCCGGACATAATCTCCACACGAAGTTATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
* *
27850992 TCTTACCTGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
27851029 TC
1 TC
27851031 CTTAGAACTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:27851229 original size:47 final size:47
Alignment explanation
Indices: 27851151--27851681 Score: 846
Period size: 47 Copynumber: 11.2 Consensus size: 47
27851141 CCCTTCGGGA
* * * * * *
27851151 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
27851198 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
27851245 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
27851292 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27851339 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27851388 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27851435 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
27851482 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27851530 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27851578 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27851625 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27851673 CTTATCACA
1 CTTATCACA
27851682 ATTTAGAATT
Statistics
Matches: 456, Mismatches: 24, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 273 0.60
48 141 0.31
49 42 0.09
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27851407 original size:143 final size:142
Alignment explanation
Indices: 27851151--27851681 Score: 859
Period size: 143 Copynumber: 3.7 Consensus size: 142
27851141 CCCTTCGGGA
* * * * * * *
27851151 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCT-GTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACA
* *
27851215 CTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
*
27851280 CGGCCATTAAGC
131 CGGCCATTAGGC
** * *
27851292 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTA-TCACATATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCAC--ATATATA
* *
27851356 CACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
64 CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCAC
27851421 ATCGGCCATTAGGC
129 ATCGGCCATTAGGC
27851435 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACA
*
27851500 CTTTCACATTCATCACATCGGCCATTAGGCCTTATTCACATATATACACTTTCACATTCATCACA
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTA-TCACACATATACACTTTCACATTCATCACA
27851565 TCGGCCATTAGGC
130 TCGGCCATTAGGC
*
27851578 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACA
27851643 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
27851682 ATTTAGAATT
Statistics
Matches: 362, Mismatches: 23, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
141 44 0.12
142 46 0.13
143 268 0.74
144 4 0.01
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:27851545 original size:190 final size:188
Alignment explanation
Indices: 27851151--27851681 Score: 846
Period size: 190 Copynumber: 2.8 Consensus size: 188
27851141 CCCTTCGGGA
* * * * * * * *
27851151 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* **
27851216 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
* *
27851281 GGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
131 GGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
* * *
27851339 CTTATCACATATATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTATCACACATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
27851404 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* * *
27851469 TCGGCCATTAGGCCCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 TCGGCCATTAGGCCTTA-TCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
27851530 CTTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACA
27851595 CTTTCACATTCATCACATCGGCCATTAGGCCTTATTCACATATATACACTTTCACATTCATCACA
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTA-TCACATATATACACTTTCACATTCATCACA
27851660 TCGGCCATTAGGCCTTATCACA
129 TCGGCCATTAGGCCTTATCACA
27851682 ATTTAGAATT
Statistics
Matches: 315, Mismatches: 23, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
188 8 0.03
190 213 0.68
191 90 0.29
192 4 0.01
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:27855317 original size:46 final size:44
Alignment explanation
Indices: 27855197--27855330 Score: 119
Period size: 46 Copynumber: 3.0 Consensus size: 44
27855187 AGACGAGAGC
* ** * * * *
27855197 TAGTGTAAGACATGTCTGGGACATGCATAAGCCTCGAGATGGAAGC
1 TAGTGTAAGACATGTCTGGGACCTGCATCGGCATGGAGAT-G-TGT
* *
27855243 CAGTGTCAGACATGTCTGGGACCTGCATCGGCCAT-GAGATGTGT
1 TAGTGTAAGACATGTCTGGGACCTGCATCGG-CATGGAGATGTGT
27855287 TAGTGTAAGAACATGTCTGGG-CCATGGCATCGGCATGGAGATGT
1 TAGTGTAAG-ACATGTCTGGGACC-T-GCATCGGCATGGAGATGT
27855331 AAGAATCAGT
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
44 10 0.14
45 16 0.22
46 45 0.62
47 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.32, T:0.24
Consensus pattern (44 bp):
TAGTGTAAGACATGTCTGGGACCTGCATCGGCATGGAGATGTGT
Found at i:27859316 original size:28 final size:28
Alignment explanation
Indices: 27859276--27859346 Score: 99
Period size: 28 Copynumber: 2.5 Consensus size: 28
