Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 22 of 64
Found at i:4266876 original size:31 final size:31
Alignment explanation
Indices: 4266839--4266901 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
4266829 TCAAAATCTC
4266839 AAAGAAATATATGAAGGGAAAGCACATCAAT
1 AAAGAAATATATGAAGGGAAAGCACATCAAT
4266870 AAAGAAATATATGAAGGGAAAGCACATCAAT
1 AAAGAAATATATGAAGGGAAAGCACATCAAT
4266901 A
1 A
4266902 GAGATATGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.10, G:0.19, T:0.16
Consensus pattern (31 bp):
AAAGAAATATATGAAGGGAAAGCACATCAAT
Found at i:4282915 original size:3 final size:3
Alignment explanation
Indices: 4282907--4282980 Score: 78
Period size: 3 Copynumber: 25.0 Consensus size: 3
4282897 TAATTTATGT
* * * * * *
4282907 TTA TTA TTA TTA TAA ATA TTA TTA TTA TTA ATA TTA ATA TTA ATA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
4282955 ATA TTA TTA TTA TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
4282981 CAAATATATC
Statistics
Matches: 56, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:4284333 original size:19 final size:19
Alignment explanation
Indices: 4284309--4284351 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
4284299 TTTGATATTT
4284309 TTTTAAGTTAATTTTATAA
1 TTTTAAGTTAATTTTATAA
* **
4284328 TTTTAATTTCTTTTTATAA
1 TTTTAAGTTAATTTTATAA
4284347 TTTTA
1 TTTTA
4284352 TTTTTTGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTAAGTTAATTTTATAA
Found at i:4284901 original size:157 final size:155
Alignment explanation
Indices: 4284697--4284993 Score: 427
Period size: 157 Copynumber: 1.9 Consensus size: 155
4284687 AATATCTTAC
* *
4284697 TTTTATAAATTATATTAATCTATTTTTTAATTATTTATAGATAAATGTTTTATTAATATTTATTT
1 TTTTATAAATTATATTAATCTATTTTTTAATTATTTATACAGAAATGTTTTATTAATATTTATTT
* * * * * * *
4284762 ATTTTTTAATATTAAGAAAATAGTTGTCTTAAAGTACCTAGAAGTCATTTTTTTATATTCTTAAA
66 ATTTTTTAATATTAAGAAAAGAGCTATCTTAAAGCACCTAGAAGCCATTTTCTGATATTCTTAAA
4284827 TAAATAAATAAATAAATATCATATT
131 TAAATAAATAAATAAATATCATATT
*
4284852 TTTTATAAATTATA-T-ATACTAATTTATTTTAATTATTTTTACAGAAATGTTTTATTAATATTT
1 TTTTATAAATTATATTAAT-CT-A-TT-TTTTAATTATTTATACAGAAATGTTTTATTAATATTT
* *
4284915 ATTTATTTTTTAATATTAAGAAAGGAGCTATCTTAAAGCACCTAGAAGCCATTTTCTGATATTTT
62 ATTTATTTTTTAATATTAAGAAAAGAGCTATCTTAAAGCACCTAGAAGCCATTTTCTGATATTCT
*
4284980 TAAGTAAATAAATA
127 TAAATAAATAAATA
4284994 TCTTATTTAT
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
153 2 0.02
154 3 0.02
155 15 0.12
156 2 0.02
157 103 0.82
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.49
Consensus pattern (155 bp):
TTTTATAAATTATATTAATCTATTTTTTAATTATTTATACAGAAATGTTTTATTAATATTTATTT
ATTTTTTAATATTAAGAAAAGAGCTATCTTAAAGCACCTAGAAGCCATTTTCTGATATTCTTAAA
TAAATAAATAAATAAATATCATATT
Found at i:4294111 original size:22 final size:22
Alignment explanation
Indices: 4294083--4294140 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
4294073 TATATCTACA
*
4294083 CTCTTCAAAGATGATAGATTTT
1 CTCTTCAAAGATGATAGATTCT
4294105 CTCTTCAAAGATGATAGATTCT
1 CTCTTCAAAGATGATAGATTCT
*
4294127 CTTTTCAAAGATGA
1 CTCTTCAAAGATGA
4294141 AAGCTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (22 bp):
CTCTTCAAAGATGATAGATTCT
Found at i:4294900 original size:73 final size:72
Alignment explanation
Indices: 4294795--4294934 Score: 201
Period size: 72 Copynumber: 1.9 Consensus size: 72
4294785 ACTATTTTCA
* * *
4294795 TCATCTGTAAGACCTACAGTCTTTGATTTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCTTAAAG
1 TCATCTGTAAGACCTACAGTCTATGATGTTTTC-AAAAGCCTTCGGGAGATTTTTGATCTTAAAG
4294860 CCTCAGGG
65 CCTCAGGG
* * *
4294868 TCATCTGTAGGACCTACAGTGC-ATGATGTTTTCAAAATCCTTCGGGAGATTTTTTATCTTAAAG
1 TCATCTGTAAGACCTACAGT-CTATGATGTTTTCAAAAGCCTTCGGGAGATTTTTGATCTTAAAG
4294932 CCT
65 CCT
4294935 TTTTGATCTT
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 31 0.52
73 28 0.47
74 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (72 bp):
TCATCTGTAAGACCTACAGTCTATGATGTTTTCAAAAGCCTTCGGGAGATTTTTGATCTTAAAGC
CTCAGGG
Found at i:4294943 original size:17 final size:17
Alignment explanation
Indices: 4294917--4294951 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4294907 CTTCGGGAGA
*
4294917 TTTTTTATCTTAAAGCC
1 TTTTTGATCTTAAAGCC
4294934 TTTTTGATCTTAAAGCC
1 TTTTTGATCTTAAAGCC
4294951 T
1 T
4294952 CAGGGTCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.51
Consensus pattern (17 bp):
TTTTTGATCTTAAAGCC
Found at i:4295011 original size:89 final size:90
Alignment explanation
Indices: 4294844--4295115 Score: 467
Period size: 90 Copynumber: 3.0 Consensus size: 90
4294834 CCTTCGGGAG
*
4294844 CTTTTTGATCTTAAAGCCTCAGGGTCATCTGTAGGACCTACAGTGCATGATGTTTTC-AAAA-TC
1 CTTTTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGT-
*
4294907 CTTCGGGAGATTTTTTATCTTAAAGC
65 CTTCGGGAGATTTTTGATCTTAAAGC
4294933 CTTTTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGTC
1 CTTTTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGTC
4294998 TTCGGGAGATTTTTGATCTTAAAGC
66 TTCGGGAGATTTTTGATCTTAAAGC
* * *
4295023 CTCTTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCGTGATGTTTTCAAAAAGCC
1 CTTTTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGTC
*
4295088 TTCGGGAGCTTTTTGATCTTAAAGC
66 TTCGGGAGATTTTTGATCTTAAAGC
4295113 CTT
1 CTT
4295116 AGGGTCATCT
Statistics
Matches: 174, Mismatches: 7, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
89 56 0.32
90 117 0.67
91 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (90 bp):
CTTTTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGTC
TTCGGGAGATTTTTGATCTTAAAGC
Found at i:4295031 original size:17 final size:17
Alignment explanation
Indices: 4295009--4295042 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
4294999 TCGGGAGATT
4295009 TTTGATCTTAAAGCCTC
1 TTTGATCTTAAAGCCTC
4295026 TTTGATCTTAAAGCCTC
1 TTTGATCTTAAAGCCTC
4295043 AGGGTCATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.41
Consensus pattern (17 bp):
TTTGATCTTAAAGCCTC
Found at i:4295147 original size:73 final size:73
Alignment explanation
Indices: 4295026--4295911 Score: 1116
Period size: 73 Copynumber: 11.9 Consensus size: 73
4295016 TTAAAGCCTC
*
4295026 TTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCGTGATGTTTTCAAAAAGCCTTC
1 TTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC
4295091 GGGAGCTT
66 GGGAGCTT
*
4295099 TTTGATCTTAAAGCCTTAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC
1 TTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC
4295164 GGGAGCTT
66 GGGAGCTT
*
4295172 TTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAATCCTTC
1 TTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC
* *
4295237 AGGATCTT
66 GGGAGCTT
4295245 TTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC
1 TTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC
4295310 GGGAGCTT
66 GGGAGCTT
* *
4295318 TTTGATCTTAAAGCCTCAGGGTTATCTGTAAGACCTACAGCGCATGATGTTTTCAAAAAGCCTTC
1 TTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC
*
4295383 GGGAGATT
66 GGGAGCTT
* * *
4295391 TTTTATCTTAAAGCCTCAGGGTCATCTATAAGACCTACAATGCATGATGTTTTCAAAAAGCCTTC
1 TTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC
*
4295456 GGGAACTT
66 GGGAGCTT
* * *
4295464 TTTGATCTTAAAGCCTTC-GGGTCATTTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
1 TTTGATCTTAAAGCC-TCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
*
4295528 CGGGAGTTTTT
65 CGGGAG--CTT
* * * * * * * *
4295539 TTATGTTTTTAAAGCCTCCGGGTCATCCGTGAGCCCTACAGTGCAGGATGTTTTCAAAAAGTCTT
1 TT-TGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTT
*
4295604 CAGGAGCTT
65 CGGGAGCTT
* * * * * *
4295613 TTGATGTTTTTTAAAGCCTCCGGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAGCC
1 TT--TG-ATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCC
* *
4295678 TTCAGGAGATT
63 TTCGGGAGCTT
* * * * *
4295689 TTTGATGTTTTTTAAAGCCTTC-GGGTCATCCGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAA
1 TTTGA----TCTTAAAGCC-TCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAG
*
4295753 CCTTCAGGAGCTT
61 CCTTCGGGAGCTT
* * * * *
4295766 TTTGATGTTTTTTAAAGCCTCCGGGTCATCTGTATGCCCTTCAGTGCATGATGTTTTCAAAAAGC
1 TTTGA----TCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGC
4295831 CTTCGGGAGCTT
62 CTTCGGGAGCTT
* * * * *
4295843 TTTGATGTTTTCAAAACCTTC-GGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTC-AAAA-C
1 TTTGA--TCTT-AAAGCC-TCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGC
4295905 CTTCGGG
62 CTTCGGG
4295912 GTCATCTGTA
Statistics
Matches: 744, Mismatches: 54, Indels: 29
0.90 0.07 0.04
Matches are distributed among these distances:
73 406 0.55
74 16 0.02
75 18 0.02
76 164 0.22
77 138 0.19
78 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (73 bp):
TTTGATCTTAAAGCCTCAGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC
GGGAGCTT
Found at i:4295894 original size:45 final size:46
Alignment explanation
Indices: 4295845--4296038 Score: 356
Period size: 46 Copynumber: 4.3 Consensus size: 46
4295835 GGGAGCTTTT
*
4295845 TGATGTTTTCAAAACCTTC-GGGTCATCTGTAAGCCCTTCAGTGTA
1 TGATGTTTTCAAAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCA
4295890 TGATGTTTTCAAAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCA
4295936 TGATGTTTTCAAAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCA
*
4295982 TGATGTTTTCAAAACCTTC-GGGTCATCTGTAAGTCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCA
4296027 TGATGTTTTCAA
1 TGATGTTTTCAA
4296039 CATTTCCATC
Statistics
Matches: 146, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
45 56 0.38
46 90 0.62
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (46 bp):
TGATGTTTTCAAAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:4295948 original size:91 final size:91
Alignment explanation
Indices: 4295845--4296038 Score: 354
Period size: 91 Copynumber: 2.1 Consensus size: 91
4295835 GGGAGCTTTT
*
4295845 TGATGTTTTCAAAACCTTC-GGGTCATCTGTAAGCCCTTCAGTGTATGATGTTTTCAAAACCTTC
1 TGATGTTTTCAAAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
4295909 GGGGTCATCTGTAAGCCCTTCAGTGCA
66 -GGGTCATCTGTAAGCCCTTCAGTGCA
4295936 TGATGTTTTCAAAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
1 TGATGTTTTCAAAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
*
4296001 GGGTCATCTGTAAGTCCTTCAGTGCA
66 GGGTCATCTGTAAGCCCTTCAGTGCA
4296027 TGATGTTTTCAA
1 TGATGTTTTCAA
4296039 CATTTCCATC
Statistics
Matches: 100, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
91 56 0.56
92 44 0.44
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (91 bp):
TGATGTTTTCAAAACCTTCGGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTC
GGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:4296166 original size:3 final size:3
Alignment explanation
Indices: 4296158--4296261 Score: 158
Period size: 3 Copynumber: 35.0 Consensus size: 3
4296148 AATTTTCAAT
* *
4296158 TTA TTA TTA TTA TAA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
4296206 TATA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4296251 TTA -TA TTA TTA
1 TTA TTA TTA TTA
4296262 CAAATACATC
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
2 4 0.04
3 86 0.93
4 2 0.02
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:4297613 original size:19 final size:19
Alignment explanation
Indices: 4297589--4297631 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
4297579 TTTGATCTTT
4297589 TTTTAAGTTAATTTTATAA
1 TTTTAAGTTAATTTTATAA
* **
4297608 TTTTAATTTCTTTTTATAA
1 TTTTAAGTTAATTTTATAA
4297627 TTTTA
1 TTTTA
4297632 TTTTGTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTAAGTTAATTTTATAA
Found at i:4297634 original size:18 final size:19
Alignment explanation
Indices: 4297600--4297646 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 19
4297590 TTTAAGTTAA
4297600 TTTTATAATTTTAATTTCT-
1 TTTTATAATTTTAATTT-TG
4297619 TTTTATAATTTT-ATTTTG
1 TTTTATAATTTTAATTTTG
4297637 TTTTATAATT
1 TTTTATAATT
4297647 ATTTTTTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 1 0.04
18 14 0.52
19 12 0.44
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTATAATTTTAATTTTG
Found at i:4297640 original size:19 final size:18
Alignment explanation
Indices: 4297600--4297646 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
4297590 TTTAAGTTAA
4297600 TTTTATAATTTTAATTTC
1 TTTTATAATTTTAATTTC
* *
4297618 TTTTTATAATTTTATTTTG
1 -TTTTATAATTTTAATTTC
4297637 TTTTATAATT
1 TTTTATAATT
4297647 ATTTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATAATTTTAATTTC
Found at i:4298089 original size:138 final size:140
Alignment explanation
Indices: 4297890--4298257 Score: 374
Period size: 153 Copynumber: 2.5 Consensus size: 140
4297880 ATTATTATTT
* * * *
4297890 TTAATATTTATTTATTTTTCAATATTAAGAAAAGA-CAT-TCTTAAAACAACTGGATGTTCATTT
1 TTAATATTTATTTATTTTT-AATATTAAGAAAAGAGC-TGTCTTAAAGCACCTAGAAG-TCATTT
* *
4297953 TCTGATATTTTTAAATATCTTA-CTTTTATAAATTATAT-TAATCT-A-TT-TTTTAATTATTTT
63 TCTAATATTTTTAAATATCATATCTTTTATAAATTATATAT-A-CTAATTTATTTTAATTATTTT
*
4298013 TAGATAAATGTTTTA
126 TACATAAATGTTTTA
4298028 TTAATATTTATTTATTTATTAATATTAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCATTTTT
1 TTAATATTTATTTATTT-TTAATATTAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCA-TTTT
* * *
4298093 TTATATTCTTAAATAAATAAATAAATATCATATTTTTTATAAATTATATATACTAATTTATTTTA
64 CTA-A-TATT---T---T---TAAATATCATATCTTTTATAAATTATATATACTAATTTATTTTA
4298158 ATTATTTTTACATAAATGTTTTA
118 ATTATTTTTACATAAATGTTTTA
* * * *
4298181 TTAATATATATTTATTTTTTAATATTAA-AAAATGAGCTGGCTTAAAGTACCTAGAAGCCATTTT
1 TTAATATTTATTTA-TTTTTAATATTAAGAAAA-GAGCTGTCTTAAAGCACCTAGAAGTCATTTT
4298245 CTAATATTTTTAA
64 CTAATATTTTTAA
4298258 GTAAATAAAT
Statistics
Matches: 192, Mismatches: 16, Indels: 41
0.77 0.06 0.16
Matches are distributed among these distances:
138 36 0.19
139 22 0.11
140 1 0.01
141 6 0.03
144 2 0.01
147 2 0.01
150 15 0.08
151 18 0.09
152 13 0.07
153 74 0.39
154 3 0.02
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (140 bp):
TTAATATTTATTTATTTTTAATATTAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGTCATTTTCT
AATATTTTTAAATATCATATCTTTTATAAATTATATATACTAATTTATTTTAATTATTTTTACAT
AAATGTTTTA
Found at i:4298165 original size:153 final size:151
Alignment explanation
Indices: 4297976--4298268 Score: 430
Period size: 153 Copynumber: 1.9 Consensus size: 151
4297966 AATATCTTAC
* *
4297976 TTTTATAAATTATATTAATCTATTTTTTAATTATTTTTAGATAAATGTTTTATTAATATTTATTT
1 TTTTATAAATTATATTAATCTATTTTTTAATTATTTTTACATAAATGTTTTATTAATATATATTT
* * * *
4298041 ATTTATTAATATTAAGAAAA-GAGCTGTCTTAAAGCACCTAGAAGTCATTTTTTTATATTCTTAA
66 ATTTATTAATATTAA-AAAATGAGCTGGCTTAAAGCACCTAGAAGCCATTTTCTAATATTCTTAA
4298105 ATAAATAAATAAATATCATATT
130 ATAAATAAATAAATATCATATT
4298127 TTTTATAAATTATA-T-ATACTAATTTATTTTAATTATTTTTACATAAATGTTTTATTAATATAT
1 TTTTATAAATTATATTAAT-CT-A-TT-TTTTAATTATTTTTACATAAATGTTTTATTAATATAT
* * *
4298190 ATTTATTTTTTAATATTAAAAAATGAGCTGGCTTAAAGTACCTAGAAGCCATTTTCTAATATTTT
62 ATTTATTTATTAATATTAAAAAATGAGCTGGCTTAAAGCACCTAGAAGCCATTTTCTAATATTCT
*
4298255 TAAGTAAATAAATA
127 TAAATAAATAAATA
4298269 TCTTATTTAT
Statistics
Matches: 127, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
149 2 0.02
150 3 0.02
151 15 0.12
152 6 0.05
153 101 0.80
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (151 bp):
TTTTATAAATTATATTAATCTATTTTTTAATTATTTTTACATAAATGTTTTATTAATATATATTT
ATTTATTAATATTAAAAAATGAGCTGGCTTAAAGCACCTAGAAGCCATTTTCTAATATTCTTAAA
TAAATAAATAAATATCATATT
Found at i:4303134 original size:24 final size:25
Alignment explanation
Indices: 4303107--4303167 Score: 81
Period size: 24 Copynumber: 2.5 Consensus size: 25
4303097 TTTCTATTAT
*
4303107 AATACCTGACCTGGATTCTGATC-G
1 AATACTTGACCTGGATTCTGATCTG
* *
4303131 AATACTTGACCTAGATTTTGATCTG
1 AATACTTGACCTGGATTCTGATCTG
4303156 -ATACTTGACCTG
1 AATACTTGACCTG
4303168 AATTATGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 31 0.97
25 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (25 bp):
AATACTTGACCTGGATTCTGATCTG
Found at i:4303181 original size:24 final size:24
Alignment explanation
Indices: 4303108--4303174 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
4303098 TTCTATTATA
* * *
4303108 ATACCTGACCTGGATTCTGATC-G
1 ATACTTGACCTAGATTATGATCTG
*
4303131 AATACTTGACCTAGATTTTGATCTG
1 -ATACTTGACCTAGATTATGATCTG
4303156 ATACTTGACCT-GAATTATG
1 ATACTTGACCTAG-ATTATG
4303175 TTTTGATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.03
24 35 0.95
25 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (24 bp):
ATACTTGACCTAGATTATGATCTG
Found at i:4304605 original size:51 final size:51
Alignment explanation
Indices: 4304524--4304683 Score: 162
Period size: 51 Copynumber: 3.1 Consensus size: 51
4304514 CCAGTATTAA
* * * * *
4304524 GCACCTCTACCATACATTTCGTTTTT-CTTGTCCTACTAAAGCCAATGTTAG
1 GCACCTCCATCATACTTTTC-TTTTTCCTTGTCTTACTAGAGCCAATGTTAG
* *
4304575 GCACCTCCAT-ATTACTTTTCTTTTTCCTTGTCTTTCTAGAGCCAACGTTAG
1 GCACCTCCATCA-TACTTTTCTTTTTCCTTGTCTTACTAGAGCCAATGTTAG
* * * * * *
4304626 GCATCTACATCATACTTTTATTTTTCCTAGTCTTGCTAGAGCCAATATTAG
1 GCACCTCCATCATACTTTTCTTTTTCCTTGTCTTACTAGAGCCAATGTTAG
*
4304677 TCACCTC
1 GCACCTC
4304684 TAGCATATTG
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
50 6 0.07
51 82 0.92
52 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.11, T:0.40
Consensus pattern (51 bp):
GCACCTCCATCATACTTTTCTTTTTCCTTGTCTTACTAGAGCCAATGTTAG
Found at i:4312109 original size:59 final size:59
Alignment explanation
Indices: 4312017--4312134 Score: 168
Period size: 59 Copynumber: 2.0 Consensus size: 59
4312007 AATAGATTGA
* * * *
4312017 TAAGTGTCATATCGAACCCTCCTAGTCGCAATGAAAAGGTAAACT-AGATAATATGGCTC
1 TAAGTGTCATATAGAACCCTCATAGTCACAATGAAAAGGAAAACTCA-ATAATATGGCTC
4312076 TAAGTGTTC-TATAGAACCCTCATAGTCACAATGAAAAGGAAAACTCAATAATATGGCTC
1 TAAGTG-TCATATAGAACCCTCATAGTCACAATGAAAAGGAAAACTCAATAATATGGCTC
4312135 CAACTAACCC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
59 50 0.94
60 3 0.06
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.25
Consensus pattern (59 bp):
TAAGTGTCATATAGAACCCTCATAGTCACAATGAAAAGGAAAACTCAATAATATGGCTC
Found at i:4314759 original size:58 final size:59
Alignment explanation
Indices: 4314666--4314785 Score: 215
Period size: 58 Copynumber: 2.1 Consensus size: 59
4314656 AATAGATGGA
* *
4314666 TAAGTGTCCTATCGAACCCTCCTAGTCGTAATGAAAAGGCAAGCTCGATAATATGGCTC
1 TAAGTGTCCTATCGAACCCTCCTAGTCATAATGAAAAGGCAAACTCGATAATATGGCTC
4314725 TAAGTGTCCTATCGAA-CCTCCTAGTCATAATGAAAAGGCAAACTCGATAATATGGCTC
1 TAAGTGTCCTATCGAACCCTCCTAGTCATAATGAAAAGGCAAACTCGATAATATGGCTC
4314783 TAA
1 TAA
