Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 302 of 444
Found at i:86977245 original size:11 final size:12
Alignment explanation
Indices: 86977229--86977261 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
86977219 GGACCCAAGA
86977229 TGAATTAATTT-
1 TGAATTAATTTG
*
86977240 TGAATTCATTTG
1 TGAATTAATTTG
86977252 TGAATTAATT
1 TGAATTAATT
86977262 CACTTGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (12 bp):
TGAATTAATTTG
Found at i:86978851 original size:44 final size:44
Alignment explanation
Indices: 86978797--86978897 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 44
86978787 TTTAACATCT
86978797 GCACACTTAGTGCTTTAAAGATTAGCCGAAGCTATAATAATTTC
1 GCACACTTAGTGCTTTAAAGATTAGCCGAAGCTATAATAATTTC
* * * **
86978841 GCACAATTAGTACTTTAAAGATTATCTTAAGCTATAATAATTTC
1 GCACACTTAGTGCTTTAAAGATTAGCCGAAGCTATAATAATTTC
*
86978885 ACACACTTAGTGC
1 GCACACTTAGTGC
86978898 CATCTTAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.34
Consensus pattern (44 bp):
GCACACTTAGTGCTTTAAAGATTAGCCGAAGCTATAATAATTTC
Found at i:86980579 original size:20 final size:20
Alignment explanation
Indices: 86980551--86980589 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
86980541 TAGAGACTTT
86980551 AACTAAAAAACTCGTCGAAA
1 AACTAAAAAACTCGTCGAAA
*
86980571 AACTTAAAAACTCGTCGAA
1 AACTAAAAAACTCGTCGAA
86980590 TCAAGTCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.18
Consensus pattern (20 bp):
AACTAAAAAACTCGTCGAAA
Found at i:86981151 original size:25 final size:25
Alignment explanation
Indices: 86981104--86981151 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
86981094 TTTATTTTAT
* *
86981104 TTTATTTAATATTAATATTAATATA
1 TTTATTTAATATTAAAATAAATATA
86981129 TTTATTTAATATTAAAATAAATA
1 TTTATTTAATATTAAAATAAATA
86981152 ATAATCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TTTATTTAATATTAAAATAAATATA
Found at i:86985302 original size:50 final size:49
Alignment explanation
Indices: 86985219--86985352 Score: 155
Period size: 49 Copynumber: 2.7 Consensus size: 49
86985209 CGAAATGTGT
* **
86985219 CAGTGTAAGACCATGTCTGGGACATGGTGTCGGCAT-GAAT-ATGTGAGAGC
1 CAGTGTAAGACCACGTCTGGGACATGGCATCGGCATCG-ATGA--TGAGAGC
* * * *
86985269 TAGTGTAAGACCACGTCTGGGACATGGCATCGGCCTCGGTGATGATAGC
1 CAGTGTAAGACCACGTCTGGGACATGGCATCGGCATCGATGATGAGAGC
*
86985318 CAGTGTAAGACCACGTCTGGGATATGGCATCGGCA
1 CAGTGTAAGACCACGTCTGGGACATGGCATCGGCA
86985353 ACTTACCCTT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
49 38 0.53
50 32 0.44
51 2 0.03
ACGTcount: A:0.25, C:0.20, G:0.33, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCACGTCTGGGACATGGCATCGGCATCGATGATGAGAGC
Found at i:86994790 original size:20 final size:20
Alignment explanation
Indices: 86994761--86994802 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
86994751 ATAGGAGGTA
86994761 ATTTCATTTTTAAATAAAAT
1 ATTTCATTTTTAAATAAAAT
*
86994781 ATTTCGTTTTTAAATAAAAT
1 ATTTCATTTTTAAATAAAAT
86994801 AT
1 AT
86994803 GATTTACTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTTCATTTTTAAATAAAAT
Found at i:86997504 original size:49 final size:49
Alignment explanation
Indices: 86997425--86997543 Score: 159
Period size: 49 Copynumber: 2.4 Consensus size: 49
86997415 TCACTATAAA
* *
86997425 ACCTGTCTGGGACATGGCATTGACACCGATAGACGAGAGCCAGTGTAAG
1 ACCTGTCTGGGACATGGCATCGACACCGATAGACGAAAGCCAGTGTAAG
* * * *
86997474 ACCTGTCTGGGACATGGCATCGGC-CTCGATATATGAAAGTCAGTGTAAG
1 ACCTGTCTGGGACATGGCATCGACAC-CGATAGACGAAAGCCAGTGTAAG
*
86997523 ACCTGTTTGGGACATGGCATC
1 ACCTGTCTGGGACATGGCATC
86997544 AACTTTGACG
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 1 0.02
49 61 0.98
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (49 bp):
ACCTGTCTGGGACATGGCATCGACACCGATAGACGAAAGCCAGTGTAAG
Found at i:87011275 original size:22 final size:22
Alignment explanation
Indices: 87011250--87011303 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
87011240 AGTTCCCTGC
*
87011250 TTCCTCCTCCGTGTGTCCTCTT
1 TTCCTCCTCCGTGTATCCTCTT
*
87011272 TTCCTCCTCTGTGTATCCTCTT
1 TTCCTCCTCCGTGTATCCTCTT
87011294 TTCCTCCTCC
1 TTCCTCCTCC
87011304 TCTAGAGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.02, C:0.43, G:0.09, T:0.46
Consensus pattern (22 bp):
TTCCTCCTCCGTGTATCCTCTT
Found at i:87022538 original size:106 final size:102
Alignment explanation
Indices: 87022371--87022559 Score: 254
Period size: 106 Copynumber: 1.8 Consensus size: 102
87022361 AAGGATACCG
* * *
87022371 TGTAAGACATACCAAGGCATGGAAATTGGTTTCTAAGGCAAGGAAATCATGTAATACCATGTCAA
1 TGTAAGACATACCAAGGCATGGAAATTGGTTTCTAAGGCAAGGAAACCATATAAGACCATGTCAA
87022436 GACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCC
66 GACATGGCA-TGATAAGTTACTATAAGGCAAAGGTCCC
* * * *
87022474 TGTAAGACCATGCCAAGGCATGG-CATTGGTGATTCATAAGGCAATGATACCATATAAGACCATG
1 TGTAAGA-CATACCAAGGCATGGAAATTGGT--TTC-TAAGGCAAGGAAACCATATAAGACCATG
*
87022538 TCAAGACATGGCATGGTAAGTT
62 TCAAGACATGGCATGATAAGTT
87022560 TCAAAAGGAT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
103 13 0.18
104 14 0.19
105 11 0.15
106 36 0.49
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.24
Consensus pattern (102 bp):
TGTAAGACATACCAAGGCATGGAAATTGGTTTCTAAGGCAAGGAAACCATATAAGACCATGTCAA
GACATGGCATGATAAGTTACTATAAGGCAAAGGTCCC
Found at i:87022548 original size:52 final size:54
Alignment explanation
Indices: 87022426--87022559 Score: 150
Period size: 52 Copynumber: 2.5 Consensus size: 54
87022416 ATCATGTAAT
* * *
87022426 ACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCTGTAAG
1 ACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCATATAAG
* * * * *
87022480 ACCATGCCAAGGCATGGCATTGGTGA-TT-C-ATAAGGCAATGATACCATATAAG
1 ACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGAT-CCATATAAG
*
87022532 ACCATGTCAAGACATGGCA-TGGTAAGTT
1 ACCATGTCAAGACATGGCATTGATAAGTT
87022560 TCAAAAGGAT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
51 16 0.24
52 27 0.40
53 2 0.03
54 22 0.33
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (54 bp):
ACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGATCCATATAAG
Found at i:87022818 original size:16 final size:16
Alignment explanation
Indices: 87022797--87022827 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87022787 ATAAATTTGA
87022797 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
87022813 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
87022828 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:87029991 original size:55 final size:53
Alignment explanation
Indices: 87029902--87030135 Score: 203
Period size: 55 Copynumber: 4.4 Consensus size: 53
87029892 ATTAGGGTTT
** * * *
87029902 AAGGATACTGTGTGAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGAC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAA-GTTTCTAAGGC
* * * * * *
87029957 AAGGAAATCATGTAAGACCATGTCAAGACGTGGCATTGATAAGTTACTGTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT--TCTAAGGC
* *
87030012 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAA--TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGT-AAGTTTC-TAAGGC
* * *
87030065 AAGGATACCATATAAGACCATGTCAAGACATGGCAATGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
*
87030114 AAGGATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
87030136 AAAATTCATA
Statistics
Matches: 145, Mismatches: 26, Indels: 22
0.75 0.13 0.11
Matches are distributed among these distances:
49 20 0.14
52 9 0.06
53 39 0.27
54 11 0.08
55 60 0.41
56 6 0.04
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTTCTAAGGC
Found at i:87030369 original size:16 final size:16
Alignment explanation
Indices: 87030348--87030378 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
87030338 ATAAATTTGA
87030348 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
87030364 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
87030379 AGTGAAGAAA
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:87034809 original size:21 final size:22
Alignment explanation
Indices: 87034783--87034826 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
87034773 GGGTTTGTTT
*
87034783 TAATTAACTAA-TTATTTAAAG
1 TAATTAACTAATTTAATTAAAG
87034804 TAATTAACTAATTTAATTAAAG
1 TAATTAACTAATTTAATTAAAG
87034826 T
1 T
87034827 GAAGAGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (22 bp):
TAATTAACTAATTTAATTAAAG
Found at i:87035884 original size:10 final size:10
Alignment explanation
Indices: 87035852--87035885 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
87035842 CGTTTTGTCC
87035852 CTTTTTGGCT
1 CTTTTTGGCT
87035862 CATTTTTGGCT
1 C-TTTTTGGCT
*
87035873 CTTTTTGACT
1 CTTTTTGGCT
87035883 CTT
1 CTT
87035886 GGTGCTCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.06, C:0.21, G:0.15, T:0.59
Consensus pattern (10 bp):
CTTTTTGGCT
Found at i:87040849 original size:3 final size:3
Alignment explanation
Indices: 87040843--87040949 Score: 83
Period size: 3 Copynumber: 35.7 Consensus size: 3
87040833 AAGGGAAAAT
* ** * * * *
87040843 ATA ATA ATA GTA ACG ATA ATA AGA ATA ATA ACA ATA ATA ATA GTA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
87040891 AAA ATA AAA ATA ATTA A-A A-A AGTA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA A-TA ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA
*
87040936 GTA ATA ATA ATA AT
1 ATA ATA ATA ATA AT
87040950 GTTAAATAAT
Statistics
Matches: 80, Mismatches: 21, Indels: 6
0.75 0.20 0.06
Matches are distributed among these distances:
2 4 0.05
3 71 0.89
4 5 0.06
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:87040948 original size:18 final size:18
Alignment explanation
Indices: 87040843--87040948 Score: 95
Period size: 18 Copynumber: 5.7 Consensus size: 18
87040833 AAGGGAAAAT
* *
87040843 ATAATAATAGTAACGATA
1 ATAATAATAATAACAATA
*
87040861 ATAAGAATAATAACAATA
1 ATAATAATAATAACAATA
* * *
87040879 ATAATAGTAACAAAAATA
1 ATAATAATAATAACAATA
* * *
87040897 AAAATAATTAAAAAAGTAATA
1 ATAATAA-T-AATAA-CAATA
87040918 ATAATAATAATAACAATA
1 ATAATAATAATAACAATA
*
87040936 GTAATAATAATAA
1 ATAATAATAATAA
87040949 TGTTAAATAA
Statistics
Matches: 70, Mismatches: 15, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
18 50 0.71
19 5 0.07
20 5 0.07
21 10 0.14
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (18 bp):
ATAATAATAATAACAATA
Found at i:87042114 original size:26 final size:24
Alignment explanation
Indices: 87042084--87042140 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 24
87042074 TTGGGCCCTC
*
87042084 TTGGGCTTAGGGTTTAGTTGGGTTGT
1 TTGGGCTTAGGGTTTAGTTAGG-T-T