27859266 TATGATATTG
* *
27859276 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCAAGTTTAATTATTA-A
*
27859304 GCACTAAGTGTGCAAGTTTGATTATTAA
1 GCACTAAGTGTGCAAGTTTAATTATTAA
27859332 GCACTAAGTGTGCAA
1 GCACTAAGTGTGCAA
27859347 ACTTACTATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTTAATTATTAA
Found at i:27863892 original size:21 final size:21
Alignment explanation
Indices: 27863852--27863890 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27863842 GGACCATGGA
27863852 TAAATCCAAACGACTCTTTCT
1 TAAATCCAAACGACTCTTTCT
*
27863873 TAAATCCAAGCGA-TCTTT
1 TAAATCCAAACGACTCTTT
27863891 TCGTAGGCGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (21 bp):
TAAATCCAAACGACTCTTTCT
Found at i:27868725 original size:28 final size:28
Alignment explanation
Indices: 27868685--27868753 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
27868675 TATGAGATTG
*
27868685 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
27868713 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
27868741 GCACTAAGTGTGC
1 GCACTAAGTGTGC
27868754 AAACTTACTA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:27874879 original size:46 final size:47
Alignment explanation
Indices: 27874822--27874986 Score: 189
Period size: 46 Copynumber: 3.5 Consensus size: 47
27874812 GACGAGAGCT
*
27874822 AGTGTAAGA-CATGTCTGGGACATGCATCAGCCTCA-ATATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCAG-CTCAGAAATGTAAGCC
* *
27874868 AGTGTAAGA-CATGTCTGGGACATGCATCAGCT-ATGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCAGCTCA-GAAATGTAAGCC
* *
27874912 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAAATGTAAGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCAGCTCAGAAATGT-A-AGCC
*
27874962 AATGTAAGACCATGTCTGGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
27874987 ACCTCGACCT
Statistics
Matches: 103, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
44 12 0.12
45 16 0.16
46 48 0.47
47 1 0.01
49 1 0.01
50 25 0.24
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCAGCTCAGAAATGTAAGCC
Found at i:27875043 original size:49 final size:47
Alignment explanation
Indices: 27874728--27875088 Score: 201
Period size: 47 Copynumber: 7.7 Consensus size: 47
27874718 TTGGTGCGCT
* * * * *
27874728 AGTGTAAGA-CATGTCTGGAACAT-GCATCGACCACATTATGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CTCGTT-CGATGAGCC
* * * * * ** *
27874774 AGTGTAAGACCATGTCTAGGACGTGGCAACGGCATTGAGACGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCG-TTCGATGAGCC
* * *
27874822 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCAATAT-G-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTC-GT-TCGATGAGCC
* ** * *
27874868 AGTGTAAGA-CATGTCTGGGACAT-GCATC-AGCT-ATGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CTCGTTCGATGAGCC
* * * *
27874912 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAAAT-GTAAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTC-G--TTCG-ATGAGCC
* * * *
27874962 AATGTAAGACCATGTCTGGGACATGACCTCGACCTCGATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGA-CTCG--TTCGATGAGCC
* * *
27875011 AGTGTAAGACCATGCCTGGGACATGGCATCGACTTGTTGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGTTCGATGAGCC
27875058 AGTGTAAGACCATGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
27875089 GAATTACACC
Statistics
Matches: 242, Mismatches: 51, Indels: 43
0.72 0.15 0.13
Matches are distributed among these distances:
43 3 0.01
44 12 0.05
45 16 0.07
46 57 0.24
47 59 0.24
48 24 0.10
49 32 0.13
50 36 0.15
51 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTCGTTCGATGAGCC
Found at i:27875071 original size:146 final size:138
Alignment explanation
Indices: 27874728--27875089 Score: 347
Period size: 138 Copynumber: 2.6 Consensus size: 138
27874718 TTGGTGCGCT
* * * * * * *
27874728 AGTGTAAGACATGTCTGGAACATGCATCGACCACATTATGA-GAGCTAGTGTAAGACCATGTCTA
1 AGTGTAAGACATGCCTGGGACATGCATC-AGC-TATGA-GATGAGCCAGTGTAAGACCATGTCTG
* * ** * * *
27874792 GGACGTGGCAACGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCA
63 GGACATGGCATCGGCACAGAAACGAGAGCCAATGTAAGACATGTCTGGGACATGCATCAGCCTCA
27874857 ATATGTAAGCC
128 ATATGTAAGCC
* * *
27874868 AGTGTAAGACATGTCTGGGACATGCATCAGCTATGAGATGTGTCAGTGTAAGACCATGTCTGGGA
1 AGTGTAAGACATGCCTGGGACATGCATCAGCTATGAGATGAGCCAGTGTAAGACCATGTCTGGGA
* *
27874933 CATGGCATCGGCACAGAAATGTAAGAGCCAATGTAAGACCATGTCTGGGACATGACCTC-GACCT
66 CATGGCATCGGCACAGAAACG--AGAGCCAATGTAAGA-CATGTCTGGGACATG-CATCAG-CCT
* * *
27874997 CGATTTCG-ATAGTC
126 CAATAT-GTA-AGCC
*
27875011 AGTGTAAGACCATGCCTGGGACATGGCATC-GACT-TGTTGGATGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGCCTGGGACAT-GCATCAG-CTATG--AGATGAGCCAGTGTAAGACCATGTC
27875074 TGGGACATGGCATCGG
61 TGGGACATGGCATCGG
27875090 AATTACACCC
Statistics
Matches: 185, Mismatches: 24, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
137 2 0.01
138 40 0.22
139 2 0.01
140 40 0.22
141 16 0.09
142 11 0.06
143 13 0.07
144 16 0.09
145 7 0.04
146 38 0.21
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (138 bp):
AGTGTAAGACATGCCTGGGACATGCATCAGCTATGAGATGAGCCAGTGTAAGACCATGTCTGGGA