4314786 CCAACCCTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 43 0.73
59 16 0.27
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (59 bp):
TAAGTGTCCTATCGAACCCTCCTAGTCATAATGAAAAGGCAAACTCGATAATATGGCTC
Found at i:4327201 original size:2 final size:2
Alignment explanation
Indices: 4327194--4327258 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
4327184 TAGTCAATAA
4327194 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4327236 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
4327259 ATTTGGTCTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4328156 original size:20 final size:20
Alignment explanation
Indices: 4328120--4328157 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4328110 TTTTTAAAAT
*
4328120 TTAAAATAATCTATTTATTA
1 TTAAAATAATATATTTATTA
*
4328140 TTAAAATAATATTTTTAT
1 TTAAAATAATATATTTAT
4328158 AATTTTAGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAAAATAATATATTTATTA
Found at i:4328355 original size:27 final size:28
Alignment explanation
Indices: 4328317--4328395 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 28
4328307 TAGATTATTA
*
4328317 TATTGATATTAAATATA-TAAATAATAT
1 TATTCATATTAAATATAGTAAATAATAT
* *
4328344 TATTCATATT-AATA-ATTTAATAATAT
1 TATTCATATTAAATATAGTAAATAATAT
*
4328370 TATTTC-TATGAAAT-TAGTAAATAATA
1 TA-TTCATATTAAATATAGTAAATAATA
4328396 CAAATTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
25 1 0.02
26 18 0.42
27 24 0.56
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.46
Consensus pattern (28 bp):
TATTCATATTAAATATAGTAAATAATAT
Found at i:4328527 original size:22 final size:22
Alignment explanation
Indices: 4328484--4328527 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
4328474 TTTATTATAA
*
4328484 TATTAAAAATATAATATCATAT
1 TATTAAAAATATAATATAATAT
*
4328506 TATTAGAAATATGAATA-AATAT
1 TATTAAAAATAT-AATATAATAT
4328528 ATTTTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (22 bp):
TATTAAAAATATAATATAATAT
Found at i:4330800 original size:147 final size:146
Alignment explanation
Indices: 4330600--4330965 Score: 378
Period size: 148 Copynumber: 2.5 Consensus size: 146
4330590 TGGTTTTGCC
* * * * * *
4330600 AAATGATATATAGTTAATATATTTAAAAATCACTC-AATTGTAAACAATGATACTATTTTGTACA
1 AAATTATATATATTTAATATATTTAAAAAT-ATTCGAA-TATAAA-GATAATACTATTTTGTACA
* * * * **
4330664 AACAATCTTAAGAAGCACACTTCTTGCAAGTCAAGAGGCATAT-CTGT-GGTACCCTTGCAAAAT
63 AACAATCATAAGAAACACACTTCTTGCAAGTCAAGAGACATATCCT-TCGATACCCTCACAAAAT
4330727 AATATTGCCTAAACTTTTAGT
127 AATATTGCCTAAA-TTTTAGT
* *
4330748 AAATTATATATATTTAATATATTAAAAAATATTCGAATATAAAGATTAATACTATTTTGTACGAA
1 AAATTATATATATTTAATATATTTAAAAATATTCGAATATAAAGA-TAATACTATTTTGTACAAA
* * * * ** * *
4330813 TAGTCATAGGAAACATACTTCTTGCAAGTCAAGAGATGTTTCCTTCGATCCCCTCACAAAATAAT
65 CAATCATAAGAAACACACTTCTTGCAAGTCAAGAGACATATCCTTCGATACCCTCACAAAATAAT
**
4330878 ATTGCCTCGATTTTAGT
130 ATTGCCTAAATTTTAGT
* * * * *
4330895 AAATTATATATATTTAATATATTTTAAAATTATTTGAATAGAAAGAAAGATACTATTTTGTAAAA
1 AAATTATATATATTTAATATA-TTTAAAAATATTCGAATATAAAGATA-ATACTATTTTGTACAA
4330960 ACAATC
64 ACAATC
4330966 CTTGTAAACT
Statistics
Matches: 179, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
146 1 0.01
147 86 0.48
148 92 0.51
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.36
Consensus pattern (146 bp):
AAATTATATATATTTAATATATTTAAAAATATTCGAATATAAAGATAATACTATTTTGTACAAAC
AATCATAAGAAACACACTTCTTGCAAGTCAAGAGACATATCCTTCGATACCCTCACAAAATAATA
TTGCCTAAATTTTAGT
Found at i:4330984 original size:147 final size:151
Alignment explanation
Indices: 4330721--4331073 Score: 396
Period size: 148 Copynumber: 2.4 Consensus size: 151
4330711 GGTACCCTTG
*
4330721 CAAAATAATATTGCCTAAACTTTTAGTAAATTATATATATTTAATATA-TTAAAAAATATTCGAA
1 CAAAATAATATTGCCTAAACTTTTAGTAAATTATATATATTTAATATATTTTAAAAATATTCGAA
* * ** * * ** *
4330785 TATAAAGATTAATACTATTTTGTACGAATAGTCATAGGAAACATACTTCTTGCAAGTCAAGAGAT
66 TAGAAAGATAAATACTATTTTGTAAAAACAATCATAGGAAACATACCACTTGCAAGTCAAGAGAC
* *
4330850 GTTTCCTTCGA-TCCCCTCA-
131 GTTTCCATAGATTCCCCTCAT
** * *
4330869 CAAAATAATATTGCCTCGA-TTTTAGTAAATTATATATATTTAATATATTTTAAAATTATTTGAA
1 CAAAATAATATTGCCTAAACTTTTAGTAAATTATATATATTTAATATATTTTAAAAATATTCGAA
* * * * * *
4330933 TAGAAAGA-AAGATACTATTTTGTAAAAACAATCCTTGTAAAC-TACCACTTGCGAGTGAAGAGC
66 TAGAAAGATAA-ATACTATTTTGTAAAAACAATCATAGGAAACATACCACTTGCAAGTCAAGAGA
*
4330996 CGTTTTCATAGATTCCCCTCAT
130 CGTTTCCATAGATTCCCCTCAT
** * * *
4331018 C-AAATAATATTATCTTAATTTTTAGCAAATTATATATATTTAATATATTTTAAAAA
1 CAAAATAATATTGCCTAAACTTTTAGTAAATTATATATATTTAATATATTTTAAAAA
4331074 AATCAATATG
Statistics
Matches: 171, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
147 53 0.31
148 82 0.48
149 36 0.21
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (151 bp):
CAAAATAATATTGCCTAAACTTTTAGTAAATTATATATATTTAATATATTTTAAAAATATTCGAA
TAGAAAGATAAATACTATTTTGTAAAAACAATCATAGGAAACATACCACTTGCAAGTCAAGAGAC
GTTTCCATAGATTCCCCTCAT
Found at i:4333806 original size:29 final size:28
Alignment explanation
Indices: 4333768--4333886 Score: 116
Period size: 29 Copynumber: 4.2 Consensus size: 28
4333758 TTTTCAGTCC
*
4333768 TTTTTA-ATTTCGGTACTTTAATTTCCT
1 TTTTTACATTTCAGTACTTTAATTTCCT
* *
4333795 TATTTTACATTTTAGTACTTTAATTTTCT
1 T-TTTTACATTTCAGTACTTTAATTTCCT
* **
4333824 TTATTTATATTTTGGTATCTTT-ATTTCCT
1 TT-TTTACATTTCAGTA-CTTTAATTTCCT
**
4333853 TTATTTACATTTCAGTACTTCGATTTCCT
1 TT-TTTACATTTCAGTACTTTAATTTCCT
4333882 TTTTT
1 TTTTT
4333887 TTTTGACATT
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
27 1 0.01
28 12 0.16
29 60 0.78
30 4 0.05
ACGTcount: A:0.19, C:0.13, G:0.06, T:0.61
Consensus pattern (28 bp):
TTTTTACATTTCAGTACTTTAATTTCCT
Found at i:4333953 original size:29 final size:28
Alignment explanation
Indices: 4333770--4333953 Score: 97
Period size: 29 Copynumber: 6.3 Consensus size: 28
4333760 TTCAGTCCTT
* * **
4333770 TTTA-ATTTCGGTACTTTAATTTCCTTA
1 TTTACATTTCAGTACTTTTATTTTTTTA
* *
4333797 TTTTACATTTTAGTACTTTAATTTTCTTTA
1 -TTTACATTTCAGTACTTTTATTTT-TTTA
* ** *
4333827 TTTATATTTTGGTA-TCTTTATTTCCTTTA
1 TTTACATTTCAGTACT-TTTATTT-TTTTA
*
4333856 TTTACATTTCAGTACTTCGATT-TCCTTTTTTT
1 TTTACATTTCAGTACTT---TTAT--TTTTTTA
* * **
4333888 TTTGACATTT-AGAACCTTTATTTAATTA
1 TTT-ACATTTCAGTACTTTTATTTTTTTA
*
4333916 TTTATATTTCAGTACTTTTATTTTTGTTA
1 TTTACATTTCAGTACTTTTATTTTT-TTA
4333945 TTTACATTT
1 TTTACATTT
4333954 TATCTCTTTT
Statistics
Matches: 118, Mismatches: 24, Indels: 27
0.70 0.14 0.16
Matches are distributed among these distances:
27 5 0.04
28 23 0.19
29 63 0.53
30 5 0.04
31 1 0.01
32 13 0.11
33 8 0.07
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.60
Consensus pattern (28 bp):
TTTACATTTCAGTACTTTTATTTTTTTA
Found at i:4341125 original size:2 final size:2
Alignment explanation
Indices: 4341118--4341195 Score: 104
Period size: 2 Copynumber: 38.5 Consensus size: 2
4341108 TTTTAAATTA
4341118 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
4341160 AT AT GAT -T TT AT AT AT AT TT AT AC AT AT AT CAT AT A
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT A
4341196 AACACACACC
Statistics
Matches: 68, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
1 1 0.01
2 63 0.93
3 4 0.06
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4342107 original size:40 final size:40
Alignment explanation
Indices: 4342028--4342107 Score: 90
Period size: 40 Copynumber: 2.0 Consensus size: 40
4342018 ATAAGAGTCA
* * * *
4342028 AATATTGCACCGTGATGTTGAGGTTGAGCCTTGCTCACCT
1 AATAATGCACCGTGATGCTGAGGTCGAGCCTTGCCCACCT
* *
4342068 AATAATGCACCGT-AGTGCTGAGGTCGGGCCTTTCCCACCT
1 AATAATGCACCGTGA-TGCTGAGGTCGAGCCTTGCCCACCT
4342108 TATACACCGT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.03
40 32 0.97
ACGTcount: A:0.20, C:0.26, G:0.25, T:0.29
Consensus pattern (40 bp):
AATAATGCACCGTGATGCTGAGGTCGAGCCTTGCCCACCT
Found at i:4345153 original size:46 final size:46
Alignment explanation
Indices: 4345086--4345178 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
4345076 GGGTGATAAT
* *
4345086 ATGTTAAGGATTTGTTTGATACTTCCTGAGAATTGGAACATGAAAA
1 ATGTTAAGGATTTGATTGATACTTCCTGAGAATCGGAACATGAAAA
4345132 ATGTTAAGGATTTGATTGATACTTCCTGAGAATCGGAACATGAAAA
1 ATGTTAAGGATTTGATTGATACTTCCTGAGAATCGGAACATGAAAA
4345178 A
1 A
4345179 CACATTATGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (46 bp):
ATGTTAAGGATTTGATTGATACTTCCTGAGAATCGGAACATGAAAA
Found at i:4348595 original size:40 final size:40
Alignment explanation
Indices: 4348508--4348610 Score: 125
Period size: 40 Copynumber: 2.6 Consensus size: 40
4348498 AAATATTACC
* * *
4348508 CCGTAGTACGGAGGTCGAGCCTTACTCACCTAATTATGCA
1 CCGTAGTGCTGAGGTCGAGCCTTACTCACCTAATAATGCA
* *
4348548 TCGTAGTGCTGAGGTCGAGCCTTGCTCACCTAATAATGCA
1 CCGTAGTGCTGAGGTCGAGCCTTACTCACCTAATAATGCA
* * * *
4348588 CCTTAGTGTTGAAGTGGAGCCTT
1 CCGTAGTGCTGAGGTCGAGCCTT
4348611 TCCCACTATA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.28
Consensus pattern (40 bp):
CCGTAGTGCTGAGGTCGAGCCTTACTCACCTAATAATGCA
Found at i:4351512 original size:3 final size:3
Alignment explanation
Indices: 4351499--4351576 Score: 52
Period size: 3 Copynumber: 24.3 Consensus size: 3
4351489 GTCAACCTAT
*
4351499 ATA ATTA ATA ATA AT- ATA ACA TATA A-A CATAA ATA ATA ATA ATA ATA
1 ATA A-TA ATA ATA ATA ATA ATA -ATA ATA -AT-A ATA ATA ATA ATA ATA