* *
87042110 TTGGGGTTTGGGTTTAGTTAGGTT
1 TTGGGCTTAGGGTTTAGTTAGGTT
87042134 TTGGGCT
1 TTGGGCT
87042141 GGTGTTTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 7 0.26
25 1 0.04
26 19 0.70
ACGTcount: A:0.07, C:0.04, G:0.42, T:0.47
Consensus pattern (24 bp):
TTGGGCTTAGGGTTTAGTTAGGTT
Found at i:87042903 original size:45 final size:44
Alignment explanation
Indices: 87042852--87042948 Score: 122
Period size: 44 Copynumber: 2.2 Consensus size: 44
87042842 GTTCTATTGT
* * *
87042852 AACTTCAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTCCGCTGC
1 AACTTCAGGGAAATAAGACT-GCTGGCTTCAGTCTGCTCCACTGC
* * * *
87042897 AACTTCAGGGAGATAAGGCTGGTGGCTTCAGTCTGTTCCACTGC
1 AACTTCAGGGAAATAAGACTGCTGGCTTCAGTCTGCTCCACTGC
87042941 AACTTCAG
1 AACTTCAG
87042949 AAAGATAAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 28 0.62
45 17 0.38
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (44 bp):
AACTTCAGGGAAATAAGACTGCTGGCTTCAGTCTGCTCCACTGC
Found at i:87042940 original size:143 final size:143
Alignment explanation
Indices: 87042544--87043250 Score: 841
Period size: 143 Copynumber: 5.0 Consensus size: 143
87042534 GATAGGATTA
* * * * * * ** *
87042544 GTAGCTTCAATCTGCTCCATTGCGATTTCAGGGAGATGGGATTTGCTGTCTTCAGTCTGCTCCGC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTCCGC
* * * * * *
87042609 TGTAACTTTAGGGAGATGAGGCTGGCGGCTTCAATCTACTCCACTGCAGCTTCAGGAAGATAAGA
66 TGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
*
87042674 TTCACCATAATTT
131 TCCACCATAATTT
* * * * * *
87042687 ATAGCTTTAATATGTTCCACTGCAA-TGTCAGGGAAA-AAAATTTGCTGTCTTCAGTCTGTTTCG
1 GTAGCTTTAATCTGTTCCACTGCAACT-TCAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTCCG
* * *
87042750 CTGCAACTTCATGGAGATAAGGCTGGTGGCTTTAATCTGCTCCACTGCAACTTTAGGAAGATAAG
65 CTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
87042815 ATCCACCATAATTT
130 ATCCACCATAATTT
* * *
87042829 GTAGCTTTAATCTGTTCTATTGTAACTTCAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTCCGC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTCCGC
* * *
87042894 TGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAGTCTGTTCCACTGCAACTTCAGAAAGATAAGA
66 TGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
87042959 TCCACCATAATTT
131 TCCACCATAATTT
* * * * *
87042972 GTAGCTTTAATCTGTTCCACTGCGATTTTAGGGAAATAAGATTCA-CTGTCTTCAG-CTTGTTTC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATT-AGCTGTCTTCAGTC-TGCTCC
* *
87043035 GCTGCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCCGCTCCACTGCAACTTCAGGAAGATAA
64 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
**
87043100 GATCTGCCATAATTT
129 GATCCACCATAATTT
* * * * * *
87043115 GTACCTTCAATCTGTTCCACTGCAACTTTAGGAAAATAAGATTTGGC-GTCTTC-GATCTACTCC
1 GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGA-TTAGCTGTCTTCAG-TCTGCTCC
* * * * * * * *
87043178 ACTGCAACTTTAGGGAGATAAGACTAGTTGCTTCAATATGCTCCACTGCAACTTCAAGAAGACAA
64 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAA
87043243 GATCCACC
129 GATCCACC
87043251 GTCTTCGATC
Statistics
Matches: 484, Mismatches: 71, Indels: 18
0.84 0.12 0.03
Matches are distributed among these distances:
142 123 0.25
143 356 0.74
144 5 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (143 bp):
GTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTAGCTGTCTTCAGTCTGCTCCGC
TGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA
TCCACCATAATTT
Found at i:87043911 original size:65 final size:65
Alignment explanation
Indices: 87043822--87043945 Score: 176
Period size: 65 Copynumber: 1.9 Consensus size: 65
87043812 CACGATGGAC
* * * * * *
87043822 AAGAAAGAAATTGACTGAGGGCATAGCTCTAGACGAATAAGTTAATCAAAGATGGCAAATACAAT
1 AAGAAAGAAATTGACTGAGAGCATAGATCGAAACGAATAAATTAATCAAAGATAGCAAATACAAT
* *
87043887 AAGAAAGAAATTGATTGAGAGCATAGATCGAAATGAATAAATTAATCAAAGATAGCAAA
1 AAGAAAGAAATTGACTGAGAGCATAGATCGAAACGAATAAATTAATCAAAGATAGCAAA
87043946 CTTTGCTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 51 1.00
ACGTcount: A:0.50, C:0.10, G:0.20, T:0.20
Consensus pattern (65 bp):
AAGAAAGAAATTGACTGAGAGCATAGATCGAAACGAATAAATTAATCAAAGATAGCAAATACAAT
Found at i:87044404 original size:7 final size:7
Alignment explanation
Indices: 87044392--87044495 Score: 58
Period size: 7 Copynumber: 14.7 Consensus size: 7
87044382 TGGCCTCTTC
87044392 TTTTTCT
1 TTTTTCT
87044399 TTTTTC-
1 TTTTTCT
87044405 -TTTTCT
1 TTTTTCT
87044411 TTTTT-T
1 TTTTTCT
*
87044417 GTTTTTGT
1 -TTTTTCT
87044425 TTTTTGCT
1 TTTTT-CT
87044433 TTTATT-T
1 TTT-TTCT
87044440 TTTCTT-T
1 TTT-TTCT
*
87044447 TCTATTCT
1 T-TTTTCT
87044455 TTTTTCT
1 TTTTTCT
87044462 CTTTTT-T
1 -TTTTTCT
* *
87044469 GTTTTACC
1 -TTTTTCT
87044477 TTTTTCT
1 TTTTTCT
*
87044484 TTTTACT
1 TTTTTCT
87044491 TTTTT
1 TTTTT
87044496 TAAGTGAAGT
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.07
6 1 0.01
7 55 0.72
8 13 0.17
9 2 0.03
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.80
Consensus pattern (7 bp):
TTTTTCT
Found at i:87044407 original size:13 final size:13
Alignment explanation
Indices: 87044389--87044495 Score: 78
Period size: 13 Copynumber: 8.2 Consensus size: 13
87044379 CCTTGGCCTC
87044389 TTCTTTTTCTTTT
1 TTCTTTTTCTTTT
87044402 TTC-TTTTCTTTTT
1 TTCTTTTTC-TTTT
* *
87044415 TTGTTTTTGTTTT
1 TTCTTTTTCTTTT
*
87044428 TTGC-TTTTATTTT
1 TT-CTTTTTCTTTT
87044441 TTC-TTTTCTATTCT
1 TTCTTTTTCT-TT-T
*
87044455 TT-TTTCTCTTTT
1 TTCTTTTTCTTTT
* * *
87044467 TTGTTTTACCTTT
1 TTCTTTTTCTTTT
87044480 TTCTTTTTACTTTT
1 TTCTTTTT-CTTTT
87044494 TT
1 TT
87044496 TAAGTGAAGT
Statistics
Matches: 74, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
12 14 0.19
13 42 0.57
14 18 0.24
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.79
Consensus pattern (13 bp):
TTCTTTTTCTTTT
Found at i:87044446 original size:39 final size:37
Alignment explanation
Indices: 87044393--87044496 Score: 109
Period size: 39 Copynumber: 2.6 Consensus size: 37
87044383 GGCCTCTTCT
* * *
87044393 TTTTCTTTTTTCTTTTCTTTTTTTGTTTTTGTTTTTTG
1 TTTTATTTTTTCTTTTCTTTTTTT-TTTCTCTTTTTTG
*
87044431 CTTTTATTTTTTCTTTTCTATTCTTTTTTCTCTTTTTTG
1 -TTTTATTTTTTCTTTTCT-TTTTTTTTTCTCTTTTTTG
*
87044470 TTTTACCTTTTTCTTTTTACTTTTTTT
1 TTTTA-TTTTTTC-TTTT-CTTTTTTT
87044497 AAGTGAAGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
38 5 0.09
39 34 0.62
40 14 0.25
41 2 0.04
ACGTcount: A:0.04, C:0.12, G:0.04, T:0.80
Consensus pattern (37 bp):
TTTTATTTTTTCTTTTCTTTTTTTTTTCTCTTTTTTG
Found at i:87048819 original size:18 final size:18
Alignment explanation
Indices: 87048796--87048833 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
87048786 GATTAATTAA
87048796 TGTCATAATGTCAAAAAT
1 TGTCATAATGTCAAAAAT
87048814 TGTCATAATGTCAAAAAT
1 TGTCATAATGTCAAAAAT
87048832 TG
1 TG
87048834 ACAGTTTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (18 bp):
TGTCATAATGTCAAAAAT
Found at i:87049474 original size:3 final size:3
Alignment explanation
Indices: 87049468--87049545 Score: 57
Period size: 3 Copynumber: 26.0 Consensus size: 3
87049458 AAGGGAAAAT
* ** * * * * * *
87049468 ATA ATA ATA GTA ACG ATA ATA AGA ATA ATA ACA AAA AAA ATA GTA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
87049516 ATA ATA ATA ATA ATA ACA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
87049546 CTGTTAATTA
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.64, C:0.06, G:0.05, T:0.24
Consensus pattern (3 bp):
ATA
Found at i:87049497 original size:9 final size:9
Alignment explanation
Indices: 87049468--87049536 Score: 63
Period size: 9 Copynumber: 8.0 Consensus size: 9
87049458 AAGGGAAAAT
*
87049468 ATAATAATA
1 ATAACAATA
* *
87049477 GTAACGATA
1 ATAACAATA
*
87049486 ATAAGAATA
1 ATAACAATA
87049495 ATAACAA-A
1 ATAACAATA
87049503 A-AA-AATA
1 ATAACAATA
*
87049510 GTAACAATA
1 ATAACAATA
*
87049519 ATAATAATA
1 ATAACAATA
87049528 ATAACAATA
1 ATAACAATA
87049537 CTAATAATAC
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
6 2 0.04
7 3 0.07
8 4 0.09
9 37 0.80
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (9 bp):
ATAACAATA
Found at i:87051769 original size:12 final size:12
Alignment explanation
Indices: 87051752--87051792 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
87051742 TCCATTTTTA
87051752 TTTTATTTTACT
1 TTTTATTTTACT
**
87051764 TTTTATTTTGTT
1 TTTTATTTTACT
*
87051776 TTTTAGTTTACT
1 TTTTATTTTACT
87051788 TTTTA
1 TTTTA
87051793 CACTCTAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.15, C:0.05, G:0.05, T:0.76
Consensus pattern (12 bp):
TTTTATTTTACT
Found at i:87058979 original size:24 final size:24
Alignment explanation
Indices: 87058947--87058994 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
87058937 TTCTGACTTA
87058947 GGTACAATTCACTTATTTTTCTAT
1 GGTACAATTCACTTATTTTTCTAT
87058971 GGTACAATTCACTTATTTTTCTAT
1 GGTACAATTCACTTATTTTTCTAT
87058995 CTCTGAGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (24 bp):
GGTACAATTCACTTATTTTTCTAT
Found at i:87074702 original size:22 final size:22
Alignment explanation
Indices: 87074664--87074708 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
87074654 ATGGGATATG
* *
87074664 ATATGATTTGGTATGATTTGAT
1 ATATGATTTGCTATGATATGAT
*
87074686 ATATGATTTGCTCTGATATGAT
1 ATATGATTTGCTATGATATGAT
87074708 A
1 A
87074709 AGATATGCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (22 bp):
ATATGATTTGCTATGATATGAT
Found at i:87080777 original size:48 final size:47
Alignment explanation
Indices: 87080644--87080820 Score: 189
Period size: 47 Copynumber: 3.8 Consensus size: 47
87080634 ACAACTCTTA
* * *
87080644 GCCGATGCATGTCCCAGACACGTCTTACATTGGCTA-TCATCGTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC-ACTCATCGTCGAC
* *
87080691 GCCGATGCATGTCCCAGAAATGTCTTACACTGGCACTCATC-TCTAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCGTCGAC
** ** **
87080737 GCCGATGCCATGTCCCAGACATGGTCTTATGCTGGCACTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATCGTCGAC
* *
87080785 GCCAATGCATGTCCCAGACATGCCTTACACTGGCAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCAC
87080821 ACAAGAAATC
Statistics
Matches: 110, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
46 23 0.21
47 63 0.57
48 23 0.21
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCGTCGAC
Found at i:87080820 original size:94 final size:92
Alignment explanation
Indices: 87080509--87080819 Score: 263
Period size: 94 Copynumber: 3.3 Consensus size: 92
87080499 TTGCTGATGC
* * * *
87080509 CATGTCCCAGACATGGTCTTACATTGGCTATCCTCATCAAGGCCGATGCCATGTCCTAGACATGG