CATGGCATCGGCACAGAAACGAGAGCCAATGTAAGACATGTCTGGGACATGCATCAGCCTCAATA
TGTAAGCC
Found at i:27877007 original size:79 final size:80
Alignment explanation
Indices: 27876863--27877080 Score: 239
Period size: 79 Copynumber: 2.7 Consensus size: 80
27876853 GAATCACGTA
* * * ** * * *
27876863 CCTTCGGAATTTAACCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
27876927 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
27876942 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATA
27877005 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * * * *
27877021 CCTT-TGGATCTTAGTCCGGATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCGGA
27877081 CATCATTCGA
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 71 0.60
80 44 0.37
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGGAATATAG
TAACTCGCACAAATG
Found at i:27877080 original size:40 final size:40
Alignment explanation
Indices: 27876877--27877080 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
27876867 CGGAATTTAA
* ** *
27876877 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27876917 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27876957 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
27876996 CCGGA-ATTAGTAACTCGCACAAATGCCTT-TGGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
27877036 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
27877076 CCGGA
1 CCGGA
27877081 CATCATTCGA
Statistics
Matches: 140, Mismatches: 18, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.01
39 31 0.22
40 95 0.68
41 12 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:27879583 original size:21 final size:20
Alignment explanation
Indices: 27879557--27879596 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
27879547 GTTATAACGA
*
27879557 CCACACGGGCGTGTTGCCCTT
1 CCACACAGGCGTG-TGCCCTT
*
27879578 CCACACAGGTGTGTGCCCT
1 CCACACAGGCGTGTGCCCT
27879597 GTTCCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.38, G:0.28, T:0.23
Consensus pattern (20 bp):
CCACACAGGCGTGTGCCCTT
Found at i:27883646 original size:20 final size:19
Alignment explanation
Indices: 27883620--27883663 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
27883610 AAATCATAAA
27883620 ATTTATTTTTCTAAAAATATT
1 ATTTATTTTTC--AAAATATT
27883641 -TTTATTTTTCAAAATATT
1 ATTTATTTTTCAAAATATT
27883659 ATTTA
1 ATTTA
27883664 CCGATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.36
19 4 0.18
20 10 0.45
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTTATTTTTCAAAATATT
Found at i:27885322 original size:100 final size:100
Alignment explanation
Indices: 27885195--27885382 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
27885185 GATGGTTAGG
* * *
27885195 TCACGTGTGTATTACTAAGTGTAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
27885260 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATACGTACCCGAAAACTGTGA
*
27885295 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
27885360 AAGTGCAGGCTACTATACGTACC
66 AAGTGCAGGCTACTATACGTACC
27885383 AGATAGCTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATACGTACCCGAAAACTGTGA
Found at i:27885382 original size:49 final size:49
Alignment explanation
Indices: 27885092--27885387 Score: 295
Period size: 49 Copynumber: 5.9 Consensus size: 49
27885082 TCTATTGTGA
* * ** *
27885092 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTTGAAAAATGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATAAT-T
* * * * * **
27885143 GATAACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * * * *
27885192 AGGTCACGTGTGTATTACTAAGTGTAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* * * *
27885242 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAA-T-T
* * * *
27885293 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
* **
27885342 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATACGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
27885388 GCTTCGGCTA
Statistics
Matches: 199, Mismatches: 43, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
49 80 0.40
50 45 0.23
51 74 0.37
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATAATT
Found at i:27893003 original size:40 final size:40
Alignment explanation
Indices: 27892957--27893101 Score: 168
Period size: 40 Copynumber: 3.6 Consensus size: 40
27892947 CTCGCACAAG
* * * *
27892957 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATGGTCGCTAGCACAAAT
27892997 GCCTTCGGGACTTAGCCCGGATA-GAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATG-GTCGCTAGCACAAAT
* * * *
27893037 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATGGTCGC-TAGCACAAAT
*
27893078 GCCTTCGGGACTTAGCCCGAATAT
1 GCCTTCGGGACTTAGCCCGGATAT
27893102 CATTCGAGTA
Statistics
Matches: 89, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
39 4 0.04
40 56 0.63
41 26 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATGGTCGCTAGCACAAAT
Found at i:27894336 original size:38 final size:38
Alignment explanation
Indices: 27894294--27894369 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
27894284 CAAGAACTCC
27894294 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