* *
4351546 ATA TATA ATT ATA ACTTA ATA GTA ATA ATA A
1 ATA -ATA ATA ATA A--TA ATA ATA ATA ATA A
4351577 CCAATAATTA
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
2 3 0.05
3 43 0.72
4 10 0.17
5 4 0.07
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:4351535 original size:28 final size:29
Alignment explanation
Indices: 4351499--4351577 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 29
4351489 GTCAACCTAT
*
4351499 ATAATTAATAATAAT-ATAACATATAAAC
1 ATAAATAATAATAATAATAACATATAAAC
* **
4351527 ATAAATAATAATAATAATAATATATAATT
1 ATAAATAATAATAATAATAACATATAAAC
* *
4351556 ATAACTTAATAGTAATAATAAC
1 ATAA-ATAATAATAATAATAAC
4351578 CAATAATTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
28 14 0.33
29 14 0.33
30 14 0.33
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.34
Consensus pattern (29 bp):
ATAAATAATAATAATAATAACATATAAAC
Found at i:4351636 original size:3 final size:3
Alignment explanation
Indices: 4351628--4351692 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
4351618 ACATAGCTGC
4351628 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4351676 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
4351693 TATATATACC
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4351730 original size:2 final size:2
Alignment explanation
Indices: 4351725--4351805 Score: 153
Period size: 2 Copynumber: 40.5 Consensus size: 2
4351715 ACATGCACAC
*
4351725 TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4351767 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4351806 TAAATAACCT
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4357117 original size:6 final size:6
Alignment explanation
Indices: 4356984--4357107 Score: 230
Period size: 6 Copynumber: 20.7 Consensus size: 6
4356974 TACTTATCCA
4356984 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
1 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
*
4357032 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGT ATACGC
1 ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC ATACGC
*
4357080 ATACGC ATACGC ATACGC ATACAC ATAC
1 ATACGC ATACGC ATACGC ATACGC ATAC
4357108 ATATGCATAT
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 115 1.00
ACGTcount: A:0.35, C:0.32, G:0.15, T:0.18
Consensus pattern (6 bp):
ATACGC
Found at i:4357828 original size:18 final size:20
Alignment explanation
Indices: 4357778--4357833 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 20
4357768 TGAATATTTT
*
4357778 TCCCGAAGGACCACTGATTG
1 TCCCGAAGGACCACTGATGG
* * *
4357798 TTCTGAAGAACCACT-A-GG
1 TCCCGAAGGACCACTGATGG
4357816 TCCCGAAGGACCACTGAT
1 TCCCGAAGGACCACTGAT
4357834 AATCCCTTGA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
18 13 0.48
19 2 0.07
20 12 0.44
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (20 bp):
TCCCGAAGGACCACTGATGG
Found at i:4358469 original size:63 final size:63
Alignment explanation
Indices: 4358402--4358525 Score: 151
Period size: 63 Copynumber: 2.0 Consensus size: 63
4358392 ATCCCTTAAC
* * *
4358402 GGGTGCATTGATGCACTAAC-TATGCATCGGTACAAAAATCCCATTCGATGTTTGTATTTTAGG
1 GGGTGCATCGATGCAC-AACTTATGCATCGATACAAAAATCACATTCGATGTTTGTATTTTAGG
* * ** * *
4358465 GGGTGCATCGATGCACCACTTGTGCATCGATACACTAATGACATTCGATGTTTTTATTTTA
1 GGGTGCATCGATGCACAACTTATGCATCGATACAAAAATCACATTCGATGTTTGTATTTTA
4358526 AAGGACTGTA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 2 0.04
63 49 0.96
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.35
Consensus pattern (63 bp):
GGGTGCATCGATGCACAACTTATGCATCGATACAAAAATCACATTCGATGTTTGTATTTTAGG
Found at i:4362397 original size:18 final size:18
Alignment explanation
Indices: 4362369--4362441 Score: 83
Period size: 18 Copynumber: 3.9 Consensus size: 18
4362359 ACTGAATATT
*
4362369 TGTCTCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
4362387 CGTCCCGAAGGACCACTGA
1 TGTCCCGAAGGACCACT-A
* **
4362406 TTGTTCCGAAAAACCACTA
1 -TGTCCCGAAGGACCACTA
4362425 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
4362442 GATAATCCCT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
18 29 0.66
19 2 0.05
20 13 0.30
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:4363948 original size:6 final size:6
Alignment explanation
Indices: 4363937--4364055 Score: 76
Period size: 6 Copynumber: 19.8 Consensus size: 6
4363927 TTTAAGATGT
* * * *
4363937 TACACA TACACA TACAGA TACAGA TACAGA TACACA TGCACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
* * * * * * * * * * *
4363985 TACACG CACACG TACACG TACACG CACACG TACACG TACACG TATACG
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
* * *
4364033 CACACG CACACA TACACA TACAC
1 TACACA TACACA TACACA TACAC
4364056 GCACACGTAC
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 99 1.00
ACGTcount: A:0.41, C:0.34, G:0.11, T:0.14
Consensus pattern (6 bp):
TACACA
Found at i:4364061 original size:6 final size:6
Alignment explanation
Indices: 4363986--4364389 Score: 434
Period size: 6 Copynumber: 67.7 Consensus size: 6
4363976 ACATACACAT
* * * * * *
4363986 ACACGC ACACGT ACACGT ACACGC ACACGT ACACGT ACACGT ATACGC
1 ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC
** ** * * *
4364034 ACACGC ACACAT ACACAT ACACGC ACACGT ACACGT ACACGC ACACGT
1 ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC
* * * * * * *
4364082 ACACGC ACATGT ACACGT ACACGT ACACGT ACACGC ACACGT ACACGT
1 ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC
* * * *
4364130 ACACGC ACACGC ACACGT ACACGT ACACGC ACACGC ACACGT ACACGT
1 ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC
** * *
4364178 ACACGC ACACGC ACACAT ACACGT ACAC-C -CACGC CCACGC ACACGC
1 ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC
*
4364224 ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACATGC
1 ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC
*
4364272 ACACGC ACATGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC
1 ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC
* * * * ** *
4364320 ACACGC ACACGC ACACGT ACACGT ACACGT ACACGT ACACAT ACACGT
1 ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC ACACGC
* * *
4364368 ACACGT ACACGT ACACGT ACAC
1 ACACGC ACACGC ACACGC ACAC
4364390 ATATACGTAC
Statistics
Matches: 360, Mismatches: 36, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
4 3 0.01
5 1 0.00
6 356 0.99
ACGTcount: A:0.34, C:0.42, G:0.15, T:0.09
Consensus pattern (6 bp):
ACACGC
Found at i:4364462 original size:3 final size:3
Alignment explanation
Indices: 4364454--4364497 Score: 70
Period size: 3 Copynumber: 14.7 Consensus size: 3
4364444 TATTAAGATA
* *
4364454 AAT AAT AAT AAT AAT AGT AAT AAT AGT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4364498 AGAATGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4370631 original size:13 final size:13
Alignment explanation
Indices: 4370613--4370645 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
4370603 TAGGTTGTAC
4370613 CTAGGTTTGAGTT
1 CTAGGTTTGAGTT
4370626 CTAGGTTTGAGTT
1 CTAGGTTTGAGTT
4370639 CTAGGTT
1 CTAGGTT
4370646 CATTATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.09, G:0.30, T:0.45
Consensus pattern (13 bp):
CTAGGTTTGAGTT
Found at i:4372877 original size:2 final size:2
Alignment explanation
Indices: 4372870--4372899 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4372860 TTTGGCACCA
4372870 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4372900 TGGGGAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4374397 original size:3 final size:3
Alignment explanation
Indices: 4374378--4374437 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
4374368 ATAACTAAAT
* *
4374378 ATA ACA ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4374426 ATA ATA ATA ATA
1 ATA ATA ATA ATA
4374438 TATACCTATA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:4388739 original size:20 final size:20
Alignment explanation
Indices: 4388714--4388776 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
4388704 AACTTTCAAG
4388714 AACACTTAAATTCACAATAA
1 AACACTTAAATTCACAATAA
* *
4388734 AACACTCT-AACTCCCAA-AA
1 AACACT-TAAATTCACAATAA
* *
4388753 GACTCTTAAATTCACAATAA
1 AACACTTAAATTCACAATAA
4388773 AACA
1 AACA
4388777 ATCTAACTCC
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 1 0.03
19 13 0.41
20 17 0.53
21 1 0.03
ACGTcount: A:0.51, C:0.25, G:0.02, T:0.22
Consensus pattern (20 bp):
AACACTTAAATTCACAATAA
Found at i:4388772 original size:39 final size:39
Alignment explanation
Indices: 4388718--4388804 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
4388708 TTCAAGAACA
*
4388718 CTTAAATTCACAATAAAACACTCTAACTCCCAAAAGACT
1 CTTAAATTCACAATAAAACAATCTAACTCCCAAAAGACT
*
4388757 CTTAAATTCACAATAAAACAATCTAACTCCCAAGAGACT
1 CTTAAATTCACAATAAAACAATCTAACTCCCAAAAGACT
4388796 CTTAAATTC
1 CTTAAATTC
4388805 GCCCCATAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.25
Consensus pattern (39 bp):
CTTAAATTCACAATAAAACAATCTAACTCCCAAAAGACT
Found at i:4393172 original size:39 final size:39
Alignment explanation
Indices: 4393090--4393175 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
4393080 CCAAGAAATC
* *
4393090 TTAAATTCACAATAAAACACTATAACTCCCAAAATACCC
1 TTAAATTCACAATAAAACACTATAACTCCCAAAAGACCA
* * **
