Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 143 of 295
Found at i:48714165 original size:55 final size:54
Alignment explanation
Indices: 48714050--48714168 Score: 125
Period size: 55 Copynumber: 2.2 Consensus size: 54
48714040 CTTAAATTTT
* * * * *
48714050 TAAA-TCAGTATTGTCCACGGTTAGGCCACACGGGCGTGTGCCATAGCCGTGTC
1 TAAAGTCAGTATTGTCCACGGGTAGGCCACACAGGCATGTGCCATAGCCATGCC
* * *
48714103 TATAAGTCAGTATT-TCCCATGGGTAGGCCACACAGGCATGTGTCATGGCCATGCCC
1 TA-AAGTCAGTATTGT-CCACGGGTAGGCCACACAGGCATGTGCCATAGCCATG-CC
48714159 TAAAGTCAGT
1 TAAAGTCAGT
48714169 GTCGCATACG
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
53 2 0.04
54 3 0.06
55 46 0.85
56 3 0.06
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (54 bp):
TAAAGTCAGTATTGTCCACGGGTAGGCCACACAGGCATGTGCCATAGCCATGCC
Found at i:48718557 original size:33 final size:34
Alignment explanation
Indices: 48718480--48718560 Score: 94
Period size: 33 Copynumber: 2.4 Consensus size: 34
48718470 TATGGGCCAT
*
48718480 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
* * **
48718514 AATGTAATCTGAA-AA-GGGCTCTGGCCCAGTATC
1 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGT-TC
48718547 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
48718561 GGGCTTAGGC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (34 bp):
ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTC
Found at i:48718565 original size:32 final size:30
Alignment explanation
Indices: 48718480--48718573 Score: 71
Period size: 32 Copynumber: 2.9 Consensus size: 30
48718470 TATGGGCCAT
* *
48718480 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAT---GGGCT-TGGCCCAGTTC
* * *
48718514 AATGTAATCTGAAAAGGGCTCTGGCCCAGTATC
1 ACTGTTATCTG-AATGGGCT-TGGCCCAGT-TC
48718547 ACTGTTATCTGAATGGGCTTAGGCCCA
1 ACTGTTATCTGAATGGGCTT-GGCCCA
48718574 ATGGGCTTGA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
31 1 0.02
32 26 0.54
33 10 0.21
34 9 0.19
35 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.28
Consensus pattern (30 bp):
ACTGTTATCTGAATGGGCTTGGCCCAGTTC
Found at i:48726130 original size:14 final size:15
Alignment explanation
Indices: 48726102--48726130 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48726092 AGTTTTGACC
48726102 TAATATGTTTGACAT
1 TAATATGTTTGACAT
48726117 TAAT-TGTTTGACAT
1 TAATATGTTTGACAT
48726131 GTTAGGTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (15 bp):
TAATATGTTTGACAT
Found at i:48729238 original size:40 final size:40
Alignment explanation
Indices: 48729201--48729372 Score: 233
Period size: 40 Copynumber: 4.3 Consensus size: 40
48729191 GCTACTCGTT
* * *
48729201 CAAATGCCTTCGGGACATAGCCCG-GTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGAATT-TAGTAACTCGCA
*
48729241 CAATTGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
* * * *
48729281 CAAATGCCTTCGGG-CTTAGCCCG-TTATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAACCCGAAT-TTAGTAACTCGCA
48729320 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
48729360 CAAATGCCTTCGG
1 CAAATGCCTTCGG
48729373 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 13, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
38 1 0.01
39 33 0.29
40 78 0.68
41 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGAATTTAGTAACTCGCA
Found at i:48729302 original size:79 final size:80
Alignment explanation
Indices: 48729201--48729372 Score: 285
Period size: 79 Copynumber: 2.2 Consensus size: 80
48729191 GCTACTCGTT
*
48729201 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCACAATTGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACATAGCCC-GTTATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
48729265 AATTTAGTAACTCGCA
65 AATTTAGTAACTCGCA
* * *
48729281 CAAATGCCTTCGGG-CTTAGCCCGTTATTAGTATCTTGCACAAATGCCTTCGGGACTTAACCCGA
1 CAAATGCCTTCGGGACATAGCCCGTTATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
48729345 ATTTAGTAACTCGCA
66 ATTTAGTAACTCGCA
48729360 CAAATGCCTTCGG
1 CAAATGCCTTCGG
48729373 ATCTTAGTCC
Statistics
Matches: 87, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
78 4 0.05
79 69 0.79
80 14 0.16
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (80 bp):
CAAATGCCTTCGGGACATAGCCCGTTATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATTTAGTAACTCGCA
Found at i:48729409 original size:119 final size:120
Alignment explanation
Indices: 48729201--48729423 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
48729191 GCTACTCGTT
* * *
48729201 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCGA
1 CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
* * *
48729266 ATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGTTATTAGTATCTTGCA
66 ATATAGTAACTAGAACAAATGCCTTCGGGACTTAGCCCGTTATTAGTATCTTGCA
* **
48729320 CAAATGCCTTCGGGACTTAACCCGAATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACCCG-ATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
48729383 GGATATGGTCACTTAGAACAAA-GCCTTCGGGACTTAGCCCG
64 GAATATAGTAAC-TAGAACAAATGCCTTCGGGACTTAGCCCG
48729424 GACATCATCC
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 67 0.76
120 18 0.20
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGA
ATATAGTAACTAGAACAAATGCCTTCGGGACTTAGCCCGTTATTAGTATCTTGCA
Found at i:48737086 original size:79 final size:78
Alignment explanation
Indices: 48736985--48737202 Score: 258
Period size: 79 Copynumber: 2.7 Consensus size: 78
48736975 GCTACTCGTT
* * *
48736985 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTAGCACAA-TGCCTTCGGGACTTAACCCAG
48737050 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* * * * *
48737065 CAAATGCCTTCGGGCTTAGCCC-GAAATTAGTATCTTGCACAAATGCCTTCGGGACTTAACTCGG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTAGCAC-AATGCCTTCGGGACTTAACCCAG
48737129 ATTTAGTAACTCGCA
64 ATTTAGTAACTCGCA
* * * * *
48737144 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTA
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TAGCACAATGCCTTCGGGACTTA
48737203 GCCCGGACAT
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.55
80 43 0.36
81 8 0.07
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.27
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTAGCACAATGCCTTCGGGACTTAACCCAGAT
TTAGTAACTCGCA
Found at i:48737193 original size:119 final size:120
Alignment explanation
Indices: 48736985--48737207 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
48736975 GCTACTCGTT
* *
48736985 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAACCCAG
1 CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
* *
48737050 ATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTTGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTATCTTGCA
* * **
48737104 CAAATGCCTTCGGGACTTAACTCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
48737167 GGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
64 AGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCG
48737208 GACATCATTC
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 67 0.75
120 19 0.21
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGAAATTAGTATCTTGCA
Found at i:48737209 original size:40 final size:40
Alignment explanation
Indices: 48736966--48737209 Score: 255
Period size: 40 Copynumber: 6.1 Consensus size: 40
48736956 CGGAATTTAA
** *
48736966 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
48737006 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
48737046 CCAGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
48737085 CC-GAAATTAGTATCTTGCACAAATGCCTTCGGGACTTAAC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
48737125 TCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
48737165 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
48737205 CCGGA
1 CCGGA
48737210 CATCATTCAA
Statistics
Matches: 168, Mismatches: 29, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
38 2 0.01
39 35 0.21
40 118 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:48746898 original size:33 final size:33
Alignment explanation
Indices: 48746832--48747020 Score: 143
Period size: 33 Copynumber: 5.8 Consensus size: 33
48746822 GCATCTACAA
* *
48746832 AGATAGTCTGCTAGGATAGTAAACTCAAAATAG
1 AGATAGTCTGCTAGGACAGTAAACACAAAATAG
* **
48746865 AGATTGTCTGCTAGGACAGTAAACACATGATAG
1 AGATAGTCTGCTAGGACAGTAAACACAAAATAG
* * * * * *
48746898 AGGTAGTCCGTTGGGATAGTACACACAAAAT--
1 AGATAGTCTGCTAGGACAGTAAACACAAAATAG
** * *
48746929 AGATAGTCCACTGGGACAATAAACACAGAACATA-
1 AGATAGTCTGCTAGGACAGTAAACACA-AA-ATAG
* * *
48746963 AG-TAGTCTGCTGGGACAGTAAACACAAAACAT
1 AGATAGTCTGCTAGGACAGTAAACACAAAATAG
* * *
48746995 AGGTAGTCTCCTGGGACAGTAAACAC
1 AGATAGTCTGCTAGGACAGTAAACAC
48747021 TAAACATATA
Statistics
Matches: 126, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
31 23 0.18
32 6 0.05
33 95 0.75
34 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (33 bp):
AGATAGTCTGCTAGGACAGTAAACACAAAATAG
Found at i:48747010 original size:97 final size:97
Alignment explanation
Indices: 48746870--48747050 Score: 220
Period size: 97 Copynumber: 1.9 Consensus size: 97
48746860 AATAGAGATT
** * * * * *
48746870 GTCTGCTAGGACAGTAAACACATGATAGAGGTAGTCCGTTGGGATAGTACACACAAAATAGATAG
1 GTCTGCTAGGACAGTAAACACAAAACAGAGGTAGTCCGCTGGGACAGTAAACACAAAACAGATAG
48746935 TCCACTGGGACAATAAACACAGAACATAAGTA
66 TCCACTGGGACAATAAACACAGAACATAAGTA
* * * *
48746967 GTCTGCTGGGACAGTAAACACAAAACATAGGTAGTCTC-CTGGGACAGTAAACACTAAACATATA
1 GTCTGCTAGGACAGTAAACACAAAACAGAGGTAGTC-CGCTGGGACAGTAAACACAAAACAGATA
* * *
48747031 GTCCATTGGGATAGTAAACA
65 GTCCACTGGGACAATAAACA
48747051 TTGATAGAGT
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
97 68 0.99
98 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (97 bp):
GTCTGCTAGGACAGTAAACACAAAACAGAGGTAGTCCGCTGGGACAGTAAACACAAAACAGATAG
TCCACTGGGACAATAAACACAGAACATAAGTA
Found at i:48747019 original size:66 final size:65
Alignment explanation
Indices: 48746835--48747050 Score: 183
Period size: 64 Copynumber: 3.3 Consensus size: 65
48746825 TCTACAAAGA
* * * * * * * *
48746835 TAGTCTGCTAGGATAGTAAACTCAAAATAGAGATTGTCTGCTAGGACAGTAAACACATG-ATAGA
1 TAGTCTGCTGGGATAGTAAACACAAAA-ATAGATAGTCTCCTGGGACAGTAAACACA-GAACATA
*
48746899 GG
64 AG
* * * *
48746901 TAGTCCGTTGGGATAGTACACAC-AAAATAGATAGTC-CACTGGGACAATAAACACAGAACATAA
1 TAGTCTGCTGGGATAGTAAACACAAAAATAGATAGTCTC-CTGGGACAGTAAACACAGAACATAA
48746964 G
65 G
* *
48746965 TAGTCTGCTGGGACAGTAAACACAAAACATAGGTAGTCTCCTGGGACAGTAAACACTA-AACAT-
1 TAGTCTGCTGGGATAGTAAACACAAAA-ATAGATAGTCTCCTGGGACAGTAAACAC-AGAACATA
48747028 A-
64 AG
***
48747029 TAGTCCATTGGGATAGTAAACA
1 TAGTCTGCTGGGATAGTAAACA
48747051 TTGATAGAGT
Statistics
Matches: 121, Mismatches: 23, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
63 1 0.01
64 64 0.53
65 7 0.06
66 47 0.39
67 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.22
Consensus pattern (65 bp):
TAGTCTGCTGGGATAGTAAACACAAAAATAGATAGTCTCCTGGGACAGTAAACACAGAACATAAG
Found at i:48748676 original size:101 final size:101
Alignment explanation
Indices: 48748503--48748697 Score: 252
Period size: 101 Copynumber: 1.9 Consensus size: 101
48748493 CCTTTTTGGC
* * *
48748503 CAAGTATCAATATTATCTGAATTATCGATAGCCCTTTTAAAAGTGATACCAAAATGACATTCTAT
1 CAAGTATCAATATTATCTGAATTATCGATACCCCTCTTAAAAGGGATACCAAAATGACATTCTAT
* **
48748568 TTTTCACAAACCCTACTGAGTATCGATACCATCTTT
66 TTTTCACAAAACCTACAAAGTATCGATACCATCTTT
* * * *
48748604 CAAGTTTCGATATTTTCTGAATTATTGATATCCCCTCTTAAAAGGGATACCAAAAT-AGCATT-T
1 CAAGTATCAATATTATCTGAATTATCGATA-CCCCTCTTAAAAGGGATACCAAAATGA-CATTCT
48748667 -TTTTCTCACAAAACCTACAAAGTATCGATAC
64 ATTTT-TCACAAAACCTACAAAGTATCGATAC
48748698 GGTATCGATA
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
100 4 0.05
101 51 0.63
102 26 0.32
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (101 bp):
CAAGTATCAATATTATCTGAATTATCGATACCCCTCTTAAAAGGGATACCAAAATGACATTCTAT