27894332 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
1 TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
27894370 AAAGGATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.32
Consensus pattern (38 bp):
TTCCTCCTTCCTTAGAATTTTCGGCCAAAAGAAATGAA
Found at i:27901053 original size:40 final size:40
Alignment explanation
Indices: 27901007--27901150 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
27900997 CTCGCACAAG
* * * * *
27901007 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
27901047 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
27901087 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
27901128 GCC-TCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
27901151 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.03
40 73 0.80
41 15 0.16
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:27902377 original size:36 final size:36
Alignment explanation
Indices: 27902337--27902405 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
27902327 AAGAACTCTT
27902337 CTCCTT-CTTAGAATTTTCGGCCAAAGAAATGAATTC
1 CTCCTTCCTTAGAA-TTTCGGCCAAAGAAATGAATTC
27902373 CTCCTTCCTTAGAATTTCGGCCAAAGAAATGAA
1 CTCCTTCCTTAGAATTTCGGCCAAAGAAATGAA
27902406 AAAGGATGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 25 0.78
37 7 0.22
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (36 bp):
CTCCTTCCTTAGAATTTCGGCCAAAGAAATGAATTC
Found at i:27914899 original size:40 final size:40
Alignment explanation
Indices: 27914855--27915037 Score: 278
Period size: 40 Copynumber: 4.6 Consensus size: 40
27914845 GCCACTAGCT
* * *
27914855 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
27914895 CAAATGCCTTCGGGACTTAGCCCGG-TATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* *
27914934 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
* * *
27914974 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
*
27915014 CGAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
27915038 AAATTAGCCA
Statistics
Matches: 133, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
39 37 0.28
40 96 0.72
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
Found at i:27914953 original size:79 final size:80
Alignment explanation
Indices: 27914855--27915037 Score: 278
Period size: 79 Copynumber: 2.3 Consensus size: 80
27914845 GCCACTAGCT
* * * *
27914855 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
27914920 -TATAATAACTCGCA
66 ATATAATAACTCGCA
* *
27914934 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGTACAAACGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
* *
27914999 ATATAGTAGCTCGCA
66 ATATAATAACTCGCA
*
27915014 CGAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
27915038 AAATTAGCCA
Statistics
Matches: 94, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 59 0.63
80 35 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAACGCCTTCGGGACTTAGCCCGG
ATATAATAACTCGCA
Found at i:27915060 original size:40 final size:38
Alignment explanation
Indices: 27914855--27915077 Score: 189
Period size: 40 Copynumber: 5.6 Consensus size: 38
27914845 GCCACTAGCT
** *
27914855 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGAAT-TAG-AACTCGCA
* * *
27914895 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GAATTAGAACTCGCA
* *
27914934 CAAATGCCTTCGGGACTTAGCCCGGATATA-ATAGCTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGAAT-TAGA-A-CTCGCA
* * *
27914974 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAAT-TAG-AACTCGCA
* * * *
27915014 CGAATGCCTTCGGGACTTAGCCCGAAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCG-AATTAG-AACTCGCA
*
27915054 CAAATG-CTCTCGGTACTTAGCCCG
1 CAAATGCCT-TCGGGACTTAGCCCG
27915078 GTTATCATCC
Statistics
Matches: 154, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
38 4 0.03
39 34 0.22
40 111 0.72
41 4 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTAGCCCGAATTAGAACTCGCA
Found at i:27918440 original size:40 final size:39
Alignment explanation
Indices: 27918356--27918540 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
27918346 TTGAATGATG
* * * *
27918356 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
27918396 TCCGGACTAAGATCCGAAGGCAATTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
27918436 TCCGGGCTAAGCCCGAAGGCATTTCTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
27918475 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTA-AA
*
27918516 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
27918541 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 35 0.29
40 75 0.62
41 11 0.09
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27918494 original size:79 final size:81
Alignment explanation
Indices: 27918356--27918539 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
27918346 TTGAATGATG
* *
27918356 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTCTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
27918420 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