1 CATGTCCCAGACAT-GTCTTACACTGGC-ATCATC-TCTA-GCCGATGCCATGTCCCAGACATGG
* * * * * *
87080574 TTTTATACTAGCTCTCGTATATACGT-ACTAATG
62 TCTTATACTGGCACTC--ATA-ATGTGGCCAATG
* * * * *
87080607 CATGTCTCGGACATGTCTTACACTAGCA-CAACTCTTAGCCGATG-CATGTCCCAGACA-CGTCT
1 CATGTCCCAGACATGTCTTACACTGGCATCATCTC-TAGCCGATGCCATGTCCCAGACATGGTCT
* * ** * *
87080669 TACATTGGCTA-TCATCGTCGAGGCCGATG
65 TATACTGGC-ACTCATAAT-GTGGCCAATG
*
87080698 CATGTCCCAGAAATGTCTTACACTGGCACTCATCTCTACGCCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTGGCA-TCATCTCTA-GCCGATGCCATGTCCCAGACATGGTC
*
87080763 TTATGCTGGCACTCATAATGTGGCCAATG
64 TTATACTGGCACTCATAATGTGGCCAATG
*
87080792 CATGTCCCAGACATGCCTTACACTGGCA
1 CATGTCCCAGACATGTCTTACACTGGCA
87080820 CACAAGAAAT
Statistics
Matches: 167, Mismatches: 36, Indels: 24
0.74 0.16 0.11
Matches are distributed among these distances:
90 3 0.02
91 28 0.17
92 13 0.08
93 24 0.14
94 57 0.34
95 18 0.11
96 1 0.01
97 11 0.07
98 12 0.07
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTGGCATCATCTCTAGCCGATGCCATGTCCCAGACATGGTCTT
ATACTGGCACTCATAATGTGGCCAATG
Found at i:87085851 original size:24 final size:24
Alignment explanation
Indices: 87085822--87085872 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
87085812 ATTAGTCTCC
87085822 AATTATAATAAACATGATATAATA
1 AATTATAATAAACATGATATAATA
**
87085846 AATTATGGTAAACATGATATAATA
1 AATTATAATAAACATGATATAATA
87085870 AAT
1 AAT
87085873 AAAACATAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (24 bp):
AATTATAATAAACATGATATAATA
Found at i:87085879 original size:19 final size:21
Alignment explanation
Indices: 87085831--87085879 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
87085821 CAATTATAAT
87085831 AAACATGATATAATAAATTATGG
1 AAACATGATATAATAAATTA--G
87085854 TAAACATGATATAATAAA-TA-
1 -AAACATGATATAATAAATTAG
87085874 AAACAT
1 AAACAT
87085880 AGTAAAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
19 6 0.24
23 2 0.08
24 17 0.68
ACGTcount: A:0.57, C:0.06, G:0.08, T:0.29
Consensus pattern (21 bp):
AAACATGATATAATAAATTAG
Found at i:87087664 original size:47 final size:47
Alignment explanation
Indices: 87087609--87087738 Score: 145
Period size: 46 Copynumber: 2.8 Consensus size: 47
87087599 CACAATCGGT
* * *
87087609 AAGTACCTATACCATGGCCCGTAGCCAAATTAAGGTTACTTATCTTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATTAAGGTAACTCATCTCA
* * * *
87087656 GAGTACCTATACCAT-GACCGTAGCCAAATCAAGGTAACTCCTCTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATTAAGGTAACTCATCTCA
* * ** *
87087702 AAATACCTATATCATGGCTTGTAGCCAAATTAGGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATTAAGGTA
87087739 TTATTCCCAC
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
46 37 0.55
47 30 0.45
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATTAAGGTAACTCATCTCA
Found at i:87091167 original size:55 final size:55
Alignment explanation
Indices: 87091083--87091193 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
87091073 TGCCCCAGAA
87091083 AACCAACCTCACGCAATGAAAATCCACATTTACTAAACTTTGCACATAACTACTT
1 AACCAACCTCACGCAATGAAAATCCACATTTACTAAACTTTGCACATAACTACTT
* *
87091138 AACCAACCTCTCGCAATGAAAATCCACATTTACTAAACTTTGCATATAACTACTT
1 AACCAACCTCACGCAATGAAAATCCACATTTACTAAACTTTGCACATAACTACTT
87091193 A
1 A
87091194 TCACGAAGAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.40, C:0.28, G:0.05, T:0.27
Consensus pattern (55 bp):
AACCAACCTCACGCAATGAAAATCCACATTTACTAAACTTTGCACATAACTACTT
Found at i:87095388 original size:46 final size:46
Alignment explanation
Indices: 87095291--87095396 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 46
87095281 AATCGGTAAG
* * * *** *
87095291 TACCTATACCATGGCCCGTAGCCAAATCAAGGTTACTTATCTTGGAG
1 TACCTATACCAT-GACCGTAGCCAAATCAAGGTAACTCATCTCAAAA
*
87095338 TACCTATACCATGACCGTAGCCAAATCAAGGTAACTCCTCTCAAAA
1 TACCTATACCATGACCGTAGCCAAATCAAGGTAACTCATCTCAAAA
*
87095384 TACCTATATCATG
1 TACCTATACCATG
87095397 GCTTGTAGCC
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
46 38 0.76
47 12 0.24
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.26
Consensus pattern (46 bp):
TACCTATACCATGACCGTAGCCAAATCAAGGTAACTCATCTCAAAA
Found at i:87097909 original size:22 final size:21
Alignment explanation
Indices: 87097858--87097902 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
87097848 GACACTTTTT
*
87097858 TTTTCC-TTTGTTTTCATCATA
1 TTTTCCTTTTTTTTTCAT-ATA
87097879 TTTTCCTTTTTTTTTCAT-TA
1 TTTTCCTTTTTTTTTCATATA
87097899 TTTT
1 TTTT
87097903 ACTCTTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 6 0.27
21 6 0.27
22 10 0.45
ACGTcount: A:0.11, C:0.16, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTCCTTTTTTTTTCATATA
Found at i:87103311 original size:19 final size:20
Alignment explanation
Indices: 87103274--87103313 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
87103264 CTTTTTTCTC
87103274 CCTTTGTTTTCATCATATTTT
1 CCTTTGTTTTCAT-ATATTTT
*
87103295 CCTTTTTTTTCAT-TATTTT
1 CCTTTGTTTTCATATATTTT
87103314 ATTCTTTCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.17, G:0.03, T:0.68
Consensus pattern (20 bp):
CCTTTGTTTTCATATATTTT
Found at i:87109133 original size:46 final size:46
Alignment explanation
Indices: 87109036--87109141 Score: 131
Period size: 46 Copynumber: 2.3 Consensus size: 46
87109026 AATCGGTAAG
* * *** *
87109036 TACCTATACCATGGCCCGTAGCCAAATCAAGGTTACTTATCTTGGAG
1 TACCTATACCAT-GACCGTAGCCAAATCAAGGTTACTCATCTCAAAA
*
87109083 TACCTATACCATGACCGTAGCCAAATCAAGGTTACTCCTCTCAAAA
1 TACCTATACCATGACCGTAGCCAAATCAAGGTTACTCATCTCAAAA
*
87109129 TACCTATATCATG
1 TACCTATACCATG
87109142 GCTTGTAGTC
Statistics
Matches: 51, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
46 39 0.76
47 12 0.24
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (46 bp):
TACCTATACCATGACCGTAGCCAAATCAAGGTTACTCATCTCAAAA
Found at i:87114551 original size:60 final size:60
Alignment explanation
Indices: 87114481--87114600 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
87114471 GAGTTAGTGG
87114481 AAATTGTGAGCTTAGGGGATGAACAAGAAAAGAAAGAAGTGAAAATTGGAACTTGCATCA
1 AAATTGTGAGCTTAGGGGATGAACAAGAAAAGAAAGAAGTGAAAATTGGAACTTGCATCA
87114541 AAATTGTGAGCTTAGGGGATGAACAAGAAAAGAAAGAAGTGAAAATTGGAACTTGCATCA
1 AAATTGTGAGCTTAGGGGATGAACAAGAAAAGAAAGAAGTGAAAATTGGAACTTGCATCA
87114601 CTGCAGAGAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.45, C:0.08, G:0.27, T:0.20
Consensus pattern (60 bp):
AAATTGTGAGCTTAGGGGATGAACAAGAAAAGAAAGAAGTGAAAATTGGAACTTGCATCA
Found at i:87118833 original size:44 final size:44
Alignment explanation
Indices: 87118708--87118823 Score: 182
Period size: 44 Copynumber: 2.6 Consensus size: 44
87118698 ATCTAACATA
*
87118708 ACAAATCTTAT-CTCCCTGAAGTTGTAGTAGAGTAGATTAAAGCT
1 ACAAATCCTATAC-CCCTGAAGTTGTAGTAGAGTAGATTAAAGCT
87118752 ACAAATCCTATACCCCTGAAGTTGCT-GTAGAGTAGATTAAAGCT
1 ACAAATCCTATACCCCTGAAGTTG-TAGTAGAGTAGATTAAAGCT
*
87118796 ACAAATCCTATACCCCTAAAGTTGTAGT
1 ACAAATCCTATACCCCTGAAGTTGTAGT
87118824 GGGTCAGATT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
43 1 0.01
44 64 0.96
45 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (44 bp):
ACAAATCCTATACCCCTGAAGTTGTAGTAGAGTAGATTAAAGCT
Found at i:87118905 original size:50 final size:50
Alignment explanation
Indices: 87118825--87118921 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
87118815 AGTTGTAGTG
87118825 GGTCAGATTGAATCTACCATAACGAATCTTATCTCCCTGAAGATGCAGCA
1 GGTCAGATTGAATCTACCATAACGAATCTTATCTCCCTGAAGATGCAGCA
* * * *
87118875 GGTCGGATTGAATTTACCATAGCGAATCTTATCTCCCTGAAGTTGCA
1 GGTCAGATTGAATCTACCATAACGAATCTTATCTCCCTGAAGATGCA
87118922 ATGGAGTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (50 bp):
GGTCAGATTGAATCTACCATAACGAATCTTATCTCCCTGAAGATGCAGCA
Found at i:87119071 original size:44 final size:44
Alignment explanation
Indices: 87119023--87119639 Score: 230
Period size: 44 Copynumber: 13.3 Consensus size: 44
87119013 GCAGTAAAAT
* ** *
87119023 AGATTAAAGCTACAAATTTTATACCACTGAAGTTGCAGTGGGTC
1 AGATTGAAGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTC
* * *
87119067 AGATTGAATCTACCATAGTGAATCTTAT-CTCTTTGAAGTTGCAGTGGAGT-
1 AGATTGAAGCTA-C--A---AATCCTATAC-CTCTGAAGTTGCAGTGG-GTC
* * *
87119117 AGATTGAAGCTACAAATCCTATACCTCTCAAGTTACAGTAGAG-C
1 AGATTGAAGCTACAAATCCTATACCTCTGAAGTTGCAGT-GGGTC
*
87119161 AGATTGAAGCTACAAATCCTATACCTCTGAAGTTGTAGTGGAG-C
1 AGATTGAAGCTACAAATCCTATACCTCTGAAGTTGCAGTGG-GTC
*
87119205 AAATTGAAGCTACAAATCCTATATCCT-TGAAGTTGCAGTGGGTC
1 AGATTGAAGCTACAAATCCTATA-CCTCTGAAGTTGCAGTGGGTC
* * * * *
87119249 AAATTGAATCTACCATAGCGAATCTTAT-CTCCCTGAGGTTGCAGTGGAGT-
1 AGATTGAAGCTA-C--A---AATCCTATAC-CTCTGAAGTTGCAGTGG-GTC
* * * * *
87119299 TGATTAAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGAGT-
1 AGATTGAAGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTC
* * *
87119342 AGGATTGAAGTTACCATAATGAATCT-TATCTCCCTGAAGTT-CAAGTGGAG-C
1 A-GATTGAAGCTA-CA-AAT---CCTATA-C-CTCTGAAGTTGC-AGTGG-GTC
* * ** *
87119393 AAGA-TGAAGCTACAAATCCTATACATTTGAAGTTATAATGGGTC
1 -AGATTGAAGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTC
* * * * *
87119437 AGTTTGAAGTTACCATAGCGAAT-CT-TAGCTACCTGAAGTTGTAGTAGAG-C
1 AGATTGAAG----C-TA-CAAATCCTATACCT--CTGAAGTTGCAGT-GGGTC
* * *
87119487 AAGA-TGAAGCTACAAATCATATACC-CTTGAAGTTGCAATGGGTT
1 -AGATTGAAGCTACAAATCCTATACCTC-TGAAGTTGCAGTGGGTC
* *
87119531 AGATTGAAGTTACCATAGCGAATCTTAT-CTCTCTGAAGTTGCAGTGGAG-C
1 AGATTGAAG----C-TA-CAAATCCTATAC-CTCTGAAGTTGCAGTGG-GTC
* * *
87119581 AAGA-TGAAGTTACAAATCCTATACCCCTGAAGTTGTAGTGGGTC
1 -AGATTGAAGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTC
* * *
87119625 GGACTGAAACTACAA
1 AGATTGAAGCTACAA
87119640 CAACAAATCT
Statistics
Matches: 435, Mismatches: 70, Indels: 136
0.68 0.11 0.21
Matches are distributed among these distances:
43 16 0.04
44 214 0.49
45 19 0.04
46 9 0.02
47 4 0.01
48 11 0.03
49 17 0.04
50 128 0.29
51 16 0.04
52 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
AGATTGAAGCTACAAATCCTATACCTCTGAAGTTGCAGTGGGTC
Found at i:87119075 original size:188 final size:186
Alignment explanation
Indices: 87118659--87119673 Score: 768
Period size: 188 Copynumber: 5.4 Consensus size: 186
87118649 CAACAAAACA
* * * * * * *
87118659 ACAAATCCTATACCCCTGAAGTTGCAAT-GGTCAAAATGAATCTAACATAACAAATCTTATCTCC
1 ACAAATCCTATACCACTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
* * * * * *
87118723 CTGAAGTTGTAGTAGAGTAGATTAAAGCTACAAATCCTATACCCCTGAAGTTGCTGTAGAGT-AG
66 CTGAAGTTGCAGTGGAGTTGATTAAAGCTACAAATCCTATACCTCTAAAGTTGCAGT-GAGTCAG
* * * * * * * ** *
87118787 ATTAAAGCTA-C--A--AATCCTATAC-CCCTAAAGTTGTAGTGGGTCAGATTGAATCT