TTTTCACAAAACCTACAAAGTATCGATACCATCTTT
Found at i:48751045 original size:46 final size:45
Alignment explanation
Indices: 48750978--48751152 Score: 199
Period size: 46 Copynumber: 3.8 Consensus size: 45
48750968 TGTAACCCGC
*
48750978 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
* * * *
48751024 CCATAAGTGAACTCGGACTCAACTCAACGAGATCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCAT
* *** * *
48751070 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
48751117 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
48751153 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCAT
Found at i:48751101 original size:93 final size:93
Alignment explanation
Indices: 48750986--48751157 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
48750976 GCCCATAAGT
* * *
48750986 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48751051 CGAGATCGGATGCCTAGTTACATCTCTC
66 CGAGATCGGATGCCTAGTTACATCTCTC
*
48751079 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
48751144 CGAGTTCGGATGCC
66 CGAGATCGGATGCC
48751158 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGATCGGATGCCTAGTTACATCTCTC
Found at i:48751172 original size:46 final size:44
Alignment explanation
Indices: 48750983--48751172 Score: 118
Period size: 46 Copynumber: 4.1 Consensus size: 44
48750973 CCCGCCCATA
* ** ** **
48750983 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* *
48751028 AAGTGAACTCGGACTCAACTCAACGAGATCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
48751078 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATCC-T
48751121 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
48751168 AGTGA
1 AGTGA
48751173 CATGTCACTT
Statistics
Matches: 111, Mismatches: 18, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
45 1 0.01
46 62 0.56
47 26 0.23
48 5 0.05
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:48753587 original size:30 final size:30
Alignment explanation
Indices: 48753543--48753631 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
48753533 CAAAGATAAC
*
48753543 AAGAAAACC-GAATAAAGTAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
48753572 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
48753602 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
48753632 TGATACTATG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.18
30 38 0.78
31 2 0.04
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:48753597 original size:15 final size:15
Alignment explanation
Indices: 48753543--48753622 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
48753533 CAAAGATAAC
*
48753543 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
48753557 AAGTAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
48753572 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
48753587 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
48753602 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
48753617 AAGAAA
1 AAGAAA
48753623 CCCAAGATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 8 0.15
15 44 0.83
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:48753631 original size:15 final size:15
Alignment explanation
Indices: 48753554--48753631 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
48753544 AGAAAACCGA
*
48753554 ATAAAGTAATCCAAG
1 ATAAAGAAATCCAAG
* *
48753569 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
48753583 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
48753598 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
48753614 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
48753629 ATA
1 ATA
48753632 TGATACTATG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 4 0.08
15 44 0.86
16 3 0.06
ACGTcount: A:0.55, C:0.15, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:48756669 original size:93 final size:93
Alignment explanation
Indices: 48756562--48756733 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
48756552 GCCCATAAGT
* *
48756562 GAACTCAGACTCAACTCAACGAGCTCGGGA-GTTCGCATCCATAAGTGAATTCAGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
48756626 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
48756655 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
48756720 CGAGTTTGGATGCC
66 CGAGCTCGGATGCC
48756734 CAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:48756725 original size:46 final size:45
Alignment explanation
Indices: 48756554--48756723 Score: 191
Period size: 46 Copynumber: 3.7 Consensus size: 45
48756544 TGTAACCCGC
*
48756554 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGAGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTC-GGAATTCGCAT
* *
48756600 CCATAAGTGAATTCAGACTCAACTCAACGAGCTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGAATTCGC-A--T
* *** *
48756646 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGGA-ATTCGCAT
*
48756693 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCAGACTCAACTCAACGAG
48756724 TTTGGATGCC
Statistics
Matches: 102, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 60 0.59
47 31 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGAATTCGCAT
Found at i:48760733 original size:47 final size:47
Alignment explanation
Indices: 48760680--48760808 Score: 186
Period size: 47 Copynumber: 2.7 Consensus size: 47
48760670 TTAGGATTCT
* *
48760680 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* * *
48760727 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
* * *
48760774 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
48760809 TCCCGAAGGG
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.33, C:0.08, G:0.32, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCA
Found at i:48760983 original size:37 final size:37
Alignment explanation
Indices: 48760927--48761005 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
48760917 CCGAGCTCTA
* * *
48760927 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
48760964 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48761001 AAGAC
1 AAGAC
48761006 TTTGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48769093 original size:43 final size:42
Alignment explanation
Indices: 48769046--48769137 Score: 96
Period size: 42 Copynumber: 2.2 Consensus size: 42
48769036 TCCCGGACGT
* *
48769046 GGTCTTACATGTAATTCA-ATATCAATGCCAATGTCCCAGACAG
1 GGTCTTACACG-AAATCAGATAT-AATGCCAATGTCCCAGACAG
* * * * *
48769089 GGTCTTGCACGAAATCAGATATGATGTCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAGATATAATGCCAATGTCCCAGACAG
48769131 GGTCTTA
1 GGTCTTA
48769138 TACATAAATC
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
42 27 0.68
43 13 0.32
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (42 bp):
GGTCTTACACGAAATCAGATATAATGCCAATGTCCCAGACAG
Found at i:48788579 original size:39 final size:39
Alignment explanation
Indices: 48788536--48788702 Score: 273
Period size: 39 Copynumber: 4.3 Consensus size: 39
48788526 GGTCTTTAAC
** *
48788536 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
48788575 CCGGATATATTTT-TAGCATATAGCCTGCGGACCTCATGT
1 CCGGATAT-TTTTCCAGCATATAGCCTGCGGACCTCATGT
48788614 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
*
48788653 CCGGATATTTTTCTAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
48788692 CCGGATATTTT
1 CCGGATATTTT
48788703 CAATCTCATA
Statistics
Matches: 120, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
38 4 0.03
39 112 0.93
40 4 0.03
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:48793671 original size:30 final size:30
Alignment explanation
Indices: 48793635--48793700 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
48793625 CCCTAAGGGA
48793635 CACACGACCATGCAAAATAGTCGTGTGTCG
1 CACACGACCATGCAAAATAGTCGTGTGTCG
* *
48793665 CACACGACCATGTAACATAGTCGTGTGTCG
1 CACACGACCATGCAAAATAGTCGTGTGTCG
48793695 CACACG
1 CACACG
48793701 GCTGAGACAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (30 bp):
CACACGACCATGCAAAATAGTCGTGTGTCG
Found at i:48796321 original size:5 final size:5
Alignment explanation
Indices: 48796311--48796335 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48796301 TTTTTCTTGC
48796311 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
48796336 TTTATTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:48812785 original size:46 final size:44
Alignment explanation
Indices: 48812606--48812821 Score: 159
Period size: 46 Copynumber: 4.6 Consensus size: 44
48812596 GTATAATGCT
* * * * *
48812606 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATC-AAGTC
1 GATG-CATGTCCCATACAT-GTCTTACACTGACACAT-C-TCGAGGCC
* ** *
48812653 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAAATTGAGGCC
1 GATG-CATGTCCCATACAT-GTCTTACACTGAC-A-C-ATCTCGAGGCC
*
48812702 GATGCCATGTCCC-TGACATGGTCTTACACTGACACATCTTGTA-GCC
1 GATG-CATGTCCCAT-ACAT-GTCTTACACTGACACATCTCG-AGGCC
* *
48812748 GATGCATGTCCCATACATGTCTTATACTGGCTTACATCTCGAGGCC
1 GATGCATGTCCCATACATGTCTTACACTGAC--ACATCTCGAGGCC
*
48812794 GATGCATGTCCCAAACATGTCTTACACT
1 GATGCATGTCCCATACATGTCTTACACT
48812822 AGATCTTGTC
Statistics
Matches: 143, Mismatches: 16, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
44 11 0.08
45 13 0.09
46 48 0.34
47 33 0.23
48 2 0.01
49 35 0.24
50 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (44 bp):
GATGCATGTCCCATACATGTCTTACACTGACACATCTCGAGGCC
Found at i:48817505 original size:29 final size:28
Alignment explanation
Indices: 48817431--48817510 Score: 90
Period size: 27 Copynumber: 2.9 Consensus size: 28
48817421 CGAAGCTGCC
* * *
48817431 AGATATTGTGACGAAGTCACCAG-ATAT
1 AGATATTGTGGCGAAGCCACCAGAACAT
* *
48817458 AGATATTGTGGCTAGGCCACCAGAACAT
1 AGATATTGTGGCGAAGCCACCAGAACAT
*
48817486 ATATATATGTGGCGAAGCCACCAGA
1 AGATAT-TGTGGCGAAGCCACCAGA
48817511 TTGCAGCGAG
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
27 19 0.44
28 8 0.19
29 16 0.37
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.23
Consensus pattern (28 bp):
AGATATTGTGGCGAAGCCACCAGAACAT
Found at i:48828834 original size:46 final size:46
Alignment explanation
Indices: 48828782--48828908 Score: 157
Period size: 46 Copynumber: 2.7 Consensus size: 46
48828772 TCTCATAGCT
* *
48828782 GATGCATGTCCTAGACATGTCTTACACTGGCT-TACATCTCGAGGTC
1 GATGCATGTCCTAGACATGTCTTACACTGGCTCT-CATCTCAAGGCC
* * *
48828828 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCAATGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGCTCTCATCTCAAGGCC
* *
48828874 AATGCCATGTCTTAGACATGGTCTTACACTGGCTC
1 GATG-CATGTCCTAGACAT-GTCTTACACTGGCTC
48828909 ACAAATAACC
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 42 0.61
47 13 0.19
48 14 0.20
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCTCTCATCTCAAGGCC
Found at i:48832012 original size:16 final size:16
Alignment explanation
Indices: 48831993--48832023 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
48831983 CTTCTTCACT
48831993 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
48832009 TACTTACTTACTTAA
1 TACTCACTTACTTAA
48832024 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:48832029 original size:20 final size:20
Alignment explanation
Indices: 48831990--48832029 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
48831980 AAACTTCTTC
* *
48831990 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
48832010 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
48832030 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:48832365 original size:55 final size:53
Alignment explanation
Indices: 48832216--48832406 Score: 160
Period size: 55 Copynumber: 3.6 Consensus size: 53
48832206 CACCGGGTAC
* * * * *
48832216 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-TT---TT-GAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGA-CCTTTGCCTTAGAAA
* * *