27918435 TTCCGGGCTAAG-CCCGAAGGCATTTCTGC-GAGTTACTAAATCCGGGTTAAG-TCCTGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTCTGCTAAGTGACCAAATCCGGACTAAGATCC-GAAGGCA
* *
27918497 TTTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
27918515 ACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTT
27918540 GAACGAGGAG
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 31 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTCTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:27918562 original size:79 final size:77
Alignment explanation
Indices: 27918386--27918573 Score: 182
Period size: 79 Copynumber: 2.4 Consensus size: 77
27918376 CTTTGTGCTA
* * *
27918386 AGTGACCATATCCGGACTAAGATCCGAAGGCAATTGTGCGAGATACTAATTCCGGGCTAAGCCCG
1 AGTGACTATATCCGG-TTAAG-TCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCG
**
27918451 AAGGCATTTCTGCG
64 AAGGCATTTCAACG
* * * * *
27918465 AGTTACTAAATCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCC
1 AGTGACTATATCC-GGTTAAGTCC-GAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CC
*
27918529 CGAAGGCATTTGAACG
62 CGAAGGCATTTCAACG
*
27918545 AG-GAGCTATATCCGGTTAAATCCCGAAGG
1 AGTGA-CTATATCCGGTTAAGT-CCGAAGG
27918574 TACGTGATTT
Statistics
Matches: 89, Mismatches: 14, Indels: 12
0.77 0.12 0.10
Matches are distributed among these distances:
78 5 0.06
79 56 0.63
80 28 0.31
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.24
Consensus pattern (77 bp):
AGTGACTATATCCGGTTAAGTCCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAA
GGCATTTCAACG
Found at i:27925150 original size:39 final size:40
Alignment explanation
Indices: 27925041--27925225 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
27925031 TTGAATGATG
* * *
27925041 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
27925080 ATCCGGACTAAGAT-CCGAAGGCAATTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27925121 TCCGGGCTAAG-CCCGAAGGCATTTCTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
27925160 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
27925199 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
27925226 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 79 0.65
41 9 0.07
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:27925177 original size:79 final size:81
Alignment explanation
Indices: 27925041--27925224 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
27925031 TTGAATGATG
* *
27925041 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTCTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
27925105 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
27925120 TTCCGGGCTAAG-CCCGAAGGCATTTCTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTCTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
27925182 TTTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
27925200 ACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTT
27925225 GAACGAGGAG
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTCTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:27925239 original size:40 final size:40
Alignment explanation
Indices: 27925042--27925258 Score: 126
Period size: 40 Copynumber: 5.5 Consensus size: 40
27925032 TGAATGATGT
** * * *
27925042 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGTGACTATAA
* * ** *
27925082 CCGGACTAAGAT-CCGAAGGCAATTGTGCGAGAT-ACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTATA-A
*** *
27925122 CCGGGCTAAG-CCCGAAGGCATTTCTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* ** *
27925160 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
* *
27925201 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTATAA
* *
27925241 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
27925259 TACGTGATTT
Statistics
Matches: 148, Mismatches: 19, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 46 0.31
40 91 0.61
41 10 0.07
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:27925247 original size:79 final size:79
Alignment explanation
Indices: 27925094--27925258 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
27925084 GGACTAAGAT
* ** *
27925094 CCGAAGGCAATTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTCTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTCAACGAGTGACTAA
*
27925159 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
27925173 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTCAACGAGTGA-C
*
27925236 TATATCC-GGTTAAATC
63 TAAATCCGGGTTAAATC
27925252 CCGAAGG
1 CCGAAGG
27925259 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTCAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:27932726 original size:40 final size:39
Alignment explanation
Indices: 27932682--27932906 Score: 281
Period size: 40 Copynumber: 5.7 Consensus size: 39
27932672 GCCACTAGCT
* *
27932682 CAAATGCCTTCGAGACTTAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
27932722 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
27932761 CAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* *
27932801 CAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
* * ** * *
27932841 CGAATGCCTTCGGGACTTAGCCCGGAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