130 ATTGAAGTTACCATATGAATCTTAT-CTCTCTGAAGTTGCAGTGAGAAAGA-TGAAGCT
* * * ** * *
87118840 ACCATAACGAATCTTAT-CTCCCTGAAGATGCAGCAGGTCGGATTGAATTTACCATAGCGAATCT
1 A-C---A--AATCCTATAC-CACTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCT
* * * * *
87118904 TATCTCCCTGAAGTTGCAATGGAGTTTATTAAAGCTACAAATCGTATACCTCAAAAGTTGTAGTG
59 TATCTCCCTGAAGTTGCAGTGGAGTTGATTAAAGCTACAAATCCTATACCTCTAAAGTTGCAGTG
* * * * *
87118969 GGTCAGATTGAA-TCTACCATATCGAATCTTATCTCTTTAAAGTTGCAGT-AAAATAGATTAAAG
124 AGTCAGATTGAAGT-TACCATAT-GAATCTTATCTCTCTGAAGTTGCAGTGAGAA-AGA-TGAAG
87119032 CT
185 CT
** * *
87119034 ACAAATTTTATACCACTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGTGAATCTTATCTCT
1 ACAAATCCTATACCACTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
* * * * *
87119099 TTGAAGTTGCAGTGGAGTAGATTGAAGCTACAAATCCTATACCTCTCAAGTTACAGTAGAG-CAG
66 CTGAAGTTGCAGTGGAGTTGATTAAAGCTACAAATCCTATACCTCTAAAGTTGCAGT-GAGTCAG
* * * *
87119163 ATTGAAGCTA-C--A--AATCCTATAC-CTCTGAAGTTGTAGTGGAGCAAA-TTGAAGCT
130 ATTGAAGTTACCATATGAATCTTAT-CTCTCTGAAGTTGCAGT-GAG-AAAGATGAAGCT
* *
87119216 ACAAATCCTATATCC-TTGAAGTTGCAGTGGGTCAAATTGAATCTACCATAGCGAATCTTATCTC
1 ACAAATCCTATA-CCACTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTC
* *
87119280 CCTGAGGTTGCAGTGGAGTTGATTAAAGCTACAAATCCTATACCCCTAAAGTTGCAGTGAGT-AG
65 CCTGAAGTTGCAGTGGAGTTGATTAAAGCTACAAATCCTATACCTCTAAAGTTGCAGTGAGTCA-
* *
87119344 GATTGAAGTTACCATAATGAATCTTATCTCCCTGAAGTT-CAAGTGGAGCAAGATGAAGCT
129 GATTGAAGTTACCAT-ATGAATCTTATCTCTCTGAAGTTGC-AGT-GAGAAAGATGAAGCT
* ** * * *
87119404 ACAAATCCTATA-CATTTGAAGTTATAATGGGTCAGTTTGAAGT-TACCATAGCGAATCTTAGCT
1 ACAAATCCTATACCA-CTGAAGTTGCAGTGGGTCAGATTGAA-TCTACCATAGCGAATCTTATCT
* * * ** * * * * *
87119467 ACCTGAAGTTGTAGTAGAGCAAGA-TGAAGCTACAAATCATATACC-CTTGAAGTTGCAATGGGT
64 CCCTGAAGTTGCAGTGGAG-TTGATTAAAGCTACAAATCCTATACCTC-TAAAGTTGCAGTGAGT
* * * *
87119530 TAGATTGAAGTTACCATAGCGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGTT
127 CAGATTGAAGTTACCATA-TGAATCTTATCTCTCTGAAGTTGCAGT-GAGAAAGATGAAGCT
* * * * * * * * * *
87119592 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGACTGAAACTACAACAACAAATCTTAACTCC
1 ACAAATCCTATACCACTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
* *
87119657 TTGAAGTTGCAATGGAG
66 CTGAAGTTGCAGTGGAG
87119674 CAAGATGAAA
Statistics
Matches: 667, Mismatches: 120, Indels: 87
0.76 0.14 0.10
Matches are distributed among these distances:
181 5 0.01
182 142 0.21
183 4 0.01
184 2 0.00
185 4 0.01
186 3 0.00
187 28 0.04
188 436 0.65
189 10 0.01
190 1 0.00
191 1 0.00
193 2 0.00
194 29 0.04
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (186 bp):
ACAAATCCTATACCACTGAAGTTGCAGTGGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
CTGAAGTTGCAGTGGAGTTGATTAAAGCTACAAATCCTATACCTCTAAAGTTGCAGTGAGTCAGA
TTGAAGTTACCATATGAATCTTATCTCTCTGAAGTTGCAGTGAGAAAGATGAAGCT
Found at i:87119589 original size:50 final size:50
Alignment explanation
Indices: 87119441--87119593 Score: 135
Period size: 50 Copynumber: 3.2 Consensus size: 50
87119431 TGGGTCAGTT
* * *
87119441 TGAAGTTACCATAGCGAATCTTAGCTAC-CTGAAGTTGTAGTAGAGCAAGA
1 TGAAGTTACCATAGCGAATCTTATCT-CTCTGAAGTTGCAGTGGAGCAAGA
* * * * **
87119491 TGAAG----C-TA-CAAATCATATACCCT-TGAAGTTGCAATGG-GTTAGA
1 TGAAGTTACCATAGCGAATCTTAT-CTCTCTGAAGTTGCAGTGGAGCAAGA
87119534 TTGAAGTTACCATAGCGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGA
1 -TGAAGTTACCATAGCGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGA
87119585 TGAAGTTAC
1 TGAAGTTAC
87119594 AAATCCTATA
Statistics
Matches: 77, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
43 4 0.05
44 24 0.31
45 3 0.04
46 1 0.01
48 1 0.01
49 5 0.06
50 35 0.45
51 4 0.05
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (50 bp):
TGAAGTTACCATAGCGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGA
Found at i:87119674 original size:94 final size:94
Alignment explanation
Indices: 87118875--87119682 Score: 688
Period size: 94 Copynumber: 8.7 Consensus size: 94
87118865 AGATGCAGCA
* * * ** * *
87118875 GGTCGGATTGAATTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAATGGAGTTTA-TTAAAGC
1 GGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAAGATGAAGC
* ** *
87118939 TACAAATCGTATA-CCTCAAAAGTTGTAGTG
65 TACAAATCCTATACCCT-TGAAGTTGCAGTG
* ** * ** *
87118969 GGTCAGATTGAA-TCTACCATATCGAATCTTATCTCTTTAAAGTTGCAGT--AAAATAGATTAAA
1 GGTCAGATTGAAGT-TACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCA-AGA-TGAA
**
87119031 GCTACAAATTTTATACCAC-TGAAGTTGCAGTG
63 GCTACAAATCCTATACC-CTTGAAGTTGCAGTG
* ** *
87119063 GGTCAGATTGAA-TCTACCATAGTGAATCTTATCTCTTTGAAGTTGCAGTGGAG-TAGATTGAAG
1 GGTCAGATTGAAGT-TACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA-TGAAG
* *
87119126 CTACAAATCCTATA-CCTCTCAAGTTACAGTAG
64 CTACAAATCCTATACCCT-TGAAGTTGCAGT-G
* * * * *
87119158 AG-CAGATTGAAG----C-TA-CAAATCCTATAC-CTCTGAAGTTGTAGTGGAGCAA-ATTGAAG
1 GGTCAGATTGAAGTTACCATAGCGAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCAAGA-TGAAG
*
87119214 CTACAAATCCTATATCCTTGAAGTTGCAGTG
64 CTACAAATCCTATACCCTTGAAGTTGCAGTG
* * ** *
87119245 GGTCAAATTGAA-TCTACCATAGCGAATCTTATCTCCCTGAGGTTGCAGTGGAG-TTGATTAAAG
1 GGTCAGATTGAAGT-TACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGA-TGAAG
* *
87119308 CTACAAATCCTATACCCCTAAAGTTGCAGTG
64 CTACAAATCCTATACCCTTGAAGTTGCAGTG
* **
87119339 AGT-AGGATTGAAGTTACCATAATGAATCTTATCTCCCTGAAGTT-CAAGTGGAGCAAGATGAAG
1 GGTCA-GATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGC-AGTGGAGCAAGATGAAG
** ** *
87119402 CTACAAATCCTATACATTTGAAGTTATAATG
64 CTACAAATCCTATACCCTTGAAGTTGCAGTG
* * * * *
87119433 GGTCAGTTTGAAGTTACCATAGCGAATCTTAGCTACCTGAAGTTGTAGTAGAGCAAGATGAAGCT
1 GGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCT
* *
87119498 ACAAATCATATACCCTTGAAGTTGCAATG
66 ACAAATCCTATACCCTTGAAGTTGCAGTG
* * *
87119527 GGTTAGATTGAAGTTACCATAGCGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAAGATGAAGTT
1 GGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCT
* *
87119592 ACAAATCCTATACCCCTGAAGTTGTAGTG
66 ACAAATCCTATACCCTTGAAGTTGCAGTG
* * ** * * * * * * *
87119621 GGTCGGACTGAAACTACAACAACAAATCTTAACTCCTTGAAGTTGCAATGGAGCAAGATGAA
1 GGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAA
87119683 ATTGTGACAC
Statistics
Matches: 583, Mismatches: 100, Indels: 62
0.78 0.13 0.08
Matches are distributed among these distances:
87 2 0.00
88 63 0.11
89 7 0.01
90 1 0.00
92 4 0.01
93 7 0.01
94 490 0.84
95 7 0.01
96 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (94 bp):
GGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAGATGAAGCT
ACAAATCCTATACCCTTGAAGTTGCAGTG
Found at i:87120777 original size:23 final size:23
Alignment explanation
Indices: 87120747--87120794 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
87120737 AAGTAAGAAT
*
87120747 TTTTTTTTGAAACAGGTTTGAAA
1 TTTTTTTTGAAACAGGTTTAAAA
87120770 TTTTTTTTGAAACAGGTTTAAAA
1 TTTTTTTTGAAACAGGTTTAAAA
87120793 TT
1 TT
87120795 ACTTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (23 bp):
TTTTTTTTGAAACAGGTTTAAAA
Found at i:87120800 original size:23 final size:23
Alignment explanation
Indices: 87120751--87120800 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
87120741 AAGAATTTTT
* **
87120751 TTTTGAAACAGGTTTGAAATTTT
1 TTTTGAAACAGGTTTAAAATTAC
87120774 TTTTGAAACAGGTTTAAAATTAC
1 TTTTGAAACAGGTTTAAAATTAC
87120797 TTTT
1 TTTT
87120801 TAAAATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (23 bp):
TTTTGAAACAGGTTTAAAATTAC
Found at i:87120804 original size:13 final size:13
Alignment explanation
Indices: 87120786--87120817 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
87120776 TTGAAACAGG
87120786 TTTAAAATTACTT
1 TTTAAAATTACTT
*
87120799 TTTAAAATTATTT
1 TTTAAAATTACTT
87120812 TTTAAA
1 TTTAAA
87120818 TATTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAAAATTACTT
Found at i:87120821 original size:11 final size:12
Alignment explanation
Indices: 87120790--87120832 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
87120780 AACAGGTTTA
*
87120790 AAATTACTTTTTA
1 AAATTA-TTTTTT
87120803 AAATTATTTTTT
1 AAATTATTTTTT
87120815 AAA-TATTTTTT
1 AAATTATTTTTT
*
87120826 AACTTAT
1 AAATTAT
87120833 ATAGACTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 10 0.37
12 11 0.41
13 6 0.22
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (12 bp):
AAATTATTTTTT
Found at i:87126814 original size:15 final size:15
Alignment explanation
Indices: 87126778--87126821 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
87126768 GATGAAAATG
*
87126778 ATAAT-ATAAGTAGCA
1 ATAATAATAA-TAACA
87126793 ATAATAATAATAACA
1 ATAATAATAATAACA
87126808 ATAATAATGAATAA
1 ATAATAAT-AATAA
87126822 TACAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 17 0.65
16 9 0.35
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (15 bp):
ATAATAATAATAACA
Found at i:87126852 original size:4 final size:4
Alignment explanation
Indices: 87126843--87126871 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
87126833 AAAGTAAAGT
87126843 AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA A
87126872 TAATAAGGGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:87128893 original size:49 final size:49
Alignment explanation
Indices: 87128782--87128905 Score: 142
Period size: 49 Copynumber: 2.5 Consensus size: 49
87128772 TGTATGATTT
* * * * *
87128782 CACATGATCGTGTG-CTCCACATGACCAAGCCATACGGGCTGCAAAAACA
1 CACATGGTCGTGTGCCT-CACATGGCCAAGCCACACAGGCTACAAAAACA
** *
87128831 CACACAGTTGTGTGCCTCACATGGCCAAGCCACACAGGCTACAAAAACA
1 CACATGGTCGTGTGCCTCACATGGCCAAGCCACACAGGCTACAAAAACA
* *
87128880 CACATGGTCGTGTGCCCCACACGGCC
1 CACATGGTCGTGTGCCTCACATGGCC
87128906 TGGCACACGG
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 59 0.97
50 2 0.03
ACGTcount: A:0.30, C:0.34, G:0.21, T:0.15
Consensus pattern (49 bp):
CACATGGTCGTGTGCCTCACATGGCCAAGCCACACAGGCTACAAAAACA
Found at i:87132080 original size:137 final size:137
Alignment explanation
Indices: 87131883--87132158 Score: 543
Period size: 137 Copynumber: 2.0 Consensus size: 137
87131873 AGCACATTCA
87131883 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCCTTAGCCCCTTATT
87131948 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
87132013 CCATTTG
131 CCATTTG
*
87132020 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATT
1 GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCCTTAGCCCCTTATT
87132085 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
66 CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