48832265 CTTACCATTGCCATGTCTTGATATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGACCTTTGCC-T-TAGAAA
* ***
48832320 CTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCC-TTGCCTTAGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATG-GGACCTTTGCCTTAGAAA
* *
48832373 CCTTACCAATTGCCATGCCTTGGCATGGTCTTAC
1 -CTTACCAA-TGCCATGTCTTGACATGGTCTTAC
48832407 GATATCCTTA
Statistics
Matches: 116, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
48 2 0.02
49 35 0.30
53 6 0.05
54 9 0.08
55 62 0.53
56 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGACCTTTGCCTTAGAAA
Found at i:48839060 original size:46 final size:47
Alignment explanation
Indices: 48838883--48839082 Score: 162
Period size: 46 Copynumber: 4.3 Consensus size: 47
48838873 AGGCTATTTG
* * *
48838883 TTGTGTAGGTTCAACCTTAACAGGTG-GTCAGGCACTATTATCC-AT
1 TTGTGTAGGTTCAACCCTAACAGGTGACTAAGGCACTATTATCCGAT
* * * * **
48838928 TTCATGTAGGTTCAACCATAACAGGTGACCAA-GCATTATTATATGAT
1 TT-GTGTAGGTTCAACCCTAACAGGTGACTAAGGCACTATTATCCGAT
*** *
48838975 CCCTGTAGGTTCAAACCTAAC-GAGTGACT-AGGCGA-TATTATCCGAT
1 TTGTGTAGGTTCAACCCTAACAG-GTGACTAAGGC-ACTATTATCCGAT
* * *
48839021 TTGTGTAGGTTCAACCCTAACGGGTGA-TAAGACACTATTATCTGAT
1 TTGTGTAGGTTCAACCCTAACAGGTGACTAAGGCACTATTATCCGAT
* *
48839067 TCGTGTAGGTTTAACC
1 TTGTGTAGGTTCAACC
48839083 TTGACGAGTA
Statistics
Matches: 122, Mismatches: 24, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
45 6 0.05
46 111 0.91
47 5 0.04
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.32
Consensus pattern (47 bp):
TTGTGTAGGTTCAACCCTAACAGGTGACTAAGGCACTATTATCCGAT
Found at i:48840723 original size:27 final size:27
Alignment explanation
Indices: 48840693--48840870 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
48840683 ATATTGAGCC
* * *
48840693 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
48840720 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
48840747 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
48840775 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
48840802 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
48840829 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
48840856 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48840871 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:48840786 original size:55 final size:55
Alignment explanation
Indices: 48840693--48840870 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
48840683 ATATTGAGCC
* * *
48840693 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
48840747 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
48840802 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
48840856 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48840871 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:48840832 original size:82 final size:81
Alignment explanation
Indices: 48840714--48840869 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
48840704 TGCTATACAA
* * *
48840714 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
48840779 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
48840796 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
48840860 CACTTAGTGC
65 CACTTAGTGC
48840870 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48848821 original size:27 final size:27
Alignment explanation
Indices: 48848791--48848968 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
48848781 ATATTGAGCC
* * *
48848791 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
48848818 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
48848845 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
48848873 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
48848900 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
48848927 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
48848954 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48848969 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:48848884 original size:55 final size:55
Alignment explanation
Indices: 48848791--48848968 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
48848781 ATATTGAGCC
* * *
48848791 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
48848845 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
48848900 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
48848954 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48848969 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:48848930 original size:82 final size:81
Alignment explanation
Indices: 48848812--48848967 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
48848802 TGCTATACAA
* * *
48848812 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
48848877 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
48848894 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
48848958 CACTTAGTGC
65 CACTTAGTGC
48848968 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48852577 original size:48 final size:48
Alignment explanation
Indices: 48852502--48853010 Score: 581
Period size: 48 Copynumber: 10.8 Consensus size: 48
48852492 CATGTCAGAA
*
48852502 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGTGT
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
* * * *
48852550 TACTTTGATTTGGCTTCGGGCCATGATATTAGCACTTCAGTTGCGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
* * *
48852598 TACATTGATTTGGCTTTGGGCCATAATATTGGCACTTCGAGTGCGAG-
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
* * * *
48852645 ----TT-ATTT-G-TTCGGGCCATGATATTGGCACAAT-GTGTGTGAGC
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCAC-TTCGGGTGCGAGT
* * * * *
48852686 TACTTTGATTTGGCTTCGGGCTATGATTTTGGCACTTTGGGTACGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
* * *
48852734 TACATTAATTTGGCTTCAGGCTATGATATTGGCACTTCGGGTGCGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
* * ** * *
48852782 TACTTTAATTCAGCTTCGGGCCATGATATTGGCACTTCTGGTGCAAGT
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
* * * *
48852830 TACATTGATTTGGCTTCAGGCCATGATATTGGCTCTTCAGGTGTGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
* * * * *
48852878 TACTTTGGTTTGTCTTCGGGCCATGATATTAGCACTTCAGGTGCGAGT
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
* *
48852926 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCAAGA
1 TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
48852974 TACATTGAGTTT-GCATT-GGGCCATGATATTGGCACTT
1 TACATTGA-TTTGGC-TTCGGGCCATGATATTGGCACTT
48853011 AGGGCACGAG
Statistics
Matches: 389, Mismatches: 60, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
40 26 0.07
41 2 0.01
42 4 0.01
43 2 0.01
45 2 0.01
46 4 0.01
47 2 0.01
48 342 0.88
49 5 0.01
ACGTcount: A:0.19, C:0.17, G:0.27, T:0.36
Consensus pattern (48 bp):
TACATTGATTTGGCTTCGGGCCATGATATTGGCACTTCGGGTGCGAGT
Found at i:48872264 original size:27 final size:26
Alignment explanation
Indices: 48872211--48872464 Score: 228
Period size: 27 Copynumber: 9.5 Consensus size: 26
48872201 ATACCCCTAG
*
48872211 TTGTAAAATTACC-AAAGTAGCCCCGAT
1 TTGTAAAATTACCGAAA-TA-CCTCGAT
* *
48872238 TTATAAAATTACCCAAATATCCTCGAT
1 TTGTAAAATTACCGAAATA-CCTCGAT
*
48872265 TTGTAAAATTATCGAAATACCGTCGA-
1 TTGTAAAATTACCGAAATACC-TCGAT
*
48872291 TTGTAAAATTACTGAAATACCCTCGAT
1 TTGTAAAATTACCGAAATA-CCTCGAT
* *
48872318 TTGTAAAATTATCGAAATACCATTGA-
1 TTGTAAAATTACCGAAATACC-TCGAT
**
48872344 TTGTAAAATTACTAAAATACCCTCGAT
1 TTGTAAAATTACCGAAATA-CCTCGAT
* *
48872371 TTGTAAAATTATCAAAATACCCTC-AGT
1 TTGTAAAATTACCGAAATA-CCTCGA-T
* * *
48872398 TTGCAAAATTACTGAAATACCCTCAAT
1 TTGTAAAATTACCGAAATA-CCTCGAT
* * *
48872425 TTGCAAAATTACTGAAATACCTTCGAC
1 TTGTAAAATTACCGAAATACC-TCGAT
48872452 TTGTAAAATTACC
1 TTGTAAAATTACC
48872465 AAAGTGCTCT
Statistics
Matches: 192, Mismatches: 25, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
26 47 0.24
27 141 0.73
28 4 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (26 bp):
TTGTAAAATTACCGAAATACCTCGAT
Found at i:48872298 original size:53 final size:53
Alignment explanation
Indices: 48872190--48872463 Score: 295
Period size: 53 Copynumber: 5.1 Consensus size: 53
48872180 TTAGTTTACC
* * * * * *
48872190 AAATTATTGAAATACCC-CTAGTTGTAAAATTA-CCAAAGTAGCC-CCGATTTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAA-TA-CCATCGA-TTGTA
** * *
48872243 AAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAATACCGTCGATTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCATCGATTGTA
*
48872296 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCATTGATTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCATCGATTGTA
* * * * *
48872349 AAATTACTAAAATACCCTCGATTTGTAAAATTATCAAAATACCCTCAGTTTGCA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCATC-GATTGTA
* * *
48872403 AAATTACTGAAATACCCTCAATTTGCAAAATTA-CTGAAATACCTTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATC-GAAATACCATCGA-TTGTA
48872457 AAATTAC
1 AAATTAC
48872464 CAAAGTGCTC
Statistics
Matches: 188, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
53 111 0.59
54 73 0.39
55 4 0.02
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (53 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCATCGATTGTA
Found at i:48872325 original size:80 final size:80
Alignment explanation
Indices: 48872190--48872463 Score: 274
Period size: 80 Copynumber: 3.4 Consensus size: 80
48872180 TTAGTTTACC
* * * * * * *
48872190 AAATTATTGAAATACCC-CTAGTTGTAAAATTACCAAAGTAGCCC-CGATTTATAAAATTACCCA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACTAAAATA-CCCTCGATTTGTAAAATTACCGA
48872253 AATATCCTCGATTTGTA
65 AATA-CCTCGATTTGTA
* * *
48872270 AAATTA-TCGAAATACCGTCGA-TTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCGA
1 AAATTACT-GAAATACCCTCGACTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGA
*
48872333 AATACCATTGA-TTGTA
65 AATACC-TCGATTTGTA
* * * *
48872349 AAATTACTAAAATACCCTCGATTTGTAAAATTA-TCAAAATACCCTC-AGTTTGCAAAATTACTG
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACT-AAAATACCCTCGA-TTTGTAAAATTACCG
* *
48872412 AAATACCCTCAATTTGCA
64 AAATA-CCTCGATTTGTA
*
48872430 AAATTACTGAAATACCTTCGACTTGTAAAATTAC
1 AAATTACTGAAATACCCTCGACTTGTAAAATTAC
48872464 CAAAGTGCTC
Statistics
Matches: 162, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
79 30 0.19
80 94 0.58
81 38 0.23
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (80 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAA
ATACCTCGATTTGTA
Found at i:48872550 original size:27 final size:27
Alignment explanation
Indices: 48872519--48872977 Score: 551
Period size: 27 Copynumber: 17.0 Consensus size: 27
48872509 CAAAACTATT
* *
48872519 GAAATACCCCTGTAGGGTACAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48872546 AAAATACCCCAGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48872573 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
48872600 AAAATACCCCTGTAGGGTAAAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
48872627 AAAATACCCCTGTAAGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
48872654 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48872681 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48872708 GAAATACCCCTGTAGGGTAAAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACC
48872734 GAAAATACCCCTGTAGGGTAGAATTACC
1 G-AAATACCCCTGTAGGGTAGAATTACC
*
48872762 GAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
48872789 GAAATACCCTTGTAGGGTAAAAATGCC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
48872816 GAAATACCCTTGTAAGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48872843 GAAGTACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
48872870 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
48872897 GAAATACTCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
48872924 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * * *
48872951 GAGATACCCTTATGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
48872978 ATTTTGCCCC
Statistics
Matches: 371, Mismatches: 59, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
26 1 0.00
27 369 0.99
28 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:48872958 original size:81 final size:81
Alignment explanation
Indices: 48872519--48872959 Score: 614
Period size: 81 Copynumber: 5.4 Consensus size: 81
48872509 CAAAACTATT
* ** * *
48872519 GAAATACCCCTGTAGGGTACAATTACTAAAATACCCCAGTAGGGTAGAATTACCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTT
48872584 GTAGGGTAGAAATACC
66 GTAGGGTAGAAATACC
* * ** *
48872600 AAAATACCCCTGTAGGGTAAAATTACTAAAATACCCCTGTAAGGTAGAATTATCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTT
*
48872665 GTAGGGTAGAAATACT
66 GTAGGGTAGAAATACC
* * * *
48872681 GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAAAATTAT-GAAAATACCCC
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCG-AAATACCCT
*
48872745 TGTAGGGTAGAATTACC
65 TGTAGGGTAGAAATACC
* * * * **
48872762 GAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAAAAATGCCGAAATACCCTT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTT
*
48872827 GTAAGGTAGAAATACC
66 GTAGGGTAGAAATACC
* * *
48872843 GAAGTACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGAATTATCGAAATACTCTT
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTT
48872908 GTAGGGTAGAAATACC
66 GTAGGGTAGAAATACC
* *
48872924 GAAATACCCCTATAGGGTAGAATTACCGAGATACCC
1 GAAATACCCCTGTAGGGTAGAATTACCGAAATACCC
48872960 TTATGGGGTA
Statistics
Matches: 317, Mismatches: 41, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
80 1 0.00
81 315 0.99
82 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (81 bp):
GAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTT
GTAGGGTAGAAATACC
Found at i:48873626 original size:27 final size:26
Alignment explanation
Indices: 48873582--48873650 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 26
48873572 AGTAGCTTTT
* * *
48873582 CCACATTATATGTTCTGGTGGCTCTG
1 CCACAATATCTGTTCTGGTGACTCTG
48873608 CCACAATATCTGTATCTGGTGACTCTG
1 CCACAATATCTGT-TCTGGTGACTCTG
*
48873635 TCACAATATCTGTTCT
1 CCACAATATCTGTTCT
48873651 AGCAGCCATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 14 0.37
27 24 0.63
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (26 bp):
CCACAATATCTGTTCTGGTGACTCTG
Found at i:48873779 original size:6 final size:6
Alignment explanation
Indices: 48873770--48873832 Score: 58
Period size: 6 Copynumber: 10.3 Consensus size: 6
48873760 TTGCATTCAC
* * *
48873770 ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
48873819 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
48873833 AATGTTTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
5 2 0.04
6 39 0.85
7 4 0.09
8 1 0.02
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:48875363 original size:39 final size:40
Alignment explanation
Indices: 48875276--48875363 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 40
48875266 TAAGCTCTGA
* *
48875276 CCCAAACTGATACTGATACTGATACTGTAATGGGCTAAGG
1 CCCAAACTGATACTGATACCGATACTGGAATGGGCTAAGG
* *
48875316 -CCATAACTGATACTGA-ACCG-TCACTGGATTGGGCTTAGG
1 CCCA-AACTGATACTGATACCGAT-ACTGGAATGGGCTAAGG
48875355 CCCAAACTG
1 CCCAAACTG
48875364 TGTTTGCTCA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
38 1 0.02
39 25 0.61
40 15 0.37
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (40 bp):
CCCAAACTGATACTGATACCGATACTGGAATGGGCTAAGG
Found at i:48878767 original size:27 final size:27
Alignment explanation
Indices: 48878734--48878794 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
48878724 CCCCAGTTGT
*
48878734 AAAATTACCAAAGTACCTTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAC
* ***
48878761 AGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAAGTACCCTCGATTTAC
48878788 AAAATTA
1 AAAATTA
48878795 TTGAAATACC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAGTACCCTCGATTTAC
Found at i:48878827 original size:27 final size:27
Alignment explanation
Indices: 48878797--48879227 Score: 533
Period size: 27 Copynumber: 16.0 Consensus size: 27
48878787 CAAAATTATT
* * * *
48878797 GAAATACCCTTGTAGCGTAGAAATATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48878824 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
48878851 GAAATACCCCTGTAGAGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48878878 GAAATACCCCTGTAGGGTATAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
48878905 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
48878932 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48878959 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
48878986 GAAATACCCTTGTAGGATAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
48879013 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
48879040 GAAATACCCCTGTAGGATAAAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
** *
48879067 GAAATACCTTTGT-GGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * **
48879093 AAAATACCCCTATAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48879120 AAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48879147 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
48879174 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
48879201 GAGATACCCTTGT-GGTGTAAAATTACC
1 GAAATACCCCTGTAGG-GTAGAATTACC
48879228 ATTTTGCCCT
Statistics
Matches: 353, Mismatches: 49, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
26 22 0.06
27 331 0.94
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:48879237 original size:27 final size:27
Alignment explanation
Indices: 48879214--48879266 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
48879204 ATACCCTTGT
*
48879214 GGTGTAAAATTACCATTTTGCCCTTAG
1 GGTGTAAAATGACCATTTTGCCCTTAG
* * *
48879241 GGTGTTAGATGACTATTTTGCCCTTA
1 GGTGTAAAATGACCATTTTGCCCTTA
48879267 TGGGCAAGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTGTAAAATGACCATTTTGCCCTTAG
Found at i:48879238 original size:81 final size:81
Alignment explanation
Indices: 48878797--48879227 Score: 591
Period size: 81 Copynumber: 5.3 Consensus size: 81
48878787 CAAAATTATT
* * *
48878797 GAAATACCCTTGTAGCGTAGAAA-TATCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCC
1 GAAATACCCCTGTAGGGTA-AAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCC
* *
48878861 TGTAGAGTAGAATTACC
65 TATAGGGTAGAATTACC
* * * *
48878878 GAAATACCCCTGTAGGGTATAATTATCGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCT
1 GAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
48878943 ATAGGGTAGAATTACC
66 ATAGGGTAGAATTACC
* *
48878959 GAAATACCCTTGTAGGGTAGAAA-TACCGAAATACCCTTGTAGGATAGAAATACCGAAATACCCC
1 GAAATACCCCTGTAGGGTA-AAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCC
* *
48879023 TGTAGGGTAGAATTACT
65 TATAGGGTAGAATTACC
* * * *
48879040 GAAATACCCCTGTAGGATAAAAATACCGAAATACCTTTGT-GGGTAGAAATACCAAAATACCCCT
1 GAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
**
48879104 ATAGGGTAGAATTATT
66 ATAGGGTAGAATTACC
* * *
48879120 AAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
1 GAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
48879185 ATAGGGTAGAATTACC
66 ATAGGGTAGAATTACC
* *
48879201 GAGATACCCTTGT-GGTGTAAAATTACC
1 GAAATACCCCTGTAGG-GTAAAATTACC
48879228 ATTTTGCCCT
Statistics
Matches: 311, Mismatches: 34, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
80 79 0.25
81 230 0.74
82 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.24
Consensus pattern (81 bp):
GAAATACCCCTGTAGGGTAAAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
ATAGGGTAGAATTACC
Found at i:48879696 original size:22 final size:22
Alignment explanation
Indices: 48879671--48879719 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
48879661 ATGGATTTGC
48879671 GCCAACCT-ACATATGGCTCTGT
1 GCCAACCTGA-ATATGGCTCTGT
* *
48879693 GCCAACCTGATTATGGCTGTGT
1 GCCAACCTGAATATGGCTCTGT
48879715 GCCAA
1 GCCAA
48879720 ACGTATTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (22 bp):
GCCAACCTGAATATGGCTCTGT
Found at i:48879914 original size:26 final size:26
Alignment explanation
Indices: 48879870--48879958 Score: 90
Period size: 26 Copynumber: 3.4 Consensus size: 26
48879860 TGCCACGTAT
* * *
48879870 TCTGTT-TAGTGGCTTTGCCACATTA
1 TCTGTTCTGGTGGCTCTGCCACAATA
48879895 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCTGGTGGCTCTGCCACAATA
** **
48879921 TCTGTATCTGGTAACTCTATCACAATA
1 TCTGT-TCTGGTGGCTCTGCCACAATA
*
48879948 TCTATTCTGGT
1 TCTGTTCTGGT
48879959 AGCCATGCTA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
25 6 0.11
26 27 0.50
27 21 0.39
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.40
Consensus pattern (26 bp):
TCTGTTCTGGTGGCTCTGCCACAATA
Found at i:48880084 original size:6 final size:6
Alignment explanation
Indices: 48880075--48880162 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
48880065 TTGCATTCAC
* *
48880075 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCT- ATCACCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG AT--TCTG
* * *
48880125 ATTCTG ATTCTA ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
48880163 AATGTTTCTT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
5 5 0.08
6 51 0.78
7 6 0.09
8 3 0.05
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:48880106 original size:25 final size:25
Alignment explanation
Indices: 48880078--48880141 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
48880068 CATTCACATT
* *
48880078 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTATCACCTGATA
*
48880103 CTGATTCTGATTCTATCACCTGATT
1 CTGATTCTGATTCTATCACCTGATA
*
48880128 CTGATTCTAATTCT
1 CTGATTCTGATTCT
48880142 CATTTTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTATCACCTGATA
Found at i:48882222 original size:27 final size:27
Alignment explanation
Indices: 48882181--48882363 Score: 231
Period size: 27 Copynumber: 6.8 Consensus size: 27
48882171 GCGTACCTGA
* *
48882181 ACCCTCATGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
**
48882208 ACCCTTATGAAATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
**
48882235 ACCCTTGCGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*
48882262 GCCCTTATGTGATAAAATGACGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
48882289 ACCCTTACGTGATAAAATGATGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
*** *
48882316 GTGCTTATGTGATAAAATGAAGATTTT
1 ACCCTTATGTGATAAAATGACGATTTT
* *
48882343 GCCCTTATGTGATCAAATGAC
1 ACCCTTATGTGATAAAATGAC
48882364 CAAAATACCC
Statistics
Matches: 133, Mismatches: 23, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 133 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.36
Consensus pattern (27 bp):
ACCCTTATGTGATAAAATGACGATTTT
Found at i:48882374 original size:27 final size:27
Alignment explanation
Indices: 48882344--48882444 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 27
48882334 GAAGATTTTG
*
48882344 CCCTTAT-GTGATCAAATGACCAAAATA
1 CCCTTATAG-GATAAAATGACCAAAATA
* *
48882371 CCCTTATAGGGTAAAATGACCGAAATA
1 CCCTTATAGGATAAAATGACCAAAATA
** * *
48882398 CCCCCACAAGG-TATAATGACCAAAATA
1 CCCTTA-TAGGATAAAATGACCAAAATA
* *
48882425 CCCTTGTAGGGTAAAATGAC
1 CCCTTATAGGATAAAATGAC
48882445 TGTAATACCC
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
26 3 0.05
27 51 0.88
28 4 0.07
ACGTcount: A:0.40, C:0.23, G:0.16, T:0.22
Consensus pattern (27 bp):
CCCTTATAGGATAAAATGACCAAAATA
Found at i:48882451 original size:27 final size:27
Alignment explanation
Indices: 48882357--48882471 Score: 104
Period size: 27 Copynumber: 4.3 Consensus size: 27
48882347 TTATGTGATC
* * *
48882357 AAATGACCAAAATACCCTTATAGGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
* *
48882384 AAATGACCGAAATACCCCCACAAGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