27932881 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
27932907 TATCATCCGA
Statistics
Matches: 166, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 40 0.24
40 126 0.76
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:27938350 original size:28 final size:29
Alignment explanation
Indices: 27938296--27938357 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 29
27938286 GAAAGCATGT
*
27938296 ATATGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
* *
27938325 ATATGAATGAGA-TTGGGCTTAGTGGGCC
1 ATATGAATGAGATTTGGGCCTAATGGGCC
27938353 ATATG
1 ATATG
27938358 CATGTATGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 19 0.63
29 11 0.37
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.31
Consensus pattern (29 bp):
ATATGAATGAGATTTGGGCCTAATGGGCC
Found at i:27941734 original size:41 final size:41
Alignment explanation
Indices: 27941641--27941790 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 41
27941631 CATATTCGAT
* * * * * *
27941641 ATCTCGCTCACTAACTACCGTACATAGCCTAAGCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
* * *
27941682 A-ATCGCACACTAAGGGCCATATATA-CCGGAATCTATCTCA
1 ATCTCGCACACTAAGTGCCATATATAGCC-GAAGCTATCTCA
* * *
27941722 ATCTCGCACACTAAGTTCCATATATAGCCGAAGCTATTTCG
1 ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
27941763 ATCTCGCACACTAAGTGCCATATATAGC
1 ATCTCGCACACTAAGTGCCATATATAGC
27941791 TGATTCATCA
Statistics
Matches: 90, Mismatches: 16, Indels: 6
0.80 0.14 0.05
Matches are distributed among these distances:
39 2 0.02
40 28 0.31
41 58 0.64
42 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATATAGCCGAAGCTATCTCA
Found at i:27946831 original size:47 final size:45
Alignment explanation
Indices: 27946672--27947026 Score: 256
Period size: 47 Copynumber: 7.6 Consensus size: 45
27946662 TTGCCAATGC
* * **
27946672 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATACG-AGTGTTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCT--GTAG-GCCGATG
* *
27946721 CATGTCCCAGACATGTCTTACACTAGCATATCTCT-TA-GCCAATG
1 CATGTCCCAGACATGTCTTACACTGGC-TATCTCTGTAGGCCGATG
* * * *
27946765 CGTGTCCCAAACAAGTCTTACACTAGCTATCTCTGTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATCTCTGT--AGGCCGATG
27946812 CATGTCCCAGACATGTCTTACACTGGTACTCATCTCTGT--GCCGATG
1 CATGTCCCAGACATGTCTTACACTGG--CT-ATCTCTGTAGGCCGATG
* * * * * *
27946858 CCATATGCCAGACATGGCCTTACATTGGCTATCAT-AGTATGGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATC-TCTGTA-GGCCGATG
** ** * *
27946906 CATGTCCCAGACATGTCTTACACTAACCCTCGTCTGGATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTATC-TCTGTAGGCCGATG
*
27946952 CCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGT-GGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTAGGCCGATG
* *
27947000 CATGTCCCAGCCATGTCTTACTCTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
27947027 GCACAAATCG
Statistics
Matches: 244, Mismatches: 43, Indels: 41
0.74 0.13 0.12
Matches are distributed among these distances:
43 7 0.03
44 29 0.12
45 5 0.02
46 42 0.17
47 81 0.33
48 51 0.21
49 21 0.09
50 8 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTATCTCTGTAGGCCGATG
Found at i:27946948 original size:94 final size:93
Alignment explanation
Indices: 27946663--27947020 Score: 295
Period size: 94 Copynumber: 3.8 Consensus size: 93
27946653 TGGGATATAT
* * * * * **
27946663 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATACGAGTGTTGATGCATGTC
1 TGCCGATGCCATATCCCAGACATGGCCTTACACTGGCTATCATAATA--TG-GCCGATGCATGTC
*
27946727 CCAGACATGTCTTACACT-AGCAT-ATCTCT-
63 CCAGACATGTCTTACACTGAAC-TCATCTCTG
* * * * * * * * *
27946756 TAGCCAATG-CGTGTCCCAAACA-AGTCTTACACTAGCTATC-T-CTGTCGAGGCCGATGCATGT
1 T-GCCGATGCCATATCCCAGACATGGCCTTACACTGGCTATCATAATAT---GGCCGATGCATGT
*
27946817 CCCAGACATGTCTTACACTGGTACTCATCTCTG
62 CCCAGACATGTCTTACACT-GAACTCATCTCTG
* * * *
27946850 TGCCGATGCCATATGCCAGACATGGCCTTACATTGGCTATCATAGTATGGCTGATGCATGTCCCA
1 TGCCGATGCCATATCCCAGACATGGCCTTACACTGGCTATCATAATATGGCCGATGCATGTCCCA
*
27946915 GACATGTCTTACACT-AAC-CCTCGTCTGG
66 GACATGTCTTACACTGAACTCATC-TCT-G
* * *
27946943 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCCGATGCATGTCCC
1 -TGCCGATGCCATATCCCAGACATGGCCTTACACTGGCTATCATAATATGGCCGATGCATGTCCC
*
27947008 AGCCATGTCTTAC
65 AGACATGTCTTAC
27947021 TCTGGCGCAC
Statistics
Matches: 216, Mismatches: 34, Indels: 29
0.77 0.12 0.10
Matches are distributed among these distances:
91 34 0.16
92 22 0.10
93 26 0.12
94 117 0.54
95 14 0.06
96 1 0.00
97 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
TGCCGATGCCATATCCCAGACATGGCCTTACACTGGCTATCATAATATGGCCGATGCATGTCCCA
GACATGTCTTACACTGAACTCATCTCTG
Found at i:27949062 original size:18 final size:18
Alignment explanation
Indices: 27949011--27949063 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
27949001 GGCTAAGGAC
27949011 TAAATTAGAAATCAAAATTAT
1 TAAA-TAGAAAT--AAATTAT
*
27949032 TAAA-AGATGATAAATTAT
1 TAAATAGA-AATAAATTAT
27949050 TAAATAGAAATAAA
1 TAAATAGAAATAAA
27949064 AATCATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
18 16 0.57
19 6 0.21
20 2 0.07
21 4 0.14