87132150 CCATTTG
131 CCATTTG
87132157 GG
1 GG
87132159 GAGACTACTC
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 138 1.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (137 bp):
GGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATCACAATAAACTGGGCCTTAGCCCCTTATT
CAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAACATATGCAAGC
CCATTTG
Found at i:87132435 original size:26 final size:26
Alignment explanation
Indices: 87132406--87132458 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
87132396 TCAAACATGC
87132406 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
87132432 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
87132458 A
1 A
87132459 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:87133983 original size:26 final size:25
Alignment explanation
Indices: 87133943--87134026 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 25
87133933 CATGAAATTC
87133943 TTATCATGAAACATTTACCTAACCTA
1 TTATCATG-AACATTTACCTAACCTA
*
87133969 TTATCATGAAGCATTTACCTAACCCA
1 TTATCATGAA-CATTTACCTAACCTA
87133995 TTATCATGGAACATTTACCTAACCTA
1 TTATCAT-GAACATTTACCTAACCTA
87134021 TTATCA
1 TTATCA
87134027 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
25 2 0.04
26 49 0.91
27 3 0.06
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (25 bp):
TTATCATGAACATTTACCTAACCTA
Found at i:87134949 original size:27 final size:28
Alignment explanation
Indices: 87134901--87135029 Score: 90
Period size: 27 Copynumber: 4.8 Consensus size: 28
87134891 ACGTCTTATG
* **
87134901 TATTTTAAAT-TATTATAGATTTT-AAA
1 TATTTTACATATATTATTTATTTTGAAA
*
87134927 TATTTTACATATATTATTTATTTT-AAC
1 TATTTTACATATATTATTTATTTTGAAA
* * *
87134954 TACTATAC--ATATTACTTATTTTGAAA
1 TATTTTACATATATTATTTATTTTGAAA
* **
87134980 TATTTT-TATACGTTATTTATTTTGAAA
1 TATTTTACATATATTATTTATTTTGAAA
* * * *
87135007 TATTATATATGTATTATCTATTT
1 TATTTTACATATATTATTTATTT
87135030 AAGTTTCTTT
Statistics
Matches: 79, Mismatches: 19, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
25 13 0.16
26 15 0.19
27 39 0.49
28 12 0.15
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (28 bp):
TATTTTACATATATTATTTATTTTGAAA
Found at i:87135173 original size:24 final size:23
Alignment explanation
Indices: 87135110--87135175 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
87135100 ATCGTAAACC
*
87135110 TTTTAT-TATTATTAATTTTAACA
1 TTTTATATATTATT-ATTTTAAAA
* *
87135133 TTTCATATGTTACTTATTTTAAAA
1 TTTTATATATTA-TTATTTTAAAA
87135157 TTTTATATATGTATTATTT
1 TTTTATATAT-TATTATTT
87135176 ATTTTGGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 5 0.14
24 26 0.74
25 4 0.11
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (23 bp):
TTTTATATATTATTATTTTAAAA
Found at i:87135231 original size:27 final size:29
Alignment explanation
Indices: 87135197--87135261 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
87135187 TTTATATTTT
**
87135197 TTTA-TTTAAAT-T-GCTTTTGTACATTA
1 TTTATTTTAAATCTCGCTTTTACACATTA
*
87135223 TTTATTTTAAATCTCTCTTTTACACATTA
1 TTTATTTTAAATCTCGCTTTTACACATTA
87135252 TTTATTTTAA
1 TTTATTTTAA
87135262 GCTCTTTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.12
27 7 0.21
28 1 0.03
29 21 0.64
ACGTcount: A:0.28, C:0.11, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTATTTTAAATCTCGCTTTTACACATTA
Found at i:87135364 original size:27 final size:25
Alignment explanation
Indices: 87135334--87135397 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 25
87135324 TTTATTTAAC
* *
87135334 ATATTATTTATTTGAAATTTGCTTTAT
1 ATATTATTTATATCAAA-TTG-TTTAT
87135361 ATATTATTTTATATCAAATTGTTTAT
1 ATATTA-TTTATATCAAATTGTTTAT
*
87135387 ATTTTATTTAT
1 ATATTATTTAT
87135398 GTTAAATCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 5 0.15
26 10 0.30
27 9 0.27
28 9 0.27
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.61
Consensus pattern (25 bp):
ATATTATTTATATCAAATTGTTTAT
Found at i:87164524 original size:40 final size:40
Alignment explanation
Indices: 87164415--87164595 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
87164405 TATTCGGATG
* *
87164415 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
87164455 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
87164494 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
87164534 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
87164574 ATAACC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
87164596 TACTTGGTTT
Statistics
Matches: 131, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
39 50 0.38
40 81 0.62
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:87164584 original size:79 final size:79
Alignment explanation
Indices: 87164415--87164595 Score: 267
Period size: 79 Copynumber: 2.3 Consensus size: 79
87164405 TATTCGGATG
* *
87164415 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
87164480 TTGTGCAAGTTACT
66 TTGTGCAAGTTACT
* *
87164494 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
*
87164558 ATTTGTGCGAGTTACT
64 ATTTGTGCAAGTTACT
* *
87164574 ATAACC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
87164596 TACTTGGTTT
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
78 2 0.02
79 61 0.66
80 29 0.32
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATACCGGGCTAAGCCCGAAGGCAT
TTGTGCAAGTTACT
Found at i:87168780 original size:2 final size:2
Alignment explanation
Indices: 87168773--87168799 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
87168763 ATAAAAATCC
87168773 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
87168800 GATGTAACAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:87173182 original size:21 final size:20
Alignment explanation
Indices: 87173158--87173196 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
87173148 GAGTATTTTG
87173158 ATGTTTAATGATAGATTATGA
1 ATGTTTAATGATAG-TTATGA
*
87173179 ATGTTTGATGATAGTTAT
1 ATGTTTAATGATAGTTAT
87173197 TCAAGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (20 bp):
ATGTTTAATGATAGTTATGA
Found at i:87173745 original size:26 final size:26
Alignment explanation
Indices: 87173716--87173768 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
87173706 TTGAACCTTA
87173716 GGAATAAATTAAGATTCTAGTGACAT
1 GGAATAAATTAAGATTCTAGTGACAT
*
87173742 GGAATAAATTAGGATTCTAGTGACAT
1 GGAATAAATTAAGATTCTAGTGACAT
87173768 G
1 G
87173769 TCATTAGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.30
Consensus pattern (26 bp):
GGAATAAATTAAGATTCTAGTGACAT
Found at i:87173851 original size:48 final size:48
Alignment explanation
Indices: 87173780--87173893 Score: 183
Period size: 48 Copynumber: 2.4 Consensus size: 48
87173770 CATTAGGGAA
* * *
87173780 TACATTGATTTGGCTTTGGGCCATGATATAGGCACTTCGGGTGTGAGG
1 TACATTGATTTGGCTTCGAGCCATGATATAGACACTTCGGGTGTGAGG
* *
87173828 TACATTGATTTGGCTTCGAGCCATGATATAGACATTTCGGGTGTGAGT
1 TACATTGATTTGGCTTCGAGCCATGATATAGACACTTCGGGTGTGAGG
87173876 TACATTGATTTGGCTTCG
1 TACATTGATTTGGCTTCG
87173894 GGCTCAAAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.20, C:0.15, G:0.29, T:0.36
Consensus pattern (48 bp):
TACATTGATTTGGCTTCGAGCCATGATATAGACACTTCGGGTGTGAGG
Found at i:87191020 original size:22 final size:22
Alignment explanation
Indices: 87190995--87191045 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
87190985 TACTTTATAT
*
87190995 AAATTTTGTAGACTCAACAGGC
1 AAATTTTGTAGACTCAACAGGA
** * *
87191017 AAATTGAGTAGACTGAATAGGA
1 AAATTTTGTAGACTCAACAGGA
87191039 AAATTTT
1 AAATTTT
87191046 TACTAGACAC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (22 bp):
AAATTTTGTAGACTCAACAGGA
Found at i:87196792 original size:48 final size:48
Alignment explanation
Indices: 87196736--87196926 Score: 226
Period size: 48 Copynumber: 4.0 Consensus size: 48
87196726 CACTAGGGAA
87196736 TACATTGATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCGAGT
1 TACATTGATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCGAGT
* * **
87196784 TACATTGATTTGG-TGTTGAGCCATGATATAGGCACTTCGGATATGAGT
1 TACATTGATTTGGCT-TCGAGCCATGATATAGGCACTTCGGGTGCGAGT
* * * **
87196832 TACATTAATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGTAAGCT
1 TACATTGATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCGAG-T
* * *
87196881 T-CATTGATTTGGCTT-TAGGCCATGATATTGGCACTTAGGGTGCGAG
1 TACATTGATTTGGCTTCGA-GCCATGATATAGGCACTTCGGGTGCGAG
87196927 ACTCCGGAGT
Statistics
Matches: 121, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
47 1 0.01
48 117 0.97
49 3 0.02
ACGTcount: A:0.21, C:0.17, G:0.28, T:0.34
Consensus pattern (48 bp):
TACATTGATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCGAGT
Found at i:87196903 original size:96 final size:96
Alignment explanation
Indices: 87196736--87196916 Score: 260
Period size: 96 Copynumber: 1.9 Consensus size: 96
87196726 CACTAGGGAA
* *
87196736 TACATTGATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCGAGTTACATTGATTTGGTGTT
1 TACATTAATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCAAGTTACATTGATTTGGTGTT
87196801 GAGCCATGATATAGGCACTTCGGATATGAGT
66 GAGCCATGATATAGGCACTTCGGATATGAGT
* * *
87196832 TACATTAATTTGGCTTCGGGCCATGATATCGGCACTTCGGGTGTAAGCTT-CATTGATTTGGCT-
1 TACATTAATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCAAG-TTACATTGATTTGG-TG
*
87196895 TT-AGGCCATGATATTGGCACTT
64 TTGA-GCCATGATATAGGCACTT
87196917 AGGGTGCGAG
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
95 1 0.01
96 72 0.95
97 3 0.04
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.35
Consensus pattern (96 bp):
TACATTAATTTGGCTTCGAGCCATGATATAGGCACTTCGGGTGCAAGTTACATTGATTTGGTGTT
GAGCCATGATATAGGCACTTCGGATATGAGT
Found at i:87198876 original size:29 final size:29
Alignment explanation
Indices: 87198812--87198877 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
87198802 AAACTGTCCA
**
87198812 GTGCCACAAGGTTATGTGGTAGACAGTGT
1 GTGCCACAAGGCCATGTGGTAGACAGTGT
** *
87198841 GCACCACAAGGCCATGTGGTAGACTGTGT
1 GTGCCACAAGGCCATGTGGTAGACAGTGT
87198870 GTGCCACA
1 GTGCCACA
87198878 CAACTGTGTG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (29 bp):
GTGCCACAAGGCCATGTGGTAGACAGTGT
Found at i:87198885 original size:17 final size:17
Alignment explanation
Indices: 87198863--87198906 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
87198853 CATGTGGTAG
87198863 ACTGTGTGTGCCACACA
1 ACTGTGTGTGCCACACA
*
87198880 ACTGTGTGTACCACACA
1 ACTGTGTGTGCCACACA
*
87198897 ATTGTGTGTG
1 ACTGTGTGTG
87198907 TTTTTGAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (17 bp):
ACTGTGTGTGCCACACA