* * * * *
48882411 TAATGACCAAAATACCCTTGTAGGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
* * **
48882438 AAATGACTGTAATACCCCGGTAAGGTA
1 AAATGACCGAAATACCCCTATAAGGTA
48882465 AAATGAC
1 AAATGAC
48882472 AGATTTGTTC
Statistics
Matches: 69, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCTATAAGGTA
Found at i:48882463 original size:54 final size:54
Alignment explanation
Indices: 48882357--48882471 Score: 167
Period size: 54 Copynumber: 2.1 Consensus size: 54
48882347 TTATGTGATC
48882357 AAATGACCAAAATACCCTTATAGGGTAAAATGACCGAAATACCCCCACAAGGTA
1 AAATGACCAAAATACCCTTATAGGGTAAAATGACCGAAATACCCCCACAAGGTA
* * * * ***
48882411 TAATGACCAAAATACCCTTGTAGGGTAAAATGACTGTAATACCCCGGTAAGGTA
1 AAATGACCAAAATACCCTTATAGGGTAAAATGACCGAAATACCCCCACAAGGTA
48882465 AAATGAC
1 AAATGAC
48882472 AGATTTGTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (54 bp):
AAATGACCAAAATACCCTTATAGGGTAAAATGACCGAAATACCCCCACAAGGTA
Found at i:48882909 original size:34 final size:34
Alignment explanation
Indices: 48882861--48882959 Score: 126
Period size: 34 Copynumber: 2.9 Consensus size: 34
48882851 TCTGCGCTGA
* * *
48882861 TTACTATTATTGAAATGGGCTAAAGCCCAGACTG
1 TTACTGTTACTGAAATGGGCTAAGGCCCAGACTG
*
48882895 TTACTGTTACTGAAATGGGCTAAGGCCTAGACTG
1 TTACTGTTACTGAAATGGGCTAAGGCCCAGACTG
* * * *
48882929 CTGCTGTTACTGATATGGGCTTAGGCCCAGA
1 TTACTGTTACTGAAATGGGCTAAGGCCCAGA
48882960 ATTATCGCTC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 56 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (34 bp):
TTACTGTTACTGAAATGGGCTAAGGCCCAGACTG
Found at i:48885219 original size:48 final size:48
Alignment explanation
Indices: 48885161--48885621 Score: 595
Period size: 48 Copynumber: 9.6 Consensus size: 48
48885151 ATTTTTCTTT
* * * *
48885161 GGGCCATGATATTGGCACTTTGGGTTCAAGTTACTTTGATTTGGCTCC
1 GGGCCATGATATTGGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTC
* * * *
48885209 AGGCCATGATATTGGCACTTCAGGTGCGAGTTACATTGATTTGGCTTT
1 GGGCCATGATATTGGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTC
* *
48885257 GGGCCATGATATTGGCACTTCGAGTGCGAGTTACTTTGATTTGGCTCC
1 GGGCCATGATATTGGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTC
* * *
48885305 GGGTCATGATATTGGCACTTTGAGTAG-GAGTTACTTTGATTTGGCTTC
1 GGGCCATGATATTGGCACTTCGGGT-GCGAGTTACTTTGATTTGGCTTC
*
48885353 GGGCCATGATATTGGCACTTCGGGTGCGAGTTTCTTTGATTTGGCTTC
1 GGGCCATGATATTGGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTC
* * * *
48885401 AGGCCATGATATTGGCAATTCGGGTACGAGTTA-TATTGATTTGGCTTT
1 GGGCCATGATATTGGCACTTCGGGTGCGAGTTACT-TTGATTTGGCTTC
* *
48885449 GGGCCATGATATTGGCACTTCGAGTGCGAGTTACTTTGATTTGGTTTC
1 GGGCCATGATATTGGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTC
* * * *
48885497 GGGCCATGATATTGGCACTTCGAGTGTGAGTTACATTGATTTGGCTTT
1 GGGCCATGATATTGGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTC
* * * * * *
48885545 GGGCCATGACATTGGCACTTCGGATGCGAGATA-ATTGAGTTGGCCTC
1 GGGCCATGATATTGGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTC
* *
48885592 TGGCCATGATATTGGCACTTTGGGTGCGAG
1 GGGCCATGATATTGGCACTTCGGGTGCGAG
48885622 ACTCTCGAGT
Statistics
Matches: 361, Mismatches: 48, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
47 39 0.11
48 320 0.89
49 2 0.01
ACGTcount: A:0.18, C:0.17, G:0.30, T:0.35
Consensus pattern (48 bp):
GGGCCATGATATTGGCACTTCGGGTGCGAGTTACTTTGATTTGGCTTC
Found at i:48900593 original size:47 final size:47
Alignment explanation
Indices: 48900522--48900926 Score: 657
Period size: 47 Copynumber: 8.6 Consensus size: 47
48900512 CCCTTCGGGA
* * * * * *
48900522 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48900569 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48900616 CTTATCACATATATACAGTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48900663 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48900710 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48900757 CTTATCACATATATACACTTTCACATTCATAACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48900804 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGCC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48900853 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48900900 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
48900927 TATTCAAATA
Statistics
Matches: 336, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 293 0.87
49 43 0.13
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48900600 original size:25 final size:25
Alignment explanation
Indices: 48900572--48900650 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 25
48900562 ACTCGGCCCT
48900572 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
48900597 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
*
48900619 ATCACATATATACAGTTTCACATTC
1 ATCACATATATACACTTTCACATTC
48900644 ATCACAT
1 ATCACAT
48900651 CGGCCATTAG
Statistics
Matches: 38, Mismatches: 11, Indels: 10
0.64 0.19 0.17
Matches are distributed among these distances:
22 11 0.29
23 5 0.13
24 5 0.13
25 17 0.45
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:48904927 original size:40 final size:40
Alignment explanation
Indices: 48904895--48905086 Score: 285
Period size: 40 Copynumber: 4.8 Consensus size: 40
48904885 CCAGCATGAT
* * * *
48904895 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
48904935 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* **
48904975 TGCTCTTCGGAACTTAGTTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
48905015 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
48905055 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
48905087 CTCAATTCTC
Statistics
Matches: 137, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:48906570 original size:47 final size:47
Alignment explanation
Indices: 48906499--48906903 Score: 684
Period size: 47 Copynumber: 8.6 Consensus size: 47
48906489 CCCTTCGGGA
* * * * * *
48906499 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
48906546 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48906593 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48906640 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
48906687 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48906734 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
48906781 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48906830 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
48906877 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
48906904 TATTCAAATA
Statistics
Matches: 342, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 297 0.87
49 45 0.13
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:48906577 original size:25 final size:25
Alignment explanation
Indices: 48906549--48906627 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
48906539 ACTCGGCCCT
48906549 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
48906574 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
48906596 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
48906621 ATCACAT
1 ATCACAT
48906628 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:48910365 original size:25 final size:25
Alignment explanation
Indices: 48910337--48910385 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
48910327 GGCCAAATAG
*
48910337 AATACGTCACAAAGGCGTCATACAA
1 AATACGTCACAAAGGCATCATACAA
**
48910362 AATACGTCGTAAAGGCATCATACA
1 AATACGTCACAAAGGCATCATACA
48910386 GAATCACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.18
Consensus pattern (25 bp):
AATACGTCACAAAGGCATCATACAA
Found at i:48917761 original size:26 final size:27
Alignment explanation
Indices: 48917732--48917791 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
48917722 CCATATATAT
*
48917732 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
48917758 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
48917785 ATATCTG
1 ATATCTG
48917792 GCAGCCTCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:48927200 original size:40 final size:40
Alignment explanation
Indices: 48927156--48927265 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 40
48927146 AGCCTGGTTA
* * *
48927156 TAGTAACTTGCGCAAATGCCTTCGGAACTTAACCC-AGATT
1 TAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGA-AAT
* * * *
48927196 TAGTAACTCGCTCCAATGCCTTC-GAGCTTAGCCCGAAAT
1 TAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGAAAT
*
48927235 TAGTAACTCGCACAAATGCCTTCGGATCTTA
1 TAGTAACTCGCACAAATGCCTTCGGAACTTA
48927266 GTCCGGATAT
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 32 0.54
40 27 0.46
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGAACTTAACCCGAAAT
Found at i:48927228 original size:79 final size:79
Alignment explanation
Indices: 48927095--48927265 Score: 186
Period size: 79 Copynumber: 2.2 Consensus size: 79
48927085 GAATCACATA
* * * * **
48927095 CCTTCGGAATTTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCTG-GTTATAG
1 CCTTCGGAACTTAACCAGATATAGCTACTCGCTCAAATGCCTTCGAGACATAGCCCGAAAT-TAG
* *
48927159 TAACTTGCGCAAATG
65 TAACTCGCACAAATG
* * *
48927174 CCTTCGGAACTTAACCCAGATTTAG-TAACTCGCTCCAATGCCTTCGAG-CTTAGCCCGAAATTA
1 CCTTCGGAACTTAA-CCAGATATAGCT-ACTCGCTCAAATGCCTTCGAGACATAGCCCGAAATTA
48927237 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
*
48927253 CCTTCGGATCTTA
1 CCTTCGGAACTTA
48927266 GTCCGGATAT
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
79 49 0.64
80 28 0.36
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (79 bp):
CCTTCGGAACTTAACCAGATATAGCTACTCGCTCAAATGCCTTCGAGACATAGCCCGAAATTAGT
AACTCGCACAAATG
Found at i:48939260 original size:26 final size:26
Alignment explanation
Indices: 48939230--48939283 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
48939220 AAACGAATCG
48939230 ACTTTTCCGATGCATATACGAAACAT
1 ACTTTTCCGATGCATATACGAAACAT
48939256 ACTTTTCCGATGCATATACGAAACAT
1 ACTTTTCCGATGCATATACGAAACAT
48939282 AC
1 AC
48939284 CTCATCGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.24, G:0.11, T:0.30
Consensus pattern (26 bp):
ACTTTTCCGATGCATATACGAAACAT
Found at i:48939435 original size:40 final size:40
Alignment explanation
Indices: 48939389--48939536 Score: 210
Period size: 40 Copynumber: 3.7 Consensus size: 40
48939379 ACTACTTGCT
48939389 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
48939429 CAAATGCCTTCGGGACTTAGCCCGGATAAAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
48939469 CAAATGCCTTCGGAGA-TTAGCCCAG-AATTAGTCACTAGCA
1 CAAATGCCTTCGG-GACTTAGCCCGGTTA-TAGTAACTCGCA
48939509 CAAATGCCTTCGGGACTTAGCCCGGTTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA
48939537 CCATCCGAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.03
40 89 0.94
41 3 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:48945788 original size:40 final size:41
Alignment explanation
Indices: 48945727--48945938 Score: 265
Period size: 40 Copynumber: 5.3 Consensus size: 41
48945717 CATTTGAATG
* *
48945727 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * * *
48945767 TTATCTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* * *
48945807 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
48945847 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
* *
48945887 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTTG-TGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
48945927 ATATCC-GGCTAA
1 ATATCCGGGCTAA
48945939 ATTCCGAAGA
Statistics
Matches: 146, Mismatches: 22, Indels: 9
0.82 0.12 0.05
Matches are distributed among these distances:
39 10 0.07
40 131 0.90
41 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATT
Found at i:48945864 original size:80 final size:80
Alignment explanation
Indices: 48945731--48945938 Score: 328
Period size: 80 Copynumber: 2.6 Consensus size: 80