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (18 bp):
TAAATAGAAATAAATTAT
Found at i:27953841 original size:27 final size:27
Alignment explanation
Indices: 27953811--27953927 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
27953801 TACTAAAATG
* *
27953811 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
27953838 CCCTCAATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
27953865 CCTTTGATTTACAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * *
27953892 CCCTCGCTTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
27953919 CCCTCGATT
1 CCCTCGATT
27953928 GTGTAATTAC
Statistics
Matches: 76, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:27953986 original size:27 final size:27
Alignment explanation
Indices: 27953948--27954071 Score: 153
Period size: 27 Copynumber: 4.6 Consensus size: 27
27953938 TGTAGGATAG
27953948 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
*
27953975 AATTACCAAAATACCTCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
27954002 AATTATCAAAATACCCTTAATTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* **
27954029 AATTACCAAAACACCCCT-GATTTACAA
1 AATTACCAAAATACCCCTAG-TTTGTAA
27954056 AATTA-CAGAAATACCC
1 AATTACCA-AAATACCC
27954072 TTGATTTTCT
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
26 2 0.02
27 81 0.98
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:27954030 original size:54 final size:53
Alignment explanation
Indices: 27953948--27954149 Score: 194
Period size: 54 Copynumber: 3.7 Consensus size: 53
27953938 TGTAGGATAG
* * **
27953948 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTAGTTTGTAA
1 AATTA-CAAAATACCCTTATTTTGTAAAATTACCAAAATACCTCTAGTTTACAA
* * *
27954002 AATTATCAAAATACCCTTAATTTGTAAAATTACCAAAACACCCCT-GATTTACAA
1 AATTA-CAAAATACCCTTATTTTGTAAAATTACCAAAATACCTCTAG-TTTACAA
* *
27954056 AATTACAGAAATACCCTTGATTTTCTAAAAATTA-TAGAAATACCAT-TAGTTTACAA
1 AATTACA-AAATACCCTT-ATTTTGT-AAAATTACCA-AAATACC-TCTAGTTTACAA
* * *
27954112 AATTACTAAAATACCCTTGTTTTGTAGATTTACCAAAA
1 AATTAC-AAAATACCCTTATTTTGTAAAATTACCAAAA
27954150 CACCCTTGTA
Statistics
Matches: 122, Mismatches: 17, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
53 3 0.02
54 68 0.56
55 12 0.10
56 37 0.30
57 2 0.02
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (53 bp):
AATTACAAAATACCCTTATTTTGTAAAATTACCAAAATACCTCTAGTTTACAA
Found at i:27954076 original size:27 final size:26
Alignment explanation
Indices: 27953973--27954130 Score: 113
Period size: 27 Copynumber: 5.8 Consensus size: 26
27953963 CCTAGTTTGT
* **
27953973 AAAATTACCAAAATACCTCTAG-TTTGT
1 AAAATTA-CAAAATACC-CTTGATTTAC
* **
27954000 AAAATTATCAAAATACCCTTAATTTGT
1 AAAATTA-CAAAATACCCTTGATTTAC
* *
27954027 AAAATTACCAAAACACCCCTGATTTAC
1 AAAATTA-CAAAATACCCTTGATTTAC
*
27954054 AAAATTACAGAAATACCCTTGATTTTC
1 AAAATTACA-AAATACCCTTGATTTAC
* *
27954081 TAAAAATTATAGAAATACCATT-AGTTTAC
1 --AAAATTACA-AAATACCCTTGA-TTTAC
27954110 AAAATTACTAAAATACCCTTG
1 AAAATTAC-AAAATACCCTTG
27954131 TTTTGTAGAT
Statistics
Matches: 107, Mismatches: 17, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
26 4 0.04
27 79 0.74
28 2 0.02
29 22 0.21
ACGTcount: A:0.44, C:0.18, G:0.06, T:0.32
Consensus pattern (26 bp):
AAAATTACAAAATACCCTTGATTTAC
Found at i:27955144 original size:24 final size:25
Alignment explanation
Indices: 27955063--27955131 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
27955053 GGAAGTGTTA
* * *
27955063 AAAGGGCTCTGCCCTAGTTTA-CCG
1 AAAGGGCTTTGCCCCAGTTTATCAG
27955087 AAACGGGCTTTGCCCCAGTTTATCAG
1 AAA-GGGCTTTGCCCCAGTTTATCAG
27955113 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
27955132 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 3 0.08
25 32 0.80
26 5 0.12
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.26
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATCAG
Found at i:27955338 original size:42 final size:42
Alignment explanation
Indices: 27955279--27955412 Score: 252
Period size: 42 Copynumber: 3.2 Consensus size: 42
27955269 TAGTCTCCCC
27955279 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
27955321 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
27955363 AAATGGGCTTGCATACA-TCTATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTC-ATTGACATTACATGTGATATTG
27955405 AAATGGGC
1 AAATGGGC
27955413 CTAAGGGCCA
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
41 2 0.02
42 89 0.98
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:27955471 original size:31 final size:31
Alignment explanation
Indices: 27955436--27955611 Score: 302
Period size: 31 Copynumber: 5.7 Consensus size: 31
27955426 CGTTTATAGT
*
27955436 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
27955467 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
27955498 AAAGGCTTCGGCCCAGTGATATGATATATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
27955529 AAAGGCTTCAG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
27955559 AAAGGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
27955590 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
27955612 TCAAGACTAA