4393129 TTAAATTCACAATAAAACACTCTAACTCCCAAGAGATTA
1 TTAAATTCACAATAAAACACTATAACTCCCAAAAGACCA
4393168 TTAAATTC
1 TTAAATTC
4393176 TCCCCTTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.47, C:0.24, G:0.02, T:0.27
Consensus pattern (39 bp):
TTAAATTCACAATAAAACACTATAACTCCCAAAAGACCA
Found at i:4396577 original size:35 final size:35
Alignment explanation
Indices: 4396531--4396600 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
4396521 TTTCTTATTC
4396531 TATTTACTTTTACGATCAAAAGCATGCAAATTCGA
1 TATTTACTTTTACGATCAAAAGCATGCAAATTCGA
4396566 TATTTACTTTTACGATCAAAAGCATGCAAATTCGA
1 TATTTACTTTTACGATCAAAAGCATGCAAATTCGA
4396601 AATCATGCGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.34
Consensus pattern (35 bp):
TATTTACTTTTACGATCAAAAGCATGCAAATTCGA
Found at i:4406607 original size:19 final size:19
Alignment explanation
Indices: 4406583--4406647 Score: 112
Period size: 19 Copynumber: 3.4 Consensus size: 19
4406573 CAATATCTTT
4406583 TGCATTTGCATTAACATCA
1 TGCATTTGCATTAACATCA
4406602 TGCATTTGCATTAACATCA
1 TGCATTTGCATTAACATCA
**
4406621 TGCATTTGCATTAGTATCA
1 TGCATTTGCATTAACATCA
4406640 TGCATTTG
1 TGCATTTG
4406648 TATTGTGCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 44 1.00
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (19 bp):
TGCATTTGCATTAACATCA
Found at i:4412553 original size:24 final size:24
Alignment explanation
Indices: 4412526--4412579 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
4412516 ACAATTAGGA
4412526 GTCACTTCTTACCATAGTAAATCC
1 GTCACTTCTTACCATAGTAAATCC
*
4412550 GTCACTTCTTACCATAGTAACTCC
1 GTCACTTCTTACCATAGTAAATCC
4412574 GTCACT
1 GTCACT
4412580 GGCTCATCGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.33
Consensus pattern (24 bp):
GTCACTTCTTACCATAGTAAATCC
Found at i:4416926 original size:39 final size:39
Alignment explanation
Indices: 4416882--4416965 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 39
4416872 CGAAGAAATC
* *
4416882 TTAAATTCATAATAAAACATTCTAACGCCCAAAAGACTA
1 TTAAATTCACAATAAAACACTCTAACGCCCAAAAGACTA
* * * *
4416921 TTAAATTCACAATAAAACACTCTAACTCCCTAGAGACTC
1 TTAAATTCACAATAAAACACTCTAACGCCCAAAAGACTA
4416960 TTAAAT
1 TTAAAT
4416966 CCCCCTTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.27
Consensus pattern (39 bp):
TTAAATTCACAATAAAACACTCTAACGCCCAAAAGACTA
Found at i:4423762 original size:43 final size:43
Alignment explanation
Indices: 4423715--4423920 Score: 129
Period size: 43 Copynumber: 4.8 Consensus size: 43
4423705 ATAGCAACGT
* * *
4423715 TTTTTCAACAAATGCCACAATAGGTGTTGATATTTAGTGGGGA
1 TTTTTCAACAAACGCCACAATAAGTGTTGAGATTTAGTGGGGA
* * * * * *
4423758 TTTTTTCCCACAAATGCCGCAAT-AGATGTTGAGATTTAGCGGTGT
1 -TTTTT-CAACAAACGCCACAATAAG-TGTTGAGATTTAGTGGGGA
* * * *
4423803 TTTTATC-ACAAACGACGCAATAAGTGTTGAGATTTTGT-GGCA
1 TTTT-TCAACAAACGCCACAATAAGTGTTGAGATTTAGTGGGGA
* * ** *
4423845 TTTTT-AAAAAACGCCACAA-AAGTGTTGAAATTTAGCAGAG-
1 TTTTTCAACAAACGCCACAATAAGTGTTGAGATTTAGTGGGGA
* *
4423885 TTTTTC-TCGTAAACGCCACAATAGGTGTTGAGATTT
1 TTTTTCAAC--AAACGCCACAATAAGTGTTGAGATTT
4423921 CGAGTTGCTT
Statistics
Matches: 126, Mismatches: 26, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
40 19 0.15
41 12 0.10
42 16 0.13
43 36 0.29
44 13 0.10
45 30 0.24
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.34
Consensus pattern (43 bp):
TTTTTCAACAAACGCCACAATAAGTGTTGAGATTTAGTGGGGA
Found at i:4424383 original size:21 final size:20
Alignment explanation
Indices: 4424359--4424413 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
4424349 TGATATATTA
4424359 CTTCTCTCTGTGCTGTCGCTG
1 CTTCTCTCTGTGCTG-CGCTG
* * *
4424380 CTTCTCTTTGTACTGCGCTT
1 CTTCTCTCTGTGCTGCGCTG
*
4424400 CTTCTCTCTCTGCT
1 CTTCTCTCTGTGCT
4424414 TTCGATGTTG
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.02, C:0.35, G:0.16, T:0.47
Consensus pattern (20 bp):
CTTCTCTCTGTGCTGCGCTG
Found at i:4424403 original size:20 final size:21
Alignment explanation
Indices: 4424359--4424408 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4424349 TGATATATTA
*
4424359 CTTCTCTCTGTGCTGTCGCTG
1 CTTCTCTCTGTACTGTCGCTG
* *
4424380 CTTCTCTTTGTACTG-CGCTT
1 CTTCTCTCTGTACTGTCGCTG
4424400 CTTCTCTCT
1 CTTCTCTCT
4424409 CTGCTTTCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.02, C:0.34, G:0.16, T:0.48
Consensus pattern (21 bp):
CTTCTCTCTGTACTGTCGCTG
Found at i:4424433 original size:21 final size:21
Alignment explanation
Indices: 4424409--4424448 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4424399 TCTTCTCTCT
4424409 CTGCTT-TCGATGTTGCTCTGG
1 CTGCTTCT-GATGTTGCTCTGG
*
4424430 CTGCTTCTGCTGTTGCTCT
1 CTGCTTCTGATGTTGCTCT
4424449 CTCTACTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.03, C:0.28, G:0.25, T:0.45
Consensus pattern (21 bp):
CTGCTTCTGATGTTGCTCTGG
Found at i:4430460 original size:22 final size:22
Alignment explanation
Indices: 4430434--4430482 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 22
4430424 CAAGTTTTCA
4430434 AAAGCTATTA-TTTTCCTATTCG
1 AAAGCTATTACTTTT-CTATTCG
4430456 AAAGCTATTACTTTTCTATTCG
1 AAAGCTATTACTTTTCTATTCG
4430478 AAAGC
1 AAAGC
4430483 AGAAAAACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (22 bp):
AAAGCTATTACTTTTCTATTCG
Found at i:4432657 original size:24 final size:24
Alignment explanation
Indices: 4432625--4432688 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
4432615 AGAGTCCATG
* *
4432625 TCAAGTATCATATAAAAATTCAGA
1 TCAAATATCATATAAAAATCCAGA
* * *
4432649 TCAAATATCATATCAGAATCCAGG
1 TCAAATATCATATAAAAATCCAGA
* *
4432673 TCAAAAATCACATAAA
1 TCAAATATCATATAAA
4432689 CTATTTATAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (24 bp):
TCAAATATCATATAAAAATCCAGA
Found at i:4433421 original size:29 final size:28
Alignment explanation
Indices: 4433379--4433452 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 28
4433369 GTTGAACATT
4433379 TTACACAAATAGCACCCTTTTTA-AAATAA
1 TTAC-CAAATAGCACCC-TTTTAGAAATAA
*
4433408 TTACCAATATAGCACCCTTTTAGAATTAA
1 TTACCAA-ATAGCACCCTTTTAGAAATAA
*
4433437 TTCCCAAAATAGCACC
1 TTACC-AAATAGCACC
4433453 AAAACCGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
28 8 0.20
29 30 0.75
30 2 0.05
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (28 bp):
TTACCAAATAGCACCCTTTTAGAAATAA
Found at i:4433512 original size:12 final size:12
Alignment explanation
Indices: 4433495--4433528 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4433485 CAACGGGTCG
4433495 GGTCGGGTCAAC
1 GGTCGGGTCAAC
4433507 GGTCGGGTCAAC
1 GGTCGGGTCAAC
* *
4433519 AGTTGGGTCA
1 GGTCGGGTCA
4433529 GGTCAACGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.18, C:0.21, G:0.41, T:0.21
Consensus pattern (12 bp):
GGTCGGGTCAAC
Found at i:4433512 original size:17 final size:18
Alignment explanation
Indices: 4433482--4433515 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
4433472 GAATAGCACC
4433482 GGTCAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCG
4433500 GGTCAAC-GGTCGGGTC
1 GGTCAACGGGTCGGGTC
4433516 AACAGTTGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.12, C:0.24, G:0.47, T:0.18
Consensus pattern (18 bp):
GGTCAACGGGTCGGGTCG
Found at i:4439837 original size:24 final size:24
Alignment explanation
Indices: 4439805--4439868 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
4439795 AGAGTCCATG
* *
4439805 TCAAGTATCATATAAAAATTCAGA
1 TCAAATATCATATAAAAATCCAGA
* * *
4439829 TCAAATATCATATCAGAATCCAGG
1 TCAAATATCATATAAAAATCCAGA
* *
4439853 TCAAAAATCAGATAAA
1 TCAAATATCATATAAA
4439869 CTATTTATAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.50, C:0.16, G:0.09, T:0.25
Consensus pattern (24 bp):
TCAAATATCATATAAAAATCCAGA
Found at i:4440600 original size:29 final size:28
Alignment explanation
Indices: 4440558--4440631 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 28
4440548 GTTGAACATT
4440558 TTACACAAATAGCACCCTTTTTA-AAATAA
1 TTAC-CAAATAGCACCC-TTTTAGAAATAA
*
4440587 TTACCAATATAGCACCCTTTTAGAATTAA
1 TTACCAA-ATAGCACCCTTTTAGAAATAA
*
4440616 TTCCCAAAATAGCACC
1 TTACC-AAATAGCACC
4440632 AAAACCGAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
28 8 0.20
29 30 0.75
30 2 0.05
ACGTcount: A:0.41, C:0.24, G:0.05, T:0.30
Consensus pattern (28 bp):
TTACCAAATAGCACCCTTTTAGAAATAA
Found at i:4440679 original size:13 final size:13
Alignment explanation
Indices: 4440661--4440703 Score: 86
Period size: 13 Copynumber: 3.3 Consensus size: 13
4440651 GAATAGAACC
4440661 GGTCAACGGGTCG
1 GGTCAACGGGTCG
4440674 GGTCAACGGGTCG
1 GGTCAACGGGTCG
4440687 GGTCAACGGGTCG
1 GGTCAACGGGTCG
4440700 GGTC
1 GGTC
4440704 GGGTCAACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.14, C:0.23, G:0.47, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:4440719 original size:17 final size:18
Alignment explanation
Indices: 4440680--4440756 Score: 113
Period size: 17 Copynumber: 4.4 Consensus size: 18
4440670 GTCGGGTCAA
*
4440680 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGAT
4440698 CGGGTCGGGTCAAC-GAT
1 CGGGTCGGGTCAACGGAT
*
4440715 CGGGTCGGGTCAACAG-T
1 CGGGTCGGGTCAACGGAT
*
4440732 CGGGTCGGGTCAACGGGT
1 CGGGTCGGGTCAACGGAT
4440750 CGGGTCG
1 CGGGTCG
4440757 TGATCGGTCA
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
17 32 0.58
18 23 0.42
ACGTcount: A:0.13, C:0.23, G:0.47, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCAACGGAT
Found at i:4442948 original size:746 final size:746
Alignment explanation
Indices: 4441517--4443493 Score: 3819
Period size: 746 Copynumber: 2.6 Consensus size: 746
4441507 GGTTGTTACA
4441517 TTTGTTCTCCAAACGCCGGTAAAAATGCCTTTTGTTGTAGTGTAGTTTTACTCAATAATCAGCAC
1 TTTGTTCTCCAAACGCCGGTAAAAATGCCTTTTGTTGTAGTGTAGTTTTACTCAATAATCAGCAC
4441582 TCAGCAACAGCCAACAACACTCAAAACTTTGTTTCATTTGCATTTTATTGCATTAACTTACTTAA
66 TCAGCAACAGCCAACAACACTCAAAACTTTGTTTCATTTGCATTTTATTGCATTAACTTACTTAA
4441647 CCTTTTTCCATTTTTTTTTAAATTCAAACCAAATTGTGTTGGTCCTGTGTGCTTTTGTTTTGGTT
131 CCTTTTTCCATTTTTTTTTAAATTCAAACCAAATTGTGTTGGTCCTGTGTGCTTTTGTTTTGGTT
*
4441712 GCTAATAAATGTACTATTCAAACATTGGTTCCCTCCTTTCAAAAGTAAAACATAAGTCATAAAAG
196 GCTAATAAATGTGCTATTCAAACATTGGTTCCCTCCTTTCAAAAGTAAAACATAAGTCATAAAAG
4441777 TAGCAAACCAAAGAGAGCCTTCATTATAGAAGTATGATACATATCAGTTTAAAAGATTTATTAGC
261 TAGCAAACCAAAGAGAGCCTTCATTATAGAAGTATGATACATATCAGTTTAAAAGATTTATTAGC
* *
4441842 TAAAGATGAAACCTCATCCATATATGCACTAAATAGAAGAAACAAAGCAATTGCTCAAACTATAG
326 AAAAGATGAAACCTCATCCATATATGCACTAAATAGAAGAAACAAAGCAATTGCTCAAACTACAG
*
4441907 AATTTAACGCTCCTATATATTAGAGCTTAAAGAAAAAGAAAGAGCAATGGGTAAAAAGAAAAACT
391 AATTTAAAGCTCCTATATATTAGAGCTTAAAGAAAAAGAAAGAGCAATGGGTAAAAAGAAAAACT
*
4441972 TTTGTAATCAAGTCCATGTTTTGATAATCTTTCTATCATTCCTCAAGCATAAACATAATTGACAT
456 TTTGTAATCAAGTCCATGTTTTGATAATCTTTCTATCATTCCTCAAGCAGAAACATAATTGACAT
4442037 AAAATATAATTATCATTCTGTTATAGTTATCTTGTTAGAATCAATATAACCATTGATGTTTTATT
521 AAAATATAATTATCATTCTGTTATAGTTATCTTGTTAGAATCAATATAACCATTGATGTTTTATT
*
4442102 TGTTGACAAAATACCACTATAAATAACTCTATTGCGGTGTTTTTGCTATAGACGCCGCTAAATTA
586 TGTTGACAAAACACCACTATAAATAACTCTATTGCGGTGTTTTTGCTATAGACGCCGCTAAATTA
4442167 CCACTCTATTGCGGCGTTTGGTTGAATAACACCGCTAAAGTCTCAATTTGTGGTGTTTAGATTGT
651 CCACTCTATTGCGGCGTTTGGTTGAATAACACCGCTAAAGTCTCAATTTGTGGTGTTTAGATTGT
*
4442232 AAACGCCGCTATATCCCCAAAATTTGTGGCG
716 AAACGCCGCTATATCCCCAAAATCTGTGGCG
4442263 TTTGTTCTCCAAACGCCGGTAAAAATGCCTTTTGTTGTAGTGTAGTTTTACTCAATAATCAGCAC
1 TTTGTTCTCCAAACGCCGGTAAAAATGCCTTTTGTTGTAGTGTAGTTTTACTCAATAATCAGCAC
4442328 TCAGCAACAGCCAACAACACTCAAAACTTTGTTTCATTTGCATTTTATTGCATTAACTTACTTAA
66 TCAGCAACAGCCAACAACACTCAAAACTTTGTTTCATTTGCATTTTATTGCATTAACTTACTTAA
4442393 CCTTTTTCCATTTTTTTTTAAATTCAAACCAAATTGTGTTGGTCCTGTGTGCTTTTGTTTTGGTT
131 CCTTTTTCCATTTTTTTTTAAATTCAAACCAAATTGTGTTGGTCCTGTGTGCTTTTGTTTTGGTT
4442458 GCTAATAAATGTGCTATTCAAACATTGGTTCCCTCCTTTCAAAAGTAAAACATAAGTCATAAAAG
196 GCTAATAAATGTGCTATTCAAACATTGGTTCCCTCCTTTCAAAAGTAAAACATAAGTCATAAAAG
4442523 TAGCAAACCAAAGAGAGCCTTCATTATAGAAGTATGATACATATCAGTTTAAAAGATTTATTAGC
261 TAGCAAACCAAAGAGAGCCTTCATTATAGAAGTATGATACATATCAGTTTAAAAGATTTATTAGC
4442588 AAAAGATGAAACCTCATCCATATATGCACTAAATAGAAGAAACAAAGCAATTGCTCAAACTACAG
326 AAAAGATGAAACCTCATCCATATATGCACTAAATAGAAGAAACAAAGCAATTGCTCAAACTACAG
4442653 AATTTAAAGCTCCTATATATTAGAGCTTAAAGAAAAAGAAAGAGCAATGGGTAAAAAGAAAAACT
391 AATTTAAAGCTCCTATATATTAGAGCTTAAAGAAAAAGAAAGAGCAATGGGTAAAAAGAAAAACT
4442718 TTTGTAATCAAGTCCATGTTTTGATAATCTTTCTATCATTCCTCAAGCAGAAACATAATTGACAT
456 TTTGTAATCAAGTCCATGTTTTGATAATCTTTCTATCATTCCTCAAGCAGAAACATAATTGACAT
4442783 AAAATATAATTATCATTCTGTTATAGTTATCTTGTTAGAATCAATATAACCATTGATGTTTTATT
521 AAAATATAATTATCATTCTGTTATAGTTATCTTGTTAGAATCAATATAACCATTGATGTTTTATT
4442848 TGTTGACAAAACACCACTATAAATAACTCTATTGCGGTGTTTTTGCTATAGACGCCGCTAAATTA
586 TGTTGACAAAACACCACTATAAATAACTCTATTGCGGTGTTTTTGCTATAGACGCCGCTAAATTA
4442913 CCACTCTATTGCGGCGTTTGGTTGAATAACACCGCTAAAGTCTCAATTTGTGGTGTTTAGATTGT
651 CCACTCTATTGCGGCGTTTGGTTGAATAACACCGCTAAAGTCTCAATTTGTGGTGTTTAGATTGT
*
4442978 AAACGCCGCTATATCCCCGAAATCTGTGGCG
716 AAACGCCGCTATATCCCCAAAATCTGTGGCG
* *
4443009 TTTGTTCTCCAAACGCCGGTAAAAATGTCTTTTGTTGTAGTGTATTTTTACTCAATAATCAGCAC
1 TTTGTTCTCCAAACGCCGGTAAAAATGCCTTTTGTTGTAGTGTAGTTTTACTCAATAATCAGCAC
4443074 TCAGCAACAGCCAACAACACTCAAAACTTTGTTTCATTTGCATTTTATTGCATTAACTTACTTAA
66 TCAGCAACAGCCAACAACACTCAAAACTTTGTTTCATTTGCATTTTATTGCATTAACTTACTTAA
*
4443139 CCTTTTTCCATTTTTTTTTTAAATTCAAACCAAATTGTGTTGGTCCTGTGTGCTTTTGTTTTAGT
131 CCTTTTTCCA-TTTTTTTTTAAATTCAAACCAAATTGTGTTGGTCCTGTGTGCTTTTGTTTTGGT
4443204 TGCTAATAAATGTGCTATTCAAACATTGGTTCCCTCCTTTCAAAAGTAAAACATAAGTCATAAAA
195 TGCTAATAAATGTGCTATTCAAACATTGGTTCCCTCCTTTCAAAAGTAAAACATAAGTCATAAAA
*
4443269 GTAGCAAACCAAAGAGAGCCTTCATTATAGAAGTATGACACATATCAGTTTAAAAGATTTATTAG
260 GTAGCAAACCAAAGAGAGCCTTCATTATAGAAGTATGATACATATCAGTTTAAAAGATTTATTAG
4443334 CAAAAGATGAAACCTCATCCATATATGCACTAAATAGAAGAAACAAAGCAATTGCTCAAACTACA
325 CAAAAGATGAAACCTCATCCATATATGCACTAAATAGAAGAAACAAAGCAATTGCTCAAACTACA
*
4443399 GAATTTAAAGCTCCTATATATTAGAGCTTAAAGAAAAAGAGAGAGCAATGGGTAAAAAGAAAAAC
390 GAATTTAAAGCTCCTATATATTAGAGCTTAAAGAAAAAGAAAGAGCAATGGGTAAAAAGAAAAAC
*
4443464 TTTTGTAATCAAGTCTATGTTTTGATAATC
455 TTTTGTAATCAAGTCCATGTTTTGATAATC
4443494 AAACTTTTGT
Statistics
Matches: 1216, Mismatches: 14, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
746 876 0.72
747 340 0.28
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (746 bp):
TTTGTTCTCCAAACGCCGGTAAAAATGCCTTTTGTTGTAGTGTAGTTTTACTCAATAATCAGCAC
TCAGCAACAGCCAACAACACTCAAAACTTTGTTTCATTTGCATTTTATTGCATTAACTTACTTAA
CCTTTTTCCATTTTTTTTTAAATTCAAACCAAATTGTGTTGGTCCTGTGTGCTTTTGTTTTGGTT
GCTAATAAATGTGCTATTCAAACATTGGTTCCCTCCTTTCAAAAGTAAAACATAAGTCATAAAAG
TAGCAAACCAAAGAGAGCCTTCATTATAGAAGTATGATACATATCAGTTTAAAAGATTTATTAGC
AAAAGATGAAACCTCATCCATATATGCACTAAATAGAAGAAACAAAGCAATTGCTCAAACTACAG
AATTTAAAGCTCCTATATATTAGAGCTTAAAGAAAAAGAAAGAGCAATGGGTAAAAAGAAAAACT
TTTGTAATCAAGTCCATGTTTTGATAATCTTTCTATCATTCCTCAAGCAGAAACATAATTGACAT
AAAATATAATTATCATTCTGTTATAGTTATCTTGTTAGAATCAATATAACCATTGATGTTTTATT
TGTTGACAAAACACCACTATAAATAACTCTATTGCGGTGTTTTTGCTATAGACGCCGCTAAATTA
CCACTCTATTGCGGCGTTTGGTTGAATAACACCGCTAAAGTCTCAATTTGTGGTGTTTAGATTGT
AAACGCCGCTATATCCCCAAAATCTGTGGCG
Found at i:4443494 original size:20 final size:19
Alignment explanation
Indices: 4443464--4443527 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 19
4443454 AAAGAAAAAC
4443464 TTTTGTAATCAAGTCTATG
1 TTTTGTAATCAAGTCTATG
*
4443483 TTTTGATAATCAA----A-C
1 TTTTG-TAATCAAGTCTATG
4443498 TTTTGTAATCAAGTCTATG
1 TTTTGTAATCAAGTCTATG
4443517 TTTTGATAATC
1 TTTTG-TAATC
4443528 TTTCTATCAT
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
14 7 0.19
15 5 0.14
16 1 0.03
18 1 0.03
19 10 0.28
20 12 0.33
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (19 bp):
TTTTGTAATCAAGTCTATG
Found at i:4443503 original size:34 final size:34
Alignment explanation
Indices: 4443460--4443527 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
4443450 GTAAAAAGAA
4443460 AAACTTTTGTAATCAAGTCTATGTTTTGATAATC
1 AAACTTTTGTAATCAAGTCTATGTTTTGATAATC
4443494 AAACTTTTGTAATCAAGTCTATGTTTTGATAATC
1 AAACTTTTGTAATCAAGTCTATGTTTTGATAATC
4443528 TTTCTATCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (34 bp):
AAACTTTTGTAATCAAGTCTATGTTTTGATAATC
Found at i:4448464 original size:53 final size:53
Alignment explanation
Indices: 4448383--4448546 Score: 267
Period size: 53 Copynumber: 3.1 Consensus size: 53
4448373 ACTAAGGTAA
* *
4448383 CGAAATGGTAATTCAAAAACTCATTATGAATACCATGGGTGCACACACAGTGT
1 CGAAATGGTAATTCAAAAACTCATTATGAATACCATGGATGCACACATAGTGT
*
4448436 TGAAATGGTAATTCAAAAACTCATTATGAATACCATGGATGCACACATAGT-T
1 CGAAATGGTAATTCAAAAACTCATTATGAATACCATGGATGCACACATAGTGT
* *
4448488 CCGAAATGATAATTCACAAACTCATTATGAATACCATGGATGCACACATAGTGT
1 -CGAAATGGTAATTCAAAAACTCATTATGAATACCATGGATGCACACATAGTGT
4448542 CGAAA
1 CGAAA
4448547 GTACACATTA
Statistics
Matches: 103, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 101 0.98
54 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (53 bp):
CGAAATGGTAATTCAAAAACTCATTATGAATACCATGGATGCACACATAGTGT
Found at i:4462599 original size:18 final size:18
Alignment explanation
Indices: 4462574--4462620 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
4462564 TTTATCCTTG
* *
4462574 AGGACCACTTTGTCTCGA
1 AGGACCACTATGTCCCGA
*
4462592 ATGACCACTATGTCCCGA
1 AGGACCACTATGTCCCGA
4462610 AGGACCACTAT
1 AGGACCACTAT
4462621 CCATATGTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (18 bp):
AGGACCACTATGTCCCGA
Found at i:4463576 original size:18 final size:17
Alignment explanation
Indices: 4463553--4463601 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
4463543 ATAATCATGC
4463553 ATACATACAAATCATATA
1 ATACATACAAA-CATATA
*
4463571 ATACATATAACACATATA
1 ATACATACAA-ACATATA
4463589 AT-CATATCAAACA
1 ATACATA-CAAACA
4463602 CATGCTCATG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 7 0.26
18 19 0.70
19 1 0.04
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (17 bp):
ATACATACAAACATATA
Found at i:4463859 original size:18 final size:19
Alignment explanation
Indices: 4463838--4463884 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
4463828 GTAAAAAGAT
*
4463838 ATTAAAAT-AATAAAAGCG
1 ATTAAAATAAATAAAAGCA
4463856 ATT-AAATAAATAAAAGCA
1 ATTAAAATAAATAAAAGCA
*
4463874 ATTAAAGTAAA
1 ATTAAAATAAA
4463885 AATAAAAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.16
18 15 0.60
19 6 0.24
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.23
Consensus pattern (19 bp):
ATTAAAATAAATAAAAGCA
Found at i:4463868 original size:21 final size:21
Alignment explanation
Indices: 4463846--4463891 Score: 62
Period size: 18 Copynumber: 2.3 Consensus size: 21