48945721 TGAATGATAT
* *
48945731 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCTGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
*
48945796 TGCGAGTTGCTATAC
66 TGCGAGTTGATATAC
*
48945811 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
*
48945876 TGCGAGTTGATATAT
66 TGCGAGTTGATATAC
* * * *
48945891 CCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAA
48945939 ATTCCGAAGA
Statistics
Matches: 118, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 6 0.05
80 112 0.95
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGATATAC
Found at i:48953828 original size:40 final size:40
Alignment explanation
Indices: 48953765--48953976 Score: 250
Period size: 40 Copynumber: 5.3 Consensus size: 40
48953755 CATTTGAATG
* * *
48953765 ATATCCGGGCTAAGTCCCAAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
48953805 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
48953845 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
48953885 TTATCCGGGCTAAAACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
48953925 ATATCTGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
48953965 ATATCC-GGCTAA
1 ATATCCGGGCTAA
48953977 ATTTCGAAGA
Statistics
Matches: 143, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
39 10 0.07
40 128 0.90
41 5 0.03
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:48953903 original size:80 final size:80
Alignment explanation
Indices: 48953769--48953977 Score: 312
Period size: 80 Copynumber: 2.6 Consensus size: 80
48953759 TGAATGATAT
* * *
48953769 CCGGGCTAAGTCCCAAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAAACCCGAAGGCATTTG
*
48953834 TGCGAGTTGCTATAC
66 TGCGAGTTGATATAC
*
48953849 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAAACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAAACCCGAAGGCATTTG
*
48953914 TGCGAGTTGATATAT
66 TGCGAGTTGATATAC
* * * * *
48953929 CTGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTATATCC-GGCTAAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAA
48953978 TTTCGAAGAA
Statistics
Matches: 117, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 7 0.06
80 110 0.94
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAAACCCGAAGGCATTTG
TGCGAGTTGATATAC
Found at i:48956624 original size:47 final size:47
Alignment explanation
Indices: 48956561--48956907 Score: 510
Period size: 46 Copynumber: 7.7 Consensus size: 47
48956551 ATGATAGTAT
48956561 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
48956608 GGCCTAATGGCCGATGTGATGAAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATG-AATGTGAAAGTGTATATATGTGATAA
*
48956656 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-TATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
48956702 TGCC-AA---CCGATGTGA--AA--TGAAAGT-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* **
48956740 TGCCTAATGGCCGATGTTTTGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
48956787 GGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
48956833 GGCCTAAT-GCCGATGTGATGAATGTG-AAGTGTATATATATGAT-A
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
48956877 GGCCT-ATGGCC-ATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
48956908 CCGAGGGTTT
Statistics
Matches: 278, Mismatches: 7, Indels: 32
0.88 0.02 0.10
Matches are distributed among these distances:
37 1 0.00
38 23 0.08
39 2 0.01
40 2 0.01
42 16 0.06
43 16 0.06
44 11 0.04
45 23 0.08
46 81 0.29
47 57 0.21
48 46 0.17
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:48956737 original size:84 final size:90
Alignment explanation
Indices: 48956562--48956882 Score: 453
Period size: 84 Copynumber: 3.6 Consensus size: 90
48956552 TGATAGTATG
48956562 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA--GCCGATGTGA
48956627 TGAAATGTGAAAGTGTATATATGTGATAAT
64 -G-AA-GTGAAAGTGTATATATGTGATAAT
*
48956657 GCCTAATGGCCGATGTGATGAATGTGAAAGTGT-TATATGTGATAATGCC-AA-CCGATGTGA-A
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAGCCGATGTGAGA
48956718 A-TGAAAGT-TATATATGTGATAAT
66 AGTGAAAGTGTATATATGTGATAAT
** *
48956741 GCCTAATGGCCGATGTTTTGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCGATGTGAT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA-GCCGATGTGA-
*
48956806 GAATGTGAAAGTGTATATATGTGATAAG
64 GAA-GTGAAAGTGTATATATGTGATAAT
*
48956834 GCCTAAT-GCCGATGTGATGAATGTG-AAGTGTATATATATGAT-AGGCCTA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
48956883 TGGCCATGTG
Statistics
Matches: 208, Mismatches: 9, Indels: 23
0.87 0.04 0.10
Matches are distributed among these distances:
84 46 0.22
85 22 0.11
86 2 0.01
87 2 0.01
88 8 0.04
90 18 0.09
91 16 0.08
92 23 0.11
93 23 0.11
94 15 0.07
95 33 0.16
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.31
Consensus pattern (90 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAGCCGATGTGAGA
AGTGAAAGTGTATATATGTGATAAT
Found at i:48956829 original size:131 final size:135
Alignment explanation
Indices: 48956561--48956907 Score: 476
Period size: 131 Copynumber: 2.5 Consensus size: 135
48956551 ATGATAGTAT
48956561 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAA--GCCGATGTGA-GAA--TGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
48956626 ATGAAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTT
61 ATG-AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTT
48956691 ATATGTGATAA
125 ATATGTGATAA
* * **
48956702 TGCC-AA-CCGATGTGA-AATGAAAGT-TATATATGTGATAATGCCTAATGGCCGATGTTTTGAA
1 GGCCTAAGCCGATGTGAGAATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
48956763 TGTGAAAGTGTATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATG
66 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-TATATG
48956827 TGATAA
130 TGATAA
* *
48956833 GGCCTAATGCCGATGTGATGAATGTGAAGTGTATATATATGAT-AGGCCT-ATGGCC-ATGTGAT
1 GGCCTAA-GCCGATGTGA-GAATG-AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT
48956895 GAATGTGATAAGT
63 GAATGTGA-AAGT
48956908 CCGAGGGTTT
Statistics
Matches: 186, Mismatches: 11, Indels: 23
0.85 0.05 0.10
Matches are distributed among these distances:
130 23 0.12
131 50 0.27
132 34 0.18
133 7 0.04
134 9 0.05
135 15 0.08
136 14 0.08
137 18 0.10
138 11 0.06
140 2 0.01
141 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.31
Consensus pattern (135 bp):
GGCCTAAGCCGATGTGAGAATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATATGT
GATAA
Found at i:48957074 original size:35 final size:36
Alignment explanation
Indices: 48957020--48957089 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
48957010 CCGAGCTCTA
* * *
48957020 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGT
*
48957056 AAGA-CCGATAACTTCGTGTGGAGATTATGTCCGG
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGG
48957090 GTAGACTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 26 0.87
36 4 0.13
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (36 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGT
Found at i:48959003 original size:43 final size:43
Alignment explanation
Indices: 48958955--48959057 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
48958945 TTGGTTTTCA
48958955 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
48958998 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
48959041 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
48959058 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:48959074 original size:29 final size:29
Alignment explanation
Indices: 48959039--48959112 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
48959029 GTTGTGAGAT
* *
48959039 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
48959068 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
48959097 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48959113 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:48959548 original size:40 final size:40
Alignment explanation
Indices: 48959425--48959783 Score: 359
Period size: 40 Copynumber: 8.9 Consensus size: 40
48959415 TCGAATGATG
** *
48959425 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
48959465 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
* *
48959505 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
48959545 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
48959585 TCCGGGCTAAGTTCCGAAAGAGCATTCATGCTAGTGAATATA
1 TCCGGGCTAAGTCCCG-AAGAGCATTCATGCTAGTG-ATATA
* *
48959627 TCCGGGCTAAGTCCC-AAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAA-GAGCATTCATGCTAGTGATATA
* *
48959667 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
48959707 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGATATA
* * * *
48959748 TCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
48959784 CGTGTATTCG
Statistics
Matches: 272, Mismatches: 38, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.00
40 168 0.62
41 85 0.31
42 18 0.07
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:48959658 original size:122 final size:122
Alignment explanation
Indices: 48959425--48959778 Score: 416
Period size: 122 Copynumber: 2.9 Consensus size: 122
48959415 TCGAATGATG
* * *
48959425 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCG-AAG-GC
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGGCTAAGATCCGAAAGAGC
* * * * *
48959486 ATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
64 ATTCGTGCTAGTGAATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
* * *
48959545 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGATCCGAAAGAGCAT
* * *
48959610 TCATGCTAGTGAATATATCCGGGCTAAGTCCC-AAGGAGCATTCGTGCTAGTGATGTA
66 TCGTGCTAGTGAATATATCCGGGCTAAGTCCCGAA-GAGCATTCATGCTAGCGATGTA
* * * *
48959667 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAA-ACCCCAAAGAGCAT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGATCCGAAAGAGCAT
* * * * *
48959731 TCGTGCTGGGTG-TTATATCCGGGCTAGGTCCCGAAGAGTAATCATGCT
66 TCGTGCT-AGTGAATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCT
48959779 GGTGACGTGT
Statistics
Matches: 199, Mismatches: 28, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
120 35 0.18
121 57 0.29
122 107 0.54
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (122 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGATCCGAAAGAGCAT
TCGTGCTAGTGAATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
Found at i:48960000 original size:25 final size:25
Alignment explanation
Indices: 48959946--48960000 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
48959936 TGTGTATTAA
48959946 CGAATGAATAAGAGCACTATGTATG
1 CGAATGAATAAGAGCACTATGTATG
* * * *
48959971 TGAATG-ATTAGAGGCACTGTGTGTG
1 CGAATGAATAAGA-GCACTATGTATG
48959996 CGAAT
1 CGAAT
48960001 TCCTTTAACC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (25 bp):
CGAATGAATAAGAGCACTATGTATG
Found at i:48963398 original size:47 final size:47
Alignment explanation
Indices: 48963280--48963579 Score: 512
Period size: 47 Copynumber: 6.3 Consensus size: 47
48963270 ATGATAGTAT
48963280 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
48963327 GG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
48963373 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
48963420 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
48963469 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
48963516 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG----TATATATGTGATAA
48963567 GGCCTAATGGCCG
1 GGCCTAATGGCCG
48963580 TGATAGGGCC
Statistics
Matches: 243, Mismatches: 3, Indels: 10
0.95 0.01 0.04
Matches are distributed among these distances:
46 45 0.19
47 124 0.51
49 47 0.19
51 27 0.11
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:48963504 original size:96 final size:96
Alignment explanation
Indices: 48963280--48963579 Score: 534