Found at i:87205909 original size:15 final size:15
Alignment explanation
Indices: 87205878--87205929 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
87205868 GGATATGATT
*
87205878 TGATATGATATGATA
1 TGATATGATAAGATA
*
87205893 TGATATGATAAGCTA
1 TGATATGATAAGATA
* * *
87205908 TGCTATGTTCA-ATA
1 TGATATGATAAGATA
87205922 TGATATGA
1 TGATATGA
87205930 CATGTCGCAA
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 8 0.28
15 21 0.72
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (15 bp):
TGATATGATAAGATA
Found at i:87205914 original size:5 final size:5
Alignment explanation
Indices: 87205869--87205902 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
87205859 ATAGGGGTAG
*
87205869 GATAT GATTT GATAT GATAT GATAT GATAT GATA
1 GATAT GATAT GATAT GATAT GATAT GATAT GATA
87205903 AGCTATGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (5 bp):
GATAT
Found at i:87210437 original size:12 final size:12
Alignment explanation
Indices: 87210420--87210478 Score: 66
Period size: 12 Copynumber: 4.8 Consensus size: 12
87210410 GCCACTTTTA
87210420 TTTTATTTTAAT
1 TTTTATTTTAAT
*
87210432 TTTTATTTTGA-
1 TTTTATTTTAAT
*
87210443 TTTTAGTTTAAT
1 TTTTATTTTAAT
87210455 TTTTACATTTTAAT
1 TTTT--ATTTTAAT
*
87210469 TTTTCTTTTA
1 TTTTATTTTA
87210479 CTTGCTTCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
11 9 0.23
12 19 0.49
14 11 0.28
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTATTTTAAT
Found at i:87210445 original size:23 final size:22
Alignment explanation
Indices: 87210415--87210459 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
87210405 ATTTAGCCAC
*
87210415 TTTTATTTTATTTTAATTTTTA
1 TTTTATTTTAGTTTAATTTTTA
87210437 TTTTGATTTTAGTTTAATTTTTA
1 TTTT-ATTTTAGTTTAATTTTTA
87210460 CATTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.73
Consensus pattern (22 bp):
TTTTATTTTAGTTTAATTTTTA
Found at i:87215277 original size:30 final size:29
Alignment explanation
Indices: 87215182--87215278 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 29
87215172 AGCTGACTCC
* *
87215182 TAGCTC-ACTGTCAACTCACGAGCTAAACCT
1 TAGCTCAACT-TCAGCTCACGAG-TAAAGCT
* * **
87215212 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTCAGCTCACGAGTAAAG-CT
* *
87215242 CAGCTCAACTTTAGCTCACGAGATAAAGCT
1 TAGCTCAACTTCAGCTCACGAG-TAAAGCT
87215272 TAGCTCA
1 TAGCTCA
87215279 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
29 2 0.04
30 43 0.84
31 6 0.12
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (29 bp):
TAGCTCAACTTCAGCTCACGAGTAAAGCT
Found at i:87216964 original size:12 final size:12
Alignment explanation
Indices: 87216947--87216990 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
87216937 TATACAAGTC
87216947 AAAAAAAATTCG
1 AAAAAAAATTCG
87216959 AAAAAAAATTC-
1 AAAAAAAATTCG
*
87216970 AAAAAAAATTTG
1 AAAAAAAATTCG
87216982 AAAAGAAAA
1 AAAA-AAAA
87216991 AAAATCTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 10 0.34
12 15 0.52
13 4 0.14
ACGTcount: A:0.73, C:0.05, G:0.07, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:87216971 original size:23 final size:24
Alignment explanation
Indices: 87216945--87216990 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
87216935 GTTATACAAG
87216945 TCAAAAAAAATTCGAAAA-AAAAT
1 TCAAAAAAAATTCGAAAAGAAAAT
*
87216968 TCAAAAAAAATTTGAAAAGAAAA
1 TCAAAAAAAATTCGAAAAGAAAA
87216991 AAAATCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.70, C:0.07, G:0.07, T:0.17
Consensus pattern (24 bp):
TCAAAAAAAATTCGAAAAGAAAAT
Found at i:87216992 original size:17 final size:16
Alignment explanation
Indices: 87216970--87217006 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
87216960 AAAAAAATTC
*
87216970 AAAAAAAATTTGAAAA
1 AAAAAAAATCTGAAAA
87216986 GAAAAAAAATCTGAAAA
1 -AAAAAAAATCTGAAAA
87217003 AAAA
1 AAAA
87217007 TGTTTAATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.76, C:0.03, G:0.08, T:0.14
Consensus pattern (16 bp):
AAAAAAAATCTGAAAA
Found at i:87217926 original size:9 final size:10
Alignment explanation
Indices: 87217919--87217975 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
87217909 AAGAGAAAAC
87217919 AAAGAAAAGA
1 AAAGAAAAGA
87217929 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
87217941 AAAGAAGA-A
1 AAAGAAAAGA
87217950 AAAGAAAATGA
1 AAAGAAAA-GA
87217961 AATA-AAAAGA
1 AA-AGAAAAGA
87217971 AAAGA
1 AAAGA
87217976 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:87217942 original size:21 final size:20
Alignment explanation
Indices: 87217909--87217975 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 20
87217899 CATTCTTGTC
87217909 AAGAGAAAA-CAAAGAAAAGAA
1 AAGA-AAAAGCAAA-AAAAGAA
*
87217930 AAGAAAAAGCAAAAGAAGAAA
1 AAGAAAAAGCAAAAAAAG-AA
* *
87217951 AAGAAAATGAAATAAAAAGAA
1 AAGAAAAAGCAA-AAAAAGAA
87217972 AAGA
1 AAGA
87217976 GAGGCAAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 8 0.21
21 26 0.67
22 5 0.13
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (20 bp):
AAGAAAAAGCAAAAAAAGAA
Found at i:87217943 original size:6 final size:5
Alignment explanation
Indices: 87217919--87217975 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
87217909 AAGAGAAAAC
*
87217919 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
87217966 AAAGA AAAGA
1 AAAGA AAAGA
87217976 GAGGCAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:87217950 original size:15 final size:14
Alignment explanation
Indices: 87217919--87217975 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
87217909 AAGAGAAAAC
87217919 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
87217935 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
87217950 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
87217966 AAAGAAAAGA
1 AAAGAAAAGA
87217976 GAGGCAAGAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:87218052 original size:12 final size:12
Alignment explanation
Indices: 87218044--87218068 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
87218034 TTTGAAAAGA
87218044 AAAAAGAAAATG
1 AAAAAGAAAATG
87218056 AAAAAGAAAATG
1 AAAAAGAAAATG
87218068 A
1 A
87218069 GATTGAAAAA
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:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:87218078 original size:30 final size:31
Alignment explanation
Indices: 87218044--87218125 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
87218034 TTTGAAAAGA
87218044 AAAAAGAAAATGAAAAAGAAA-ATGAGAT-TG
1 AAAAAGAAAATGAAAAAGAAATATGAG-TGTG
* * *
87218074 AAAAAGAGAACG-AAAAGAAATTTGAGTGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGTGTG
*
87218104 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAATGAAAAAGAAAT
87218126 TGAAACAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 9 0.21
30 25 0.58
31 9 0.21
ACGTcount: A:0.63, C:0.01, G:0.22, T:0.13
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGTGTG
Found at i:87219023 original size:13 final size:13
Alignment explanation
Indices: 87219007--87219033 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
87218997 ATGGAAACAT
87219007 TAAGCAGTTTGCA
1 TAAGCAGTTTGCA
87219020 TAAGCAGTTTGCA
1 TAAGCAGTTTGCA
87219033 T
1 T
87219034 CATTTGCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (13 bp):
TAAGCAGTTTGCA
Found at i:87220275 original size:30 final size:31
Alignment explanation
Indices: 87220241--87220337 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
87220231 AGCTCACTCC
*
87220241 TAGCTC-ACTTTCAACTCACGAGCTAAACCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* * * * *
87220271 TAGCTCAAC-TTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
* *
87220301 CAGCTCAACTTT-AGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTCAGCTCACGAGCTAAACCT
87220331 TAGCTCA
1 TAGCTCA
87220338 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
30 47 0.92
31 4 0.08
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.28
Consensus pattern (31 bp):
TAGCTCAACTTTCAGCTCACGAGCTAAACCT
Found at i:87225881 original size:17 final size:18
Alignment explanation
Indices: 87225830--87225953 Score: 171
Period size: 17 Copynumber: 6.8 Consensus size: 18
87225820 TCATATCTTT
*
87225830 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
*
87225849 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
87225867 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
87225884 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
87225902 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
87225919 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
87225938 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
87225954 TGAAGATTAT
Statistics
Matches: 95, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
17 32 0.34
18 32 0.34
19 31 0.33
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:87225885 original size:35 final size:35
Alignment explanation
Indices: 87225830--87225945 Score: 196
Period size: 35 Copynumber: 3.2 Consensus size: 35
87225820 TCATATCTTT
87225830 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
87225867 TAAGATTGTATCATATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
87225902 TAAGATTGTATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
87225938 TAAGATTG
1 TAAGATTG
87225946 CATATCATTG
Statistics
Matches: 77, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
35 54 0.70
36 15 0.19
37 8 0.10
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:87227020 original size:206 final size:207
Alignment explanation
Indices: 87226361--87227266 Score: 1510
Period size: 207 Copynumber: 4.4 Consensus size: 207
87226351 AAATTGTTTC
* *
87226361 CTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATC
1 CTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATC
* *
87226426 AGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATC-TGCTTCAG
66 AGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAG
* ** * * *
87226490 TATAATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCAAATATGGAGACACCAAACT
131 TATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAATATGGAGACGCCAAACT
*
87226555 TTGATTTGTTCT
196 TCGATTTGTTCT
* *
87226567 CTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAACGTAAACATGTGAAAGCCAAATC
1 CTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATC
* * *
87226632 AGTTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTCCGG
66 AGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAG
* * * *
87226697 TATAAAAATCTGAAGGCCAGATCTACTATGTGCCTGCCCTCCGTCGAATATGGAGACGCCAAACT
131 TATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAATATGGAGACGCCAAACT
87226762 TCGATTTGTTCT
196 TCGATTTGTTCT
*
87226774 CTAACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATC
1 CTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATC
87226839 AGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCAT-TTGGATCTTGCTTCAG
66 AGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAG
* *
87226903 TATAAACATCTGAAGGCCAGATCTGCTATGTGTCTACCCTCCATCAAATATGGAGACGCCAAACT
131 TATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAATATGGAGACGCCAAACT
87226968 TCGATTTGTTCT
196 TCGATTTGTTCT
* * *
87226980 CTGACAATACAGAGATGCCAAATCATTTTAGACATGCTTCAACATAAACACGTGAAAGCCAAATC
1 CTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATC
*
87227045 AGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTACTTCAG
66 AGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAG
*
87227110 TATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTTCGTCAAATATGGAGACGCCAAACT
131 TATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAATATGGAGACGCCAAACT
87227175 TCGATTTGTTCT
196 TCGATTTGTTCT
* * * *
87227187 CTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCACGTGAAAGCCAAATC
1 CTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATC
87227252 AGCTATGTCTTCGAT
66 AGCTATGTCTTCGAT
87227267 CTGCTCTCTG
Statistics
Matches: 653, Mismatches: 45, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
206 308 0.47
207 345 0.53
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (207 bp):
CTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATC
AGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTTGCTTCAG
TATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCAAATATGGAGACGCCAAACT
TCGATTTGTTCT
Found at i:87227131 original size:413 final size:413
Alignment explanation
Indices: 87226364--87227272 Score: 1514
Period size: 413 Copynumber: 2.2 Consensus size: 413
87226354 TTGTTTCCTG
*
87226364 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAACACGTGAAAGCCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGC
87226429 TATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTATA
66 TATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTATA
* ** ** * *
87226494 ATCATCTGAAGGTTAGATCTGCTATATGTCTGTCCTCCGTCAAATATGGAGACACCAAACTTTGA
131 AACATCTGAAGGCCAGATCTGCTATATGTCTACCCTCCATCAAATATGGAGACACCAAACTTCGA
* * * *
87226559 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAACGTAAACATGTGAAA
196 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACATGCTTCAACATAAACACGTGAAA
*
87226624 GCCAAATCAGTTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
261 GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
* * *
87226689 TGCTCCGGTATAAAAATCTGAAGGCCAGATCTACTATGTGCCTGCCCTCCGTCGAATATGGAGAC
326 TACTCCAGTATAAAAATCTGAAGGCCAGATCTACTATGTGCCTGCCCTCCGTCAAATATGGAGAC
87226754 GCCAAACTTCGATTTGTTCTCTA
391 GCCAAACTTCGATTTGTTCTCTA
*
87226777 ACAATACAGAGATGCCAAATCATCTTAGACTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGC
* *
87226842 TATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCAT-TTGGATCTTGCTTCAGTAT
66 TATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATC-TGCTTCAGTAT
* *
87226906 AAACATCTGAAGGCCAGATCTGCTATGTGTCTACCCTCCATCAAATATGGAGACGCCAAACTTCG
130 AAACATCTGAAGGCCAGATCTGCTATATGTCTACCCTCCATCAAATATGGAGACACCAAACTTCG
*
87226971 ATTTGTTCTCTGACAATACAGAGATGCCAAATCATTTTAGACATGCTTCAACATAAACACGTGAA
195 ATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACATGCTTCAACATAAACACGTGAA
87227036 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
260 AGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATC
* * * * *
87227101 TTACTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTTCGTCAAATATGGAGA
325 TTACTCCAGTATAAAAATCTGAAGGCCAGATCTACTATGTGCCTGCCCTCCGTCAAATATGGAGA
*
87227166 CGCCAAACTTCGATTTGTTCTCTG
390 CGCCAAACTTCGATTTGTTCTCTA
* * *
87227190 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCACGTGAAAGCCAAATCAGC
1 ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGC
*
87227255 TATGTCTTCGATCTGCTC
66 TATGTCTTCGATTTGCTC
87227273 TCTGTCGAAT
Statistics
Matches: 461, Mismatches: 34, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
412 7 0.02
413 454 0.98
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.29
Consensus pattern (413 bp):
ACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGC
TATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTGGATCTGCTTCAGTATA
AACATCTGAAGGCCAGATCTGCTATATGTCTACCCTCCATCAAATATGGAGACACCAAACTTCGA
TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACATGCTTCAACATAAACACGTGAAA
GCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCT
TACTCCAGTATAAAAATCTGAAGGCCAGATCTACTATGTGCCTGCCCTCCGTCAAATATGGAGAC
GCCAAACTTCGATTTGTTCTCTA
Found at i:87227549 original size:87 final size:86
Alignment explanation
Indices: 87227446--87227764 Score: 397
Period size: 87 Copynumber: 3.8 Consensus size: 86
87227436 ATCTACTCCA
* * * *
87227446 CTACTGCTTAGGGAGATAAGATCCGCAATTTTGACCTGTTTCCCTACTACTTAGAGGATTAAGGT
1 CTACTGCTTAGGGAGATAAGATCTGCAATTTTGACCTGTTACCCTACTGCTTAGAGGATTAAGGC
*
87227511 GAGTCGTCATTGATCTGTTCCG
66 GAGTCGTC-TCGATCTGTTCCG
* *
87227533 CTACTGCTTAGGGAGATAAGATCTGTAATTTT-AGCCTGTTACCCTACTGCTTAGAGGGTTAAGG
1 CTACTGCTTAGGGAGATAAGATCTGCAATTTTGA-CCTGTTACCCTACTGCTTAGAGGATTAAGG
*
87227597 CGAGTCGTCGTCAATCTGCTT-CG
65 CGAGTCGTC-TCGATCTG-TTCCG
*
87227620 CTACTGCTTAGGGAGATAAGATCTG------TGAACCTGTTACCCTACTGCTTAGGGGATTAAGG
1 CTACTGCTTAGGGAGATAAGATCTGCAATTTTG-ACCTGTTACCCTACTGCTTAGAGGATTAAGG
* *
87227679 CGAGTC-T-TCGATCTGCTCCA
65 CGAGTCGTCTCGATCTGTTCCG
* * *
87227699 CTACTGCTTAGGGAGATAAGATCTGCAAATTTAACCTGTTACCCTACTGCTTAGGGGATTAAGGC
1 CTACTGCTTAGGGAGATAAGATCTGCAATTTTGACCTGTTACCCTACTGCTTAGAGGATTAAGGC
87227764 G
66 G
87227765 CTGAATTTTG
Statistics
Matches: 206, Mismatches: 15, Indels: 25
0.84 0.06 0.10
Matches are distributed among these distances:
78 1 0.00
79 33 0.16
81 2 0.01
82 34 0.17
83 1 0.00
84 33 0.16
85 1 0.00
86 1 0.00
87 98 0.48
88 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (86 bp):
CTACTGCTTAGGGAGATAAGATCTGCAATTTTGACCTGTTACCCTACTGCTTAGAGGATTAAGGC
GAGTCGTCTCGATCTGTTCCG
Found at i:87228720 original size:22 final size:21
Alignment explanation
Indices: 87228694--87228763 Score: 90
Period size: 21 Copynumber: 3.3 Consensus size: 21
87228684 GGACTCTCCA
87228694 TTTTTTA-TTTTTTCTCTTTTT
1 TTTTTTATTTTTTTCTC-TTTT
87228715 TATTTTTATTTTTTTCTCTTTT
1 T-TTTTTATTTTTTTCTCTTTT
*
87228737 TCTTTTATTTTTTTGC-CTTTT
1 TTTTTTATTTTTTT-CTCTTTT
87228758 TTTTTT
1 TTTTTT
87228764 GAAATAGAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
21 23 0.52
22 12 0.27
23 9 0.20
ACGTcount: A:0.06, C:0.10, G:0.01, T:0.83
Consensus pattern (21 bp):
TTTTTTATTTTTTTCTCTTTT
Found at i:87234507 original size:17 final size:18
Alignment explanation
Indices: 87234453--87234576 Score: 162
Period size: 17 Copynumber: 6.8 Consensus size: 18
87234443 TCATATCTTT
*
87234453 TAAGATTGTATATCATATC
1 TAAGATTG-CTATCATATC
*
87234472 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
*
87234490 TAAGATTG-TATCAAATC
1 TAAGATTGCTATCATATC
*
87234507 TAAGATTGCAATCATATC
1 TAAGATTGCTATCATATC
87234525 TAAGATTG-TATCATATC
1 TAAGATTGCTATCATATC
*
87234542 TAAGATTGCATATCACATC
1 TAAGATTGC-TATCATATC
87234561 TAAGATTGCATATCAT
1 TAAGATTGC-TATCAT
87234577 TGAAGATTAT
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
17 31 0.33
18 31 0.33
19 31 0.33
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TAAGATTGCTATCATATC
Found at i:87234509 original size:35 final size:35
Alignment explanation
Indices: 87234453--87234568 Score: 187
Period size: 35 Copynumber: 3.2 Consensus size: 35
87234443 TCATATCTTT
87234453 TAAGATTGTATATCATATCTAAGATTGCAATCATATC
1 TAAGATTG--TATCATATCTAAGATTGCAATCATATC
*
87234490 TAAGATTGTATCAAATCTAAGATTGCAATCATATC
1 TAAGATTGTATCATATCTAAGATTGCAATCATATC
*
87234525 TAAGATTGTATCATATCTAAGATTGCATATCACATC
1 TAAGATTGTATCATATCTAAGATTGCA-ATCATATC
87234561 TAAGATTG
1 TAAGATTG
87234569 CATATCATTG
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
35 52 0.69
36 15 0.20
37 8 0.11
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (35 bp):
TAAGATTGTATCATATCTAAGATTGCAATCATATC
Found at i:87239070 original size:43 final size:42
Alignment explanation
Indices: 87239023--87239159 Score: 132
Period size: 43 Copynumber: 3.2 Consensus size: 42
87239013 TCCCGGACGT
* * * *
87239023 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACACGTAAATCAA-ATCGATGCCTATGTCCCAGACAC
* * *
87239066 GGTCTTACACG-AAATCAAATAAGATGCCGATGTCCCAGACAT
1 GGTCTTACACGTAAATCAAAT-CGATGCCTATGTCCCAGACAC
* ** * *
87239108 GGTCTTATACGTAAATCTCCATCGAGGCCTGTGTCCCAGACAC
1 GGTCTTACACGTAAATC-AAATCGATGCCTATGTCCCAGACAC
87239151 GGTCTTACA
1 GGTCTTACA
87239160 TGATGTCTCA
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
41 2 0.03
42 33 0.43
43 39 0.51
44 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (42 bp):
GGTCTTACACGTAAATCAAATCGATGCCTATGTCCCAGACAC
Found at i:87244369 original size:38 final size:38
Alignment explanation
Indices: 87244321--87244396 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
87244311 TGGGAGTAAG
87244321 AAAATTATTTATGGTTTTGTGTATGATTCATGATTAGT
1 AAAATTATTTATGGTTTTGTGTATGATTCATGATTAGT
87244359 AAAATTATTTATGGTTTTGTGTATGATTCATGATTAGT
1 AAAATTATTTATGGTTTTGTGTATGATTCATGATTAGT
87244397 TAAGTCCACA
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:0.29, C:0.03, G:0.18, T:0.50
Consensus pattern (38 bp):
AAAATTATTTATGGTTTTGTGTATGATTCATGATTAGT
Found at i:87245476 original size:2 final size:2
Alignment explanation
Indices: 87245469--87245507 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
87245459 ACTATTCTAT
87245469 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
87245508 TAAATATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:87249340 original size:3 final size:3
Alignment explanation
Indices: 87249334--87249370 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
87249324 TTTTTAAACC
87249334 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
87249371 GTTGTTGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:87249700 original size:28 final size:30
Alignment explanation
Indices: 87249657--87249712 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
87249647 AAACTAAATA
*
87249657 ATTTTATATTGTTA-TTA-TTACATTATTT
1 ATTTTATATTGGTATTTACTTACATTATTT
*
87249685 ATTTTATTTTGGTATTTACTTACATTAT
1 ATTTTATATTGGTATTTACTTACATTAT
87249713 CACAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 12 0.50