Statistics
Matches: 138, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
30 33 0.24
31 105 0.76
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:27955553 original size:92 final size:92
Alignment explanation
Indices: 27955436--27955611 Score: 318
Period size: 92 Copynumber: 1.9 Consensus size: 92
27955426 CGTTTATAGT
27955436 AAAGGCTTCGACCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAA
1 AAAGGCTTCGACCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAA
27955501 GGCTTCGGCCCAGTGATATGATATATGA
66 GGCTTCGGCCCAGT-ATATGATATATGA
* *
27955529 AAAGGCTTC-AGCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGGAAA
1 AAAGGCTTCGACCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAA
27955593 GGCTTCGGCCCAGTATATG
66 GGCTTCGGCCCAGTATATG
27955612 TCAAGACTAA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
91 5 0.06
92 67 0.83
93 9 0.11
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (92 bp):
AAAGGCTTCGACCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGAAAA
GGCTTCGGCCCAGTATATGATATATGA
Found at i:27955569 original size:61 final size:62
Alignment explanation
Indices: 27955436--27955611 Score: 302
Period size: 61 Copynumber: 2.9 Consensus size: 62
27955426 CGTTTATAGT
*
27955436 AAAGGCTTCGACCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
27955498 AAAGGCTTCGGCCCAGTGATATGATATATGAAAAGGCTTCAG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGA
*
27955559 AAAGGCTTCGGCCCAGTGATATGATTTATGGAAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATG
27955612 TCAAGACTAA
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
61 63 0.59
62 44 0.41
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (62 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGAAAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:27966431 original size:19 final size:18
Alignment explanation
Indices: 27966407--27966449 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
27966397 ACCATGTTTA
27966407 TATTTTAACACAT-TTTAAT
1 TATTTT-ACA-ATATTTAAT
*
27966426 TATTTTATAATATTTAAT
1 TATTTTACAATATTTAAT
27966444 TATTTT
1 TATTTT
27966450 TTGACAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 2 0.09
18 14 0.64
19 6 0.27
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTTACAATATTTAAT
Found at i:27969115 original size:22 final size:24
Alignment explanation
Indices: 27969090--27969135 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
27969080 ATTCTATGCT
27969090 AATTGATAA-AGAT-TAA-TATATA
1 AATT-ATAATAGATATAATTATATA
27969112 AATTATAATAGATATAATTATATA
1 AATTATAATAGATATAATTATATA
27969136 TTAAAGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 3 0.14
24 6 0.29
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (24 bp):
AATTATAATAGATATAATTATATA
Found at i:27969233 original size:16 final size:16
Alignment explanation
Indices: 27969192--27969233 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
27969182 AAAATTGATA
27969192 ATAATTAATATATATT
1 ATAATTAATATATATT
*
27969208 ATAATGAATATA-ATT
1 ATAATTAATATATATT
27969223 ATATATTAATA
1 ATA-ATTAATA
27969234 ATTATCTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (16 bp):
ATAATTAATATATATT
Found at i:27969244 original size:22 final size:22
Alignment explanation
Indices: 27969189--27969235 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
27969179 CCTAAAATTG
27969189 ATAAT-AAT-TAA-TATATATT
1 ATAATGAATATAATTATATATT
27969208 ATAATGAATATAATTATATATT
1 ATAATGAATATAATTATATATT
27969230 AATAAT
1 -ATAAT
27969236 TATCTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.21
20 3 0.12
21 3 0.12
22 8 0.33
23 5 0.21
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATAATGAATATAATTATATATT
Found at i:27969257 original size:92 final size:93
Alignment explanation
Indices: 27969090--27969259 Score: 222
Period size: 92 Copynumber: 1.8 Consensus size: 93
27969080 ATTCTATGCT
**
27969090 AATTGATAAAGATTAATATATAAATTATAATAGATATAATTATATATTAAAGATTATCTTCTTAT
1 AATTGATAAAGATTAATATAT-AATTATAATAGATATAATTATATATTAAAGATTATCTAATTAT
* *
27969155 TATCATTAAAAACTTATCAAAAATCCTAA
65 TATAACTAAAAACTTATCAAAAATCCTAA
27969184 AATTGATAATA-ATTAATATAT-ATTATAAT-GAATATAATTATATATTAATA-ATTATCTAATT
1 AATTGATAA-AGATTAATATATAATTATAATAG-ATATAATTATATATTAA-AGATTATCTAATT
* *
27969245 TTTTTAACTAAAAAC
63 ATTATAACTAAAAAC
27969260 ATTTATTCTA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
91 1 0.01
92 45 0.67
93 1 0.01
94 19 0.28
95 1 0.01
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (93 bp):
AATTGATAAAGATTAATATATAATTATAATAGATATAATTATATATTAAAGATTATCTAATTATT
ATAACTAAAAACTTATCAAAAATCCTAA
Found at i:27973984 original size:27 final size:27
Alignment explanation
Indices: 27973933--27974022 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
27973923 GTGACGGAGT
27973933 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* * *
27973962 CACCAGAACAGGTATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
27973989 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
27974017 CACCAG
1 CACCAG
27974023 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Done.