4463836 ATATTAAAAT
*
4463846 AATAAAAGCGATTAAA-T--A
1 AATAAAAGCAATTAAAGTAAA
4463864 AATAAAAGCAATTAAAGTAAA
1 AATAAAAGCAATTAAAGTAAA
4463885 AATAAAA
1 AATAAAA
4463892 AGATGAAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 15 0.62
19 1 0.04
21 8 0.33
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (21 bp):
AATAAAAGCAATTAAAGTAAA
Found at i:4465628 original size:18 final size:17
Alignment explanation
Indices: 4465588--4465632 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
4465578 TTTTTTCTAT
*
4465588 CTTTTTCTTTCGAACAG
1 CTTTTTTTTTCGAACAG
**
4465605 CTTTTTTTTTCGAATTG
1 CTTTTTTTTTCGAACAG
*
4465622 CTGTTTTTTTC
1 CTTTTTTTTTC
4465633 CGATGGAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.11, C:0.18, G:0.11, T:0.60
Consensus pattern (17 bp):
CTTTTTTTTTCGAACAG
Found at i:4475732 original size:14 final size:14
Alignment explanation
Indices: 4475713--4475755 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
4475703 CTCGTTCGAG
4475713 TTAACCTGTTGACT
1 TTAACCTGTTGACT
* *
4475727 TTAACCCGCTGACT
1 TTAACCTGTTGACT
*
4475741 TTAACCTATTGACT
1 TTAACCTGTTGACT
4475755 T
1 T
4475756 CGACCAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.40
Consensus pattern (14 bp):
TTAACCTGTTGACT
Found at i:4476660 original size:27 final size:28
Alignment explanation
Indices: 4476617--4476681 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 28
4476607 ATTATAGAAT
*
4476617 TACCCCAAAAGTATAAAATGACC-AAAA
1 TACCCCTAAAGTATAAAATGACCTAAAA
* * *
4476644 TGCCCCTAAAGTGTAAAATGACCTAAAG
1 TACCCCTAAAGTATAAAATGACCTAAAA
4476672 TACCCCTAAA
1 TACCCCTAAA
4476682 CATCAGAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 20 0.62
28 12 0.38
ACGTcount: A:0.46, C:0.25, G:0.11, T:0.18
Consensus pattern (28 bp):
TACCCCTAAAGTATAAAATGACCTAAAA
Found at i:4478794 original size:79 final size:79
Alignment explanation
Indices: 4478614--4478853 Score: 366
Period size: 79 Copynumber: 3.1 Consensus size: 79
4478604 TATGAATGTA
* * * * * *
4478614 CTTTTATGCTGATAATGCACCCATATACAATTCAACTATGGCATCCTTTCATGCCAAGACTGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
4478679 CC--AT--A-TATT
66 CCATATGCATTATT
*
4478688 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGAATCCTTTCATGCCAATAATGCAC
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
4478753 CCATATGCATTATT
66 CCATATGCATTATT
*
4478767 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATTCTTTCATGCCAATAATGCA-
1 CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
4478831 CCATATGCATTATT
66 CCATATGCATTATT
4478845 CTTTTATGC
1 CTTTTATGC
4478854 ATTTGTTCTA
Statistics
Matches: 152, Mismatches: 9, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
74 60 0.39
76 2 0.01
78 24 0.16
79 66 0.43
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (79 bp):
CTTTTATGCTGACAATGTACCCATATACATTTCAGCTATGGCATCCTTTCATGCCAATAATGCAC
CCATATGCATTATT
Found at i:4491352 original size:17 final size:18
Alignment explanation
Indices: 4491332--4491365 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4491322 TGTTTTCATG
4491332 TTTTC-ATTTTTCTTTTA
1 TTTTCAATTTTTCTTTTA
*
4491349 TTTTCAATTTTTGTTTT
1 TTTTCAATTTTTCTTTT
4491366 TAAATATGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.12, C:0.09, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTCAATTTTTCTTTTA
Found at i:4495742 original size:18 final size:18
Alignment explanation
Indices: 4495721--4495755 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4495711 CATTAAGAAG
*
4495721 TGAACATTCATTTATCCA
1 TGAACATGCATTTATCCA
4495739 TGAACATGCATTTATCC
1 TGAACATGCATTTATCC
4495756 TTTAAAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (18 bp):
TGAACATGCATTTATCCA
Found at i:4500346 original size:59 final size:58
Alignment explanation
Indices: 4500251--4500418 Score: 230
Period size: 59 Copynumber: 2.9 Consensus size: 58
4500241 ATTACCAAAT
** * * *
4500251 GGCACTTCGTGTGAAAAATGTTACGAAATTCATACTAAGTGTATGAATTTCTATATGG
1 GGCACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTATATCG
*
4500309 GGCACTTCGTGTGCTAACATGATAAGAAATTCATACTATGTGTATGAATTTCTATATCG
1 GGCACTTCGTGTGCTAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTCTATATCG
* * *
4500368 GGCACCTT-GTGCGCTAAATGATATGGAATTCATACTAAGTGTATGAATTTC
1 GGCA-CTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTC
4500419 AGTATGAGAA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
58 46 0.47
59 49 0.50
60 3 0.03
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (58 bp):
GGCACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCTATATCG
Found at i:4500873 original size:61 final size:63
Alignment explanation
Indices: 4500796--4500936 Score: 169
Period size: 68 Copynumber: 2.2 Consensus size: 63
4500786 AGAATAAAGA
* * *
4500796 CCTAACTGTGCATATGACATAAAGGTGTC-T-CAGTTAGATGAAAGGCTAAGAGCCTTTGAGG
1 CCTAACTGTGCGTATGACAGAAAGGTGTCTTCCAGTTAGATGAAAGGCTAAGAGCCTTTAAGG
**
4500857 CCTAACTGTGCGTATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTTCCTTTA
1 CCTAACTGTGCGTATGACAGAAAGGTGTC---T-T-CCAGTTAGATGAAAGGCTAAGAGCCTTTA
4500922 AGG
61 AGG
*
4500925 CCTAACTCTGCG
1 CCTAACTGTGCG
4500937 ATTGGTAGAA
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
61 27 0.40
66 1 0.01
68 39 0.58
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (63 bp):
CCTAACTGTGCGTATGACAGAAAGGTGTCTTCCAGTTAGATGAAAGGCTAAGAGCCTTTAAGG
Found at i:4500947 original size:68 final size:68
Alignment explanation
Indices: 4500826--4500997 Score: 222
Period size: 68 Copynumber: 2.5 Consensus size: 68
4500816 AAAGGTGTCT
** *
4500826 CAGTTAGATGAAAGGCTAAGAGCCTTTGAGGCCTAACTGTGCGTATGACAGAAAGGTGTCATTTA
1 CAGTTAGATGAAAGGCTAAGTTCCTTTGAGGCCTAACTCTGCGTATGACAGAAAGGTGTCATTTA
4500891 TGC
66 TGC
* ** * *
4500894 CAGTTAGATGAAAGGCTAAGTTCCTTTAAGGCCTAACTCTGCG-ATTGGTAGAAATGTGTGATTT
1 CAGTTAGATGAAAGGCTAAGTTCCTTTGAGGCCTAACTCTGCGTA-TGACAGAAAGGTGTCATTT
4500958 ATGC
65 ATGC
* *
4500962 TAGTTAGATGAAAGACTAAGTGT-CTTTGAGGCCTAA
1 CAGTTAGATGAAAGGCTAAGT-TCCTTTGAGGCCTAA
4500998 TGATAACTCC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
67 1 0.01
68 89 0.98
69 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (68 bp):
CAGTTAGATGAAAGGCTAAGTTCCTTTGAGGCCTAACTCTGCGTATGACAGAAAGGTGTCATTTA
TGC
Found at i:4503798 original size:21 final size:20
Alignment explanation
Indices: 4503766--4503804 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4503756 CATTGTAGGA
*
4503766 ATTTATGACCTCGACAAAAT
1 ATTTATGACCTCCACAAAAT
*
4503786 ATTTCATGGCCTCCACAAA
1 ATTT-ATGACCTCCACAAA
4503805 GACCTTGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.36, C:0.26, G:0.10, T:0.28
Consensus pattern (20 bp):
ATTTATGACCTCCACAAAAT
Found at i:4512845 original size:81 final size:81
Alignment explanation
Indices: 4512710--4512927 Score: 294
Period size: 81 Copynumber: 2.7 Consensus size: 81
4512700 CAAGTGATCA
* * * * *
4512710 CCTAACTGTGC-ATATGATAGAAAAGTATCAATTATGCTAGTTAGATGAATGGTTAAGTACCGTT
1 CCTAACTGTGCAAT-TGGTAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTT
4512774 GAGTAAAAGAAAAAGGG
65 GAGTAAAAGAAAAAGGG
* * *
4512791 CCTAACTGTGCAATTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTG
1 CCTAACTGTGCAATTGGTAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
* *
4512856 AGTAAAAGAAAAATGT
66 AGTAAAAGAAAAAGGG
* * * *
4512872 CCTAACTGTGCAATTGGTAGAAAGGCGTCAATTATGCCAGTTAGACGAACGTTTAA
1 CCTAACTGTGCAATTGGTAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAA
4512928 CACTATTGTG
Statistics
Matches: 121, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
81 119 0.98
82 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.28
Consensus pattern (81 bp):
CCTAACTGTGCAATTGGTAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTG
AGTAAAAGAAAAAGGG
Found at i:4517034 original size:95 final size:93
Alignment explanation
Indices: 4516862--4517065 Score: 216
Period size: 95 Copynumber: 2.2 Consensus size: 93
4516852 CAAGCAATGT
* * ** *
4516862 GGTATCGATACCATGGTAAGGGTATCGATACTAGTAAACATCGATTCTAATTTGGGTATCAATAC
1 GGTATCGATACCATGGAAAGGGTATCGATACTAGGAAACATCGAAGCTAATTTGGGTATCAATAA
* * *
4516927 CTAGAGGTGGTATCGGTACCATAACATAGG
66 ATAGAGGGGGTATCGATACCAT-A-ATAGG
* * *
4516957 GGTATCGATACCAT-GAAGAGGGTATCGATA-TCAGGATACATCGAAGCTAATTTTGGTATCGAT
1 GGTATCGATACCATGGAA-AGGGTATCGATACT-AGGAAACATCGAAGCTAATTTGGGTATCAAT
*
4517020 AAAT-GAAGGGGGTATCGATACCCTAATAGG
64 AAATAG-AGGGGGTATCGATACCATAATAGG
4517050 GTAGTATCGATACCAT
1 G--GTATCGATACCAT
4517066 AAGCTGGGGT
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
93 6 0.07
94 5 0.05
95 81 0.88
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (93 bp):
GGTATCGATACCATGGAAAGGGTATCGATACTAGGAAACATCGAAGCTAATTTGGGTATCAATAA
ATAGAGGGGGTATCGATACCATAATAGG
Found at i:4517565 original size:59 final size:59
Alignment explanation
Indices: 4517418--4517572 Score: 179
Period size: 59 Copynumber: 2.6 Consensus size: 59
4517408 TTCAGTTGAA
* * * * * *
4517418 AAATGTTAAAGAAATTCATACTAAGTGTAAGAACTTCTGTATAGGGAACTTCGTGTGCT
1 AAATGATAAAAAAATTCATACTAAGTGTATGAATTTCTATATAGGGAACTTCGAGTGCT
* * * * *
4517477 AACATGCT-AATAAATTCATACTAAGTGTATGAATTTCTATATCGAGTACCTT-GAGTGCT
1 AA-ATGATAAAAAAATTCATACTAAGTGTATGAATTTCTATATAG-GGAACTTCGAGTGCT
4517536 AAATGATAAAAAAATTCATACTAAGTGTATGAATTTC