29 3 0.12
30 9 0.38
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (30 bp):
ATTTTATATTGGTATTTACTTACATTATTT
Found at i:87253577 original size:39 final size:39
Alignment explanation
Indices: 87253532--87253652 Score: 224
Period size: 39 Copynumber: 3.1 Consensus size: 39
87253522 ATGCAAGACA
*
87253532 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
87253571 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
87253610 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
87253649 CTGG
1 CTGG
87253653 TAATATAATT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.20, C:0.26, G:0.31, T:0.22
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
Found at i:87256477 original size:19 final size:19
Alignment explanation
Indices: 87256453--87256498 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
87256443 CTTTCTTTCT
87256453 TTTGCATT-CATTCCATGCA
1 TTTGCATTGCATTCCAT-CA
* *
87256472 TTTGCATTGTATTGCATCA
1 TTTGCATTGCATTCCATCA
87256491 TTTGCATT
1 TTTGCATT
87256499 AGACTTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.20, C:0.20, G:0.13, T:0.48
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:87258640 original size:6 final size:6
Alignment explanation
Indices: 87258626--87258666 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
87258616 GCACTATATT
*
87258626 GCAAAG GCAAGG GCAAAG GCAAAG GCAAAG GCAAAG GCAAA
1 GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG GCAAAG GCAAA
87258667 AAAAAAAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.49, C:0.17, G:0.34, T:0.00
Consensus pattern (6 bp):
GCAAAG
Found at i:87259283 original size:14 final size:15
Alignment explanation
Indices: 87259245--87259281 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
87259235 TAAGACCTTC
87259245 AAAAAAAAAG-AAAG
1 AAAAAAAAAGAAAAG
87259259 AAAAAAAAAGAAAAG
1 AAAAAAAAAGAAAAG
87259274 ACAAAAAA
1 A-AAAAAA
87259282 GAGGCCAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 10 0.48
15 5 0.24
16 6 0.29
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAGAAAAG
Found at i:87261227 original size:46 final size:45
Alignment explanation
Indices: 87261160--87261331 Score: 197
Period size: 46 Copynumber: 3.7 Consensus size: 45
87261150 TAACCCCCCC
*
87261160 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCATCCA
* * *
87261206 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG-ATGC-CTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--TCCA
* * *
87261252 TTTCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCATCCA
87261299 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
87261332 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 59 0.57
47 29 0.28
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCATCCA
Found at i:87261272 original size:93 final size:93
Alignment explanation
Indices: 87261165--87261335 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
87261155 CCCCCTAAGT
*
87261165 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGAACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
87261229 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
* *
87261258 GAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
87261323 CGAGTTCGGATGC
66 CGAGTTCGGATGC
87261336 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:87261398 original size:24 final size:24
Alignment explanation
Indices: 87261366--87261414 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
87261356 TCACTTGTAT
87261366 CCTAATCTATTCCTAAGGTTCAAA
1 CCTAATCTATTCCTAAGGTTCAAA
87261390 CCTAATCTATTCCTAAGGTTCAAA
1 CCTAATCTATTCCTAAGGTTCAAA
87261414 C
1 C
87261415 GGGATTTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.27, G:0.08, T:0.33
Consensus pattern (24 bp):
CCTAATCTATTCCTAAGGTTCAAA
Found at i:87261811 original size:30 final size:29
Alignment explanation
Indices: 87261777--87261835 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
87261767 ATTTAATACG
87261777 AACTTTGGAAAAATTACACTTTTACCCCTA
1 AACTTTGGAAAAATTACACTTTT-CCCCTA
* * *
87261807 AACTTTTGCATAATTACACTTTTCCCCTA
1 AACTTTGGAAAAATTACACTTTTCCCCTA
87261836 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 6 0.23
30 20 0.77
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.37
Consensus pattern (29 bp):
AACTTTGGAAAAATTACACTTTTCCCCTA
Found at i:87269668 original size:48 final size:48
Alignment explanation
Indices: 87269593--87269735 Score: 232
Period size: 48 Copynumber: 3.0 Consensus size: 48
87269583 ACTTGGGAGT
*
87269593 CTCGCACCCTAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA
* *
87269641 CTTGCACCCGAAGTGCCAATATTATGGCCCAAAGCCAAATCAATGTAA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA
* **
87269689 CTCGCACCCGAAGTGCCAATATCATAGCCTGAAGCCAAATCAATGTA
1 CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTA
87269736 TTCCCTAATG
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.35, C:0.29, G:0.16, T:0.20
Consensus pattern (48 bp):
CTCGCACCCGAAGTGCCAATATCATGGCCCAAAGCCAAATCAATGTAA
Found at i:87274916 original size:18 final size:18
Alignment explanation
Indices: 87274895--87274933 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
87274885 TAAATAAGAT
*
87274895 AAATAAAGATAA-AAGTAA
1 AAATAAA-ATAATAAATAA
87274913 AAATAAAATAATAAATAA
1 AAATAAAATAATAAATAA
87274931 AAA
1 AAA
87274934 GTTTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (18 bp):
AAATAAAATAATAAATAA
Found at i:87274918 original size:12 final size:11
Alignment explanation
Indices: 87274864--87274932 Score: 57
Period size: 12 Copynumber: 5.9 Consensus size: 11
87274854 TAATTTAAAG
*
87274864 AAAAATGAAAT
1 AAAAATAAAAT
* *
87274875 AAAAATTAATT
1 AAAAATAAAAT
*
87274886 AAATAAGATAAAT
1 AAA-AATA-AAAT
*
87274899 AAAGATAAAAGT
1 AAAAATAAAA-T
87274911 AAAAATAAAAT
1 AAAAATAAAAT
87274922 AATAAATAAAA
1 AA-AAATAAAA
87274933 AGTTTTTAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
11 18 0.39
12 22 0.48
13 6 0.13
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:87286829 original size:43 final size:41
Alignment explanation
Indices: 87286780--87286897 Score: 149
Period size: 36 Copynumber: 2.9 Consensus size: 41
87286770 TTTTTATAAG
87286780 TATATATTTATGTATTACGTAAATTATGTAAGTTATGATATGA
1 TATATATTTATGTATTA-GT-AATTATGTAAGTTATGATATGA
87286823 TATATATTTATGTA--AG---TTATGTAAGTTAT-AGTATGA
1 TATATATTTATGTATTAGTAATTATGTAAGTTATGA-TATGA
87286859 TATATATTTATGTATTATGTAAGTTATGTAAGTTATGAT
1 TATATATTTATGTATTA-GTAA-TTATGTAAGTTATGAT
87286898 CCAAAGTATT
Statistics
Matches: 66, Mismatches: 0, Indels: 18
0.79 0.00 0.21
Matches are distributed among these distances:
35 1 0.02
36 32 0.48
38 1 0.02
39 1 0.02
40 1 0.02
41 1 0.02
43 28 0.42
44 1 0.02
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (41 bp):
TATATATTTATGTATTAGTAATTATGTAAGTTATGATATGA
Found at i:87286842 original size:9 final size:9
Alignment explanation
Indices: 87286830--87286895 Score: 66
Period size: 9 Copynumber: 7.6 Consensus size: 9
87286820 TGATATATAT
87286830 TTATGTAAG
1 TTATGTAAG
87286839 TTATGTAAG
1 TTATGTAAG
*
87286848 TTATAGTATG
1 TTAT-GTAAG
* * *
87286858 ATATAT-AT
1 TTATGTAAG
87286866 TTATGT-A-
1 TTATGTAAG
87286873 TTATGTAAG
1 TTATGTAAG
87286882 TTATGTAAG
1 TTATGTAAG
87286891 TTATG
1 TTATG
87286896 ATCCAAAGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
7 6 0.13
8 6 0.13
9 28 0.60
10 7 0.15
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:87286979 original size:35 final size:35
Alignment explanation
Indices: 87286916--87286996 Score: 117
Period size: 35 Copynumber: 2.3 Consensus size: 35
87286906 TTTTTTTATT
* *
87286916 CTTTAAATATTTACGTAAATTATGATAATCATAAA
1 CTTTAAATATTTACATAAATTATAATAATCATAAA
* * *
87286951 CTTTAAATGTTTATATAAGTTATAATAATCATAAA
1 CTTTAAATATTTACATAAATTATAATAATCATAAA
87286986 CTTTAAATATT
1 CTTTAAATATT
87286997 ATTAAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.43
Consensus pattern (35 bp):
CTTTAAATATTTACATAAATTATAATAATCATAAA
Found at i:87288293 original size:2 final size:2
Alignment explanation
Indices: 87288286--87288325 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
87288276 CTATTTAAAC
87288286 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
87288326 GCATCAGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87289144 original size:18 final size:20
Alignment explanation
Indices: 87289121--87289169 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 20
87289111 TTATGATTTT
87289121 GATTTGGGGAAAATTT-AGG
1 GATTTGGGGAAAATTTGAGG
87289140 G-TTTGGGG-AAATTTGAGG
1 GATTTGGGGAAAATTTGAGG
*
87289158 GATTTAGGGAAA
1 GATTTGGGGAAA
87289170 TTTTTTATGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 6 0.23
18 11 0.42
19 7 0.27
20 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.39, T:0.31
Consensus pattern (20 bp):
GATTTGGGGAAAATTTGAGG
Found at i:87289169 original size:19 final size:18
Alignment explanation
Indices: 87289121--87289172 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
87289111 TTATGATTTT
87289121 GATTTGGGGAAAATTTAGG
1 GATTTGGGG-AAATTTAGG
87289140 G-TTTGGGGAAATTTGAGG
1 GATTTGGGGAAATTT-AGG
*
87289158 GATTTAGGGAAATTT
1 GATTTGGGGAAATTT
87289173 TTTATGGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 6 0.20
18 11 0.37
19 13 0.43
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (18 bp):
GATTTGGGGAAATTTAGG
Found at i:87289963 original size:7 final size:7
Alignment explanation
Indices: 87289953--87290015 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
87289943 ACCCTAAATA
87289953 ATAAACC
1 ATAAACC
87289960 ATAAACC
1 ATAAACC
*
87289967 CTAAAACC
1 AT-AAACC
87289975 AT-AACC
1 ATAAACC
87289981 ACTAAA-C
1 A-TAAACC
87289988 ATGAAACC
1 AT-AAACC
*
87289996 CTAAACC
1 ATAAACC
*
87290003 CTAAACC
1 ATAAACC
87290010 ATAAAC
1 ATAAAC
87290016 TCTAAACTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
6 6 0.13
7 31 0.66
8 10 0.21
ACGTcount: A:0.52, C:0.32, G:0.02, T:0.14
Consensus pattern (7 bp):
ATAAACC
Found at i:87289980 original size:21 final size:22
Alignment explanation
Indices: 87289933--87289987 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
87289923 ATTTTTATTA
*
87289933 AAACCTCTAAACCCTAAATAAT
1 AAACCACTAAACCCTAAATAAT
87289955 AAACCA-TAAACCCTAAA-ACCAT
1 AAACCACTAAACCCTAAATA--AT
87289977 -AACCACTAAAC
1 AAACCACTAAAC
87289988 ATGAAACCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 1 0.03
21 16 0.55
22 12 0.41
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (22 bp):
AAACCACTAAACCCTAAATAAT
Done.