Period size: 96 Copynumber: 3.1 Consensus size: 96
48963270 ATGATAGTAT
48963280 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG-CTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
48963344 ATGAATGTGAAAGTG--TATATATGTGATAA
66 ATGAATGTGAAAGTGTATATATATGTGATAA
*
48963373 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
48963438 ATGAATGTGAAAGTGTATATATATGTGATAA
66 ATGAATGTGAAAGTGTATATATATGTGATAA
*
48963469 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
48963534 ATGAATGTGAAAGTGTATATATATATGTGATAG
66 ATGAATGTGAAAGTG--TATATATATGTGATAA
48963567 GGCCTAATGGCCG
1 GGCCTAATGGCCG
48963580 TGATAGGGCC
Statistics
Matches: 198, Mismatches: 4, Indels: 5
0.96 0.02 0.02
Matches are distributed among these distances:
93 48 0.24
94 30 0.15
96 92 0.46
98 28 0.14
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (96 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTATATATATGTGATAA
Found at i:48963529 original size:143 final size:141
Alignment explanation
Indices: 48963280--48963579 Score: 512
Period size: 143 Copynumber: 2.1 Consensus size: 141
48963270 ATGATAGTAT
48963280 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTAATGGCCGATGTGA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTAATGGCCGATGTGA
*
48963345 TGAATGTGAAAGTGTATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TAT
66 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATAT
48963409 ATATGTGATAA
131 ATATGTGATAA
48963420 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG-CTAATGGCCGATG
*
48963485 TGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT
63 TGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-
*
48963550 ATATATATATGTGATAG
127 --ATATATATGTGATAA
48963567 GGCCTAATGGCCG
1 GGCCTAATGGCCG
48963580 TGATAGGGCC
Statistics
Matches: 150, Mismatches: 3, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
140 33 0.22
142 16 0.11
143 75 0.50
147 26 0.17
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.30
Consensus pattern (141 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTAATGGCCGATGTGA
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATAT
ATATGTGATAA
Found at i:48963584 original size:19 final size:19
Alignment explanation
Indices: 48963560--48963598 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
48963550 ATATATATAT
48963560 GTGATAGGGCCTAATGGCC
1 GTGATAGGGCCTAATGGCC
48963579 GTGATAGGGCCTAATGGCC
1 GTGATAGGGCCTAATGGCC
48963598 G
1 G
48963599 ATGTGATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (19 bp):
GTGATAGGGCCTAATGGCC
Found at i:48963792 original size:37 final size:37
Alignment explanation
Indices: 48963736--48963814 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
48963726 CCGAGCTCTA
* * *
48963736 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
48963773 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48963810 AAGAC
1 AAGAC
48963815 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48969810 original size:40 final size:40
Alignment explanation
Indices: 48969763--48969947 Score: 277
Period size: 40 Copynumber: 4.6 Consensus size: 40
48969753 ACTACTTGCT
*
48969763 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
*
48969803 CAAATGCCTTCGGGACTTAGCTCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
*
48969843 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
* *
48969883 CAAATGCCTTC-GGAGCTTAGCCCAGA-ATTAGTCACT-AGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATA-TAGTAACTCA-CA
48969923 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
48969948 TTATCATCCG
Statistics
Matches: 133, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
39 4 0.03
40 126 0.95
41 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
Found at i:48983419 original size:65 final size:65
Alignment explanation
Indices: 48983310--48983436 Score: 236
Period size: 65 Copynumber: 2.0 Consensus size: 65
48983300 GCAGCCAAAG
*
48983310 TATTACAAGCTGGATTCTTTTGGCCAACACTATTTAAAGATGTGTTTGCTTACATAAGAAGTTGT
1 TATTACAAGCTAGATTCTTTTGGCCAACACTATTTAAAGATGTGTTTGCTTACATAAGAAGTTGT
*
48983375 TATTGCAAGCTAGATTCTTTTGGCCAACACTATTTAAAGATGTGTTTGCTTACATAAGAAGT
1 TATTACAAGCTAGATTCTTTTGGCCAACACTATTTAAAGATGTGTTTGCTTACATAAGAAGT
48983437 CGTGATCAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.38
Consensus pattern (65 bp):
TATTACAAGCTAGATTCTTTTGGCCAACACTATTTAAAGATGTGTTTGCTTACATAAGAAGTTGT
Found at i:48991926 original size:24 final size:25
Alignment explanation
Indices: 48991877--48991926 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
48991867 ACCCTTCTTA
* *
48991877 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCCCTCTCATTGTTC
48991902 TCTCTTCA-TTCCCT-TCCATTGTTC
1 TCTCTTCACTTCCCTCT-CATTGTTC
48991926 T
1 T
48991927 TCACTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 1 0.05
24 13 0.59
25 8 0.36
ACGTcount: A:0.08, C:0.36, G:0.02, T:0.54
Consensus pattern (25 bp):
TCTCTTCACTTCCCTCTCATTGTTC
Found at i:48994217 original size:45 final size:45
Alignment explanation
Indices: 48994153--48994371 Score: 313
Period size: 45 Copynumber: 5.0 Consensus size: 45
48994143 CATCGTACAG
* *
48994153 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
*
48994198 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* * * *
48994243 TACTATTTGGGCCTTTGAGCCTACCA-GCTATAATACCGGTGAGA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
* *
48994287 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCAGTGAAA
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
48994332 TGA-TA-TCGGG-CTTTGAGCCTAGCAGGCTA-AATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
48994372 TTTGATAAAA
Statistics
Matches: 158, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
42 10 0.06
43 18 0.11
44 43 0.27
45 86 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (45 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:48994307 original size:89 final size:90
Alignment explanation
Indices: 48994153--48994371 Score: 313
Period size: 89 Copynumber: 2.5 Consensus size: 90
48994143 CATCGTACAG
* * *
48994153 TACTATTCAGGCCTTTGAGCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGAGC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTCGAGC
* *
48994218 CTAGCAGGCTATGATGCCGGTGAAA
66 CTAGCAGGCTATAATGCCAGTGAAA
* * * *
48994243 TACTATTTGGGCCTTTGAGCCTACCA-GCTATAATACCGGTGAGATACTATTCGGGCCTTCGAGC
1 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTCGAGC
48994307 CTAGCAGGCTATAATGCCAGTGAAA
66 CTAGCAGGCTATAATGCCAGTGAAA
48994332 TGA-TA-TCGGG-CTTTGAGCCTAGCAGGCTA-AATGCCGGTGA
1 T-ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
48994372 TTTGATAAAA
Statistics
Matches: 115, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
87 23 0.20
88 8 0.07
89 60 0.52
90 24 0.21
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (90 bp):
TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAAATACTATTCGGGCCTTCGAGC
CTAGCAGGCTATAATGCCAGTGAAA
Found at i:48994877 original size:16 final size:18
Alignment explanation
Indices: 48994846--48994878 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
48994836 AACTCATCAC
48994846 ACTATCTATCGTTTTGGT
1 ACTATCTATCGTTTTGGT
48994864 ACTAT-TAT-GTTTTGG
1 ACTATCTATCGTTTTGG
48994879 GTCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.18, C:0.12, G:0.18, T:0.52
Consensus pattern (18 bp):
ACTATCTATCGTTTTGGT
Found at i:48999020 original size:47 final size:47
Alignment explanation
Indices: 48998966--48999511 Score: 957
Period size: 47 Copynumber: 11.6 Consensus size: 47
48998956 TATTTGAATA
*
48998966 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48999013 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48999060 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48999107 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48999154 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
48999201 AATGTGAAAGTGTATATATGTGTTAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48999248 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48999297 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
48999344 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48999391 AATGTGAAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
48999438 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
48999485 AATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
48999512 TCCCGAAGGG
Statistics
Matches: 477, Mismatches: 20, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 432 0.91
49 45 0.09
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:48999389 original size:22 final size:22
Alignment explanation
Indices: 48999361--48999436 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
48999351 AAGTGTATAT
48999361 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** ***
48999383 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCTAA-TG-GCCG
48999408 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
48999430 ATGTGAT
1 ATGTGAT
48999437 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:48999731 original size:37 final size:37
Alignment explanation
Indices: 48999636--48999731 Score: 156
Period size: 37 Copynumber: 2.6 Consensus size: 37
48999626 TCTAAAAACT
* *
48999636 CGATGACTACGTGTGGAGATTATGTCCGGGTAAGTCC
1 CGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACC
48999673 CGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACC
1 CGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACC
* *
48999710 CGATAACTTCGTGTGGAGATTT
1 CGATGACTACGTGTGGAGATTT
48999732 CGTCTGAGCT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (37 bp):
CGATGACTACGTGTGGAGATTTTGTCCGGGTAAGACC
Found at i:49004828 original size:15 final size:15
Alignment explanation
Indices: 49004783--49004821 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
49004773 AAATGAGTTA
*
49004783 GAAAAAGAAACGAGT
1 GAAAAAGAAAAGAGT
49004798 GAAAAAGAAAAGAGT
1 GAAAAAGAAAAGAGT
*
49004813 GGAAAAGAA
1 GAAAAAGAA
49004822 GAAAGTGTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.64, C:0.03, G:0.28, T:0.05
Consensus pattern (15 bp):
GAAAAAGAAAAGAGT
Found at i:49006754 original size:30 final size:30
Alignment explanation
Indices: 49006697--49006755 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
49006687 TATACGAGCC
* * * *
49006697 TAGGGGTAAAAGTGTAATTTTGGCAAAATT
1 TAGGGGCAAAAATATAATTTTAGCAAAATT
*
49006727 TAGGGGCAAAAATATAATTTTATCAAAAT
1 TAGGGGCAAAAATATAATTTTAGCAAAAT
49006756 ATGATTTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.32
Consensus pattern (30 bp):
TAGGGGCAAAAATATAATTTTAGCAAAATT
Found at i:49007369 original size:13 final size:13
Alignment explanation
Indices: 49007351--49007375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49007341 CGGTTCTTTT
49007351 TTTTGTTATTATC
1 TTTTGTTATTATC
49007364 TTTTGTTATTAT
1 TTTTGTTATTAT
49007376 ATGAGATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.08, T:0.72
Consensus pattern (13 bp):
TTTTGTTATTATC
Found at i:49007636 original size:50 final size:50
Alignment explanation
Indices: 49007574--49007914 Score: 312
Period size: 50 Copynumber: 6.8 Consensus size: 50
49007564 CAGTTATAGA
* * * *
49007574 TCACGTGTGTAGTACTAAGTACAGGCTACTACATGTACCAAATTGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGG
* * * * * *
49007624 TCGCATGTGTAGTACTAAGTGTAGGCTACTA--TCATACCTGATAGCTTCA-A
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGT-GTACCAGATTG-TT-AGG
* * *
49007674 TCACGTGTGTAGTACTAATTGCAGGCTACTATGTGTACCAGATTGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGG
* * * * * *
49007724 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCA-ATAGCTTTGA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG-TTAGG
* * * * * *
49007775 TCACGTGTATAGTACTAAGTGCAGGGTACTTCGTGTATCAGATGGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGG
* *
49007825 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGG
* * * * * *
49007875 TCGCATGTGTTGTACTTAGTGCAGGATACTATGCGTACCA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
49007915 AAGAGCTTCG
Statistics
Matches: 234, Mismatches: 48, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
48 1 0.00
49 8 0.03
50 176 0.75
51 48 0.21
52 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGG
Found at i:49007701 original size:100 final size:101
Alignment explanation
Indices: 49007573--49007855 Score: 397
Period size: 101 Copynumber: 2.8 Consensus size: 101
49007563 ACAGTTATAG
* * *
49007573 ATCACGTGTGTAGTACTAAGTACAGGCTACTACATGTACCAAATTGTTAGGTCGCATGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
* **
49007638 CTAAGTGTAGGCTACTAT-CATACCTGATAGCTTCA
66 CTAAGTGCAGGCTACTATGCATACCCAATAGCTTCA
* *
49007673 ATCACGTGTGTAGTACTAATTGCAGGCTACTATGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
* **
49007738 CTAAGTGCAGGCTACTATGCGTACCCAATAGCTTTG
66 CTAAGTGCAGGCTACTATGCATACCCAATAGCTTCA
* * * * * * *
49007774 ATCACGTGTATAGTACTAAGTGCAGGGTACTTCGTGTATCAGATGGTTAGGTCACGTGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
49007839 CTAAGTGCAGGCTACTA
66 CTAAGTGCAGGCTACTA
49007856 CGTGTACCAG
Statistics
Matches: 162, Mismatches: 20, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
100 77 0.48
101 85 0.52
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
ATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCGCATGTGTAGTA
CTAAGTGCAGGCTACTATGCATACCCAATAGCTTCA
Found at i:49010315 original size:40 final size:40
Alignment explanation
Indices: 49010237--49010454 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
49010227 AAACCAAGTA
* * *
49010237 CCTTCGGGATTTAG-CCGTATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
49010276 CCTTCGGGACTTAGCCTGGATATAGTAACTCGTATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
49010316 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** *
49010356 CCTTCGGGACTTAGCTAGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
49010396 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
49010436 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49010455 TTATCATCCG
Statistics
Matches: 157, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
39 15 0.10
40 142 0.90
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49013202 original size:15 final size:15
Alignment explanation
Indices: 49013181--49013218 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
49013171 CATCGGAATT
49013181 GGCCCAAGCACGAAG
1 GGCCCAAGCACGAAG
* *
49013196 TGCCCAAACACGAAG
1 GGCCCAAGCACGAAG
49013211 GGCCCAAG
1 GGCCCAAG
49013219 TGCAAAATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.34, C:0.34, G:0.29, T:0.03
Consensus pattern (15 bp):
GGCCCAAGCACGAAG
Found at i:49019068 original size:40 final size:40
Alignment explanation
Indices: 49018980--49019197 Score: 275
Period size: 40 Copynumber: 5.5 Consensus size: 40
49018970 AAACCAAGTA
* *
49018980 CCTTC-GGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
49019018 CCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAATG
*
49019059 CCTTC-GGACTTAGCCCGGATATAGTAACTTGCACCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCA-CAAATG
*
49019099 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
** * * *
49019139 CCTTCGGGGTTTAGCCCAGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
49019179 CCATCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
49019198 TTATCATCCG
Statistics
Matches: 158, Mismatches: 15, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
38 5 0.03
39 22 0.14
40 82 0.52
41 49 0.31
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:49021170 original size:27 final size:27
Alignment explanation
Indices: 49021140--49021208 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
49021130 ATATTAAGTC
*
49021140 CGCACACTCAGTGCTAT-ATAATCAACT
1 CGCACACTTAGTGCTATAATAA-CAACT
49021167 CGCACACTTAGTGCTATAATAACAACT
1 CGCACACTTAGTGCTATAATAACAACT
*
49021194 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
49021209 GAACAATTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 35 0.90
28 4 0.10
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTATAATAACAACT
Found at i:49023448 original size:40 final size:40
Alignment explanation
Indices: 49023383--49023599 Score: 264
Period size: 40 Copynumber: 5.5 Consensus size: 40
49023373 CGGATGATAA
* * *
49023383 CCGGGGTAAGTCCCG-ATGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-T
* **
49023422 CTGGGCTAAACCCCGAAGGCATTTGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATAT
*
49023462 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
*
49023502 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* * *
49023542 TCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
*
49023582 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
49023600 TACTTGGTTT
Statistics
Matches: 158, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
39 29 0.18
40 128 0.81
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:49029352 original size:15 final size:15
Alignment explanation
Indices: 49029331--49029368 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
49029321 TCATTTTGCA
49029331 CTTGGGCCCTTCGTG
1 CTTGGGCCCTTCGTG
* *
49029346 TTTGGGCACTTCGTG
1 CTTGGGCCCTTCGTG
49029361 CTTGGGCC
1 CTTGGGCC
49029369 AATTCCGATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.03, C:0.29, G:0.34, T:0.34
Consensus pattern (15 bp):
CTTGGGCCCTTCGTG
Found at i:49036806 original size:39 final size:39
Alignment explanation
Indices: 49036725--49036890 Score: 271
Period size: 39 Copynumber: 4.2 Consensus size: 39
49036715 AAACCAAGTA
* *
49036725 CCTTCGGGATTTAGCCGGATAATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCGGAT-ATAG-TAACTCGCACAAATG
49036765 CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
49036804 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
*
49036844 CCTTCGGGACTTAGCCCGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
49036883 CCTTCGGG
1 CCTTCGGG
49036891 TAGCGGAATT
Statistics
Matches: 121, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
38 1 0.01
39 62 0.51
40 58 0.48
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGATATAGTAACTCGCACAAATG
Found at i:49036856 original size:79 final size:79
Alignment explanation
Indices: 49036725--49036890 Score: 273
Period size: 79 Copynumber: 2.1 Consensus size: 79
49036715 AAACCAAGTA
* * *
49036725 CCTTCGGGATTTAGCCGGATAATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATAATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGATATAGT
49036790 AACTCGCACAAATG
66 AACTCGCACAAATG
49036804 CCTTCGGGACTTAGCCCGGAT-ATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGATATA
1 CCTTCGGGACTTAG-CCGGATAATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGATATA
49036867 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
49036883 CCTTCGGG
1 CCTTCGGG
49036891 TAGCGGAATT
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
78 1 0.01
79 75 0.91
80 6 0.07
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGATAATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGATATAGT
AACTCGCACAAATG
Found at i:49045287 original size:28 final size:28
Alignment explanation
Indices: 49045224--49045321 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
49045214 ATATTAAGTC
*
49045224 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
49045251 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
49045279 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
49045308 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49045322 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49050721 original size:27 final size:27
Alignment explanation
Indices: 49050677--49050738 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
49050667 AAAAACAATC
* * *
49050677 ATTTTACCCTATAGGGGTATGTTGATA
1 ATTTTACACTACAAGGGTATGTTGATA
*
49050704 ATTTTACACTACAAGGGTATTTTGATA
1 ATTTTACACTACAAGGGTATGTTGATA
49050731 ATTTTACA
1 ATTTTACA
49050739 AATCAGGGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.31, C:0.11, G:0.16, T:0.42
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATGTTGATA
Found at i:49050748 original size:27 final size:27
Alignment explanation
Indices: 49050689--49051053 Score: 213
Period size: 27 Copynumber: 13.7 Consensus size: 27
49050679 TTTACCCTAT
* *
49050689 AGGGGTATGTTGATAATTTTAC-ACTAC
1 AGGGGTATTTTGATAATTTTACAAAT-C
*
49050716 AAGGGTATTTTGATAATTTTACAAATC
1 AGGGGTATTTTGATAATTTTACAAATC
* *
49050743 AGGGGTGTTTTGGTAATTTTACAAAT-
1 AGGGGTATTTTGATAATTTTACAAATC
* * * *
49050769 TGAGGTATTTCGATAATTCTACAAATC
1 AGGGGTATTTTGATAATTTTACAAATC
* *
49050796 -GAGGGTA-TTTCAGCAATTTTACAAAT-
1 AG-GGGTATTTTGA-TAATTTTACAAATC
* **
49050822 AAGGGTATTTCAATAATTTTACAAAT-
1 AGGGGTATTTTGATAATTTTACAAATC
* * * *
49050848 TGACGGTGTTTTGGTAATTTTA-AAATC
1 AG-GGGTATTTTGATAATTTTACAAATC
* * * *
49050875 -GAGG-ATGTTTCGAGAATTTCACAAATT
1 AGGGGTAT-TTT-GATAATTTTACAAATC
* * *
49050902 GGGGGTATTTCGGTAATTTTACAAATC
1 AGGGGTATTTTGATAATTTTACAAATC
* *
49050929 -GAGGGCATTTT-AGT-ATTTCAC-AATC
1 AG-GGGTATTTTGA-TAATTTTACAAATC
* *
49050954 TA-AGGTATTTTGGTAATTTTACAAATC
1 -AGGGGTATTTTGATAATTTTACAAATC
*
49050981 AGGGGTATTTCGATAATTTTACAAATC
1 AGGGGTATTTTGATAATTTTACAAATC
* * *
49051008 -GAGGGTGTTTCGGTAATTTTACAAATC
1 AG-GGGTATTTTGATAATTTTACAAATC
*
49051035 -GAGGGTATTTCGATAATTT
1 AG-GGGTATTTTGATAATTT
49051054 CCCTTTATTA
Statistics
Matches: 261, Mismatches: 55, Indels: 44
0.73 0.15 0.12
Matches are distributed among these distances:
24 1 0.00
25 17 0.07
26 68 0.26
27 166 0.64
28 7 0.03
29 2 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTTGATAATTTTACAAATC
Found at i:49050792 original size:53 final size:54
Alignment explanation
Indices: 49050717--49051053 Score: 357
Period size: 53 Copynumber: 6.3 Consensus size: 54
49050707 TTACACTACA
* * * *
49050717 AGGGTATTTTGATAATTTTACAAATC-AGGGGTGTTTTGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACAAATCGA-GGGTATTTCGGTAATTTTACAAATCG
* * * *
49050771 A-GGTATTTCGATAATTCTACAAATCGAGGGTATTTCAGCAATTTTACAAAT-A
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
* * * * *
49050823 AGGGTATTTCAATAATTTTACAAATTGACGGTGTTTTGGTAATTTTA-AAATCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
* * * * * *
49050876 AGGATGTTTCGAGAATTTCACAAATTGGGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
* * * * * *
49050930 AGGGCATTT-TAGT-ATTTCAC-AATCTAAGGTATTTTGGTAATTTTACAAATC-
1 AGGGTATTTCGA-TAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
*
49050981 AGGGGTATTTCGATAATTTTACAAATCGAGGGTGTTTCGGTAATTTTACAAATCG
1 A-GGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
49051036 AGGGTATTTCGATAATTT
1 AGGGTATTTCGATAATTT
49051054 CCCTTTATTA
Statistics
Matches: 231, Mismatches: 42, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
51 1 0.00
52 39 0.17
53 132 0.57
54 58 0.25
55 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATCG
Found at i:49051404 original size:28 final size:28
Alignment explanation
Indices: 49051371--49051490 Score: 168
Period size: 28 Copynumber: 4.3 Consensus size: 28
49051361 TGGCCCCTTT
* * **
49051371 AGGCCCAATCTCGTTCCCATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
49051399 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* *
49051427 AGACCTAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
49051455 AAGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
49051483 AAGCCCAA
1 AGGCCCAA
49051491 CCTTGGCACA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 83 1.00
ACGTcount: A:0.29, C:0.37, G:0.13, T:0.21
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Done.