1 AAATGATAAAAAAATTCATACTAAGTGTATGAATTTC
4517573 AGTATGAGAA
Statistics
Matches: 82, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
58 4 0.05
59 69 0.84
60 9 0.11
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (59 bp):
AAATGATAAAAAAATTCATACTAAGTGTATGAATTTCTATATAGGGAACTTCGAGTGCT
Found at i:4517598 original size:59 final size:58
Alignment explanation
Indices: 4517488--4517602 Score: 128
Period size: 59 Copynumber: 2.0 Consensus size: 58
4517478 ACATGCTAAT
* ** *
4517488 AAATTCATACTAAGTGTATGAATTTCTATATCGAGTACCTTGAGTGCTAAATGATAAAA
1 AAATTCATACTAAGTGTATGAATTTCTATATCGAGAAAATTGAGTGATAAAT-ATAAAA
*
4517547 AAATTCATACTAAGTGTATGAATTTC-AGTAT-GAGAAAAATATGGGT-ATAAATATAA
1 AAATTCATACTAAGTGTATGAATTTCTA-TATCGAG-AAAAT-TGAGTGATAAATATAA
4517603 GCACTGTATA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
58 8 0.17
59 36 0.75
60 4 0.08
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.33
Consensus pattern (58 bp):
AAATTCATACTAAGTGTATGAATTTCTATATCGAGAAAATTGAGTGATAAATATAAAA
Found at i:4518031 original size:17 final size:17
Alignment explanation
Indices: 4517982--4518034 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
4517972 AATAAATTTA
*
4517982 ATTTAAATTAAATATAT
1 ATTTAATTTAAATATAT
* * **
4517999 ATATAATATATTTATAT
1 ATTTAATTTAAATATAT
4518016 ATTTAATTTAAATATAT
1 ATTTAATTTAAATATAT
4518033 AT
1 AT
4518035 ACTCGGCCCG
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAATTTAAATATAT
Found at i:4518539 original size:68 final size:67
Alignment explanation
Indices: 4518416--4518688 Score: 354
Period size: 68 Copynumber: 4.0 Consensus size: 67
4518406 AAAAGAATAA
*
4518416 AGGCCTAATTGTGCATATGACAG-AAGGTGCTAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
1 AGGCCTAACTGTGCATATGACAGAAAGGTG-TAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4518480 TTG
65 TTG
*
4518483 AGGCCTAACTGTGCATATGACAGAAAGGTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCGT
1 AGGCCTAACTGTGCATATGACAGAAAGGTGTAA-TTATGCCAGTTAGATGAAAGGCTAAGTGCCT
4518548 TTG
65 TTG
* * ** *
4518551 AGGCCTAACTGTGCA-ATTGGCAGAAAGGTGCAATTTATGCCAGTTAGATGAAAGATTAAGTGTC
1 AGGCCTAACTGTGCATA-TGACAGAAAGGTGTAA-TTATGCCAGTTAGATGAAAGGCTAAGTGCC
4518615 TTTG
64 TTTG
* * * * *
4518619 AGGCCTAACTATGCATATGACAGAAAGAG-GTCAATTATTCCAGTTAGATGAACGGTTAAGTACC
1 AGGCCTAACTGTGCATATGACAGAAAG-GTGT-AATTATGCCAGTTAGATGAAAGGCTAAGTGCC
*
4518683 GTTG
64 TTTG
4518687 AG
1 AG
4518689 TAAAATAAAA
Statistics
Matches: 183, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
67 26 0.14
68 153 0.84
69 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (67 bp):
AGGCCTAACTGTGCATATGACAGAAAGGTGTAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTT
TG
Found at i:4518755 original size:81 final size:81
Alignment explanation
Indices: 4518640--4518919 Score: 465
Period size: 81 Copynumber: 3.5 Consensus size: 81
4518630 TGCATATGAC
* *
4518640 AGAAAGAG-GTCAATTATTCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAATAAAAATGGC
1 AGAAAG-GTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAATGGC
*
4518704 CTAACTGTGCAATTGGC
65 CTAACTGTGCAATTGGA
* *
4518721 AGAAAGGTGTTAATTATGTCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAATGGCC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAATGGCC
* *
4518786 TAAGTTTGCAATTGGA
66 TAACTGTGCAATTGGA
4518802 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAATGGCC
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAATGGCC
4518867 TAACTGTGCAATTGGA
66 TAACTGTGCAATTGGA
*
4518883 AGAAAGGTGTCAATTATGCCAGTTAGACGAAC-GTTAA
1 AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAA
4518920 ACACTGTTGT
Statistics
Matches: 186, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
80 6 0.03
81 180 0.97
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.26
Consensus pattern (81 bp):
AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCGTTGAGTAAAAGAAAAATGGCC
TAACTGTGCAATTGGA
Found at i:4519002 original size:2 final size:2
Alignment explanation
Indices: 4518995--4519027 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4518985 CGAAAGGATA
4518995 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4519028 ATGTTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4522826 original size:20 final size:20
Alignment explanation
Indices: 4522790--4522831 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
4522780 TTAACTATAA
* *
4522790 TATGGATTTATATTTTTTAT
1 TATGGATTTATAATTTTAAT
4522810 TATGGACTTT-TAATTTTAAT
1 TATGGA-TTTATAATTTTAAT
4522830 TA
1 TA
4522832 CCTTGTAAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (20 bp):
TATGGATTTATAATTTTAAT
Found at i:4528062 original size:3 final size:3
Alignment explanation
Indices: 4528054--4528114 Score: 77
Period size: 3 Copynumber: 20.0 Consensus size: 3
4528044 ATTATTTATT
* * **
4528054 TAA TAA TAA TAA TAA TATA TAA TAT TAT TAA TAA TAA TAA TTT TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
4528100 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
4528115 AATGAAATGA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:4528353 original size:45 final size:45
Alignment explanation
Indices: 4528288--4528427 Score: 217
Period size: 45 Copynumber: 3.1 Consensus size: 45
4528278 GAGGTCTTAT
*
4528288 CATCTTGCACTGTAGGTCTTACAGATGACCCGAAGGTTTTGAAAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCGAAGGTTTTGAAAA
* **
4528333 CATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGGTAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCGAAGGTTTTGAAAA
* *
4528378 CATCATGCACTGTAGGTCTTACAGATGACCCGAAAGCTTTGAAAA
1 CATCATGCACTGTAGGTCTTACAGATGACCCGAAGGTTTTGAAAA
*
4528423 TATCA
1 CATCA
4528428 AAAAGCTCCC
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 85 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (45 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCGAAGGTTTTGAAAA
Found at i:4528501 original size:45 final size:45
Alignment explanation
Indices: 4528446--4528549 Score: 172
Period size: 45 Copynumber: 2.3 Consensus size: 45
4528436 CCGAAAGTTT
* *
4528446 TTTGAAAACATCAAGCACTGTAGGGCTTACAGATGACCCGAAGGC
1 TTTGAAAACATCAAGCACTGAAGGCCTTACAGATGACCCGAAGGC
* *
4528491 TTTGAAAACATCATGCACTGAAGGCCTTACAGATGACTCGAAGGC
1 TTTGAAAACATCAAGCACTGAAGGCCTTACAGATGACCCGAAGGC
4528536 TTTGAAAACATCAA
1 TTTGAAAACATCAA
4528550 AAAGCTCCCA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (45 bp):
TTTGAAAACATCAAGCACTGAAGGCCTTACAGATGACCCGAAGGC
Found at i:4528538 original size:121 final size:120
Alignment explanation
Indices: 4528324--4528715 Score: 572
Period size: 121 Copynumber: 3.2 Consensus size: 120
4528314 GACCCGAAGG
* * * **
4528324 TTTTGAAAACATCATGCACTGAAGGTCTTACAGATGACCCGAAGGTTTTGGTAACATCATGCACT
1 TTTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACT
* * * *
4528389 GTAGGTCTTACAGATGACCCGAAAGCTTTGAAAATATCAAAAAGCTCCCGAAAGTT
66 GAAGG-CTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAAGCT
*
4528445 TTTTGAAAACATCAAGCACTGTAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACT
1 TTTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACT
*
4528510 GAAGGCCTTACAGATGACTCGAAGGCTTTGAAAACATCAAAAAGCTCCC-AAAGGCT
66 GAAGG-CTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAA-GCT
* *
4528566 TTTTGAAAACATCATGCATTGTA-GGCTTACAGATGACCCGAATGCTTTGAAAACATCATGCACT
1 TTTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACT
* * * *
4528630 GAAAGGCTTATAGATGACCCAAAGGATTTGAAAACATCAAAAAGCTCCCGAAGGCT
66 G-AAGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAAGCT
*
4528686 TTTTGAAAACATCCTGCACTGTAGGGCTTA
1 TTTTGAAAACATCATGCACTGTAGGGCTTA
4528716 TGTTGCGTAT
Statistics
Matches: 245, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
120 107 0.44
121 138 0.56
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (120 bp):
TTTTGAAAACATCATGCACTGTAGGGCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACT
GAAGGCTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGAAAGCT
Found at i:4528660 original size:45 final size:44
Alignment explanation
Indices: 4528567--4528668 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 44
4528557 CCAAAGGCTT
* * * * *
4528567 TTTGAAAACATCATGCATTGTAGGCTTACAGATGACCCGAATGC
1 TTTGAAAACATCATGCACTGAAGGCTTACAGATGACCCAAAGGA
*
4528611 TTTGAAAACATCATGCACTGAAAGGCTTATAGATGACCCAAAGGA
1 TTTGAAAACATCATGCACTG-AAGGCTTACAGATGACCCAAAGGA
4528656 TTTGAAAACATCA
1 TTTGAAAACATCA
4528669 AAAAGCTCCC
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 19 0.37
45 32 0.63
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (44 bp):
TTTGAAAACATCATGCACTGAAGGCTTACAGATGACCCAAAGGA
Found at i:4529496 original size:24 final size:24
Alignment explanation
Indices: 4529465--4529514 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4529455 ATAAAGAACC
4529465 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
4529489 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
4529513 AA
1 AA
4529515 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:4531845 original size:14 final size:15
Alignment explanation
Indices: 4531822--4531863 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
4531812 AAATAATATT
*
4531822 AAAATCAAAACTAA-A
1 AAAAT-AAAACAAATA
4531837 AAAATAAAACAAATA
1 AAAATAAAACAAATA
4531852 AAAAT-AAACAAA
1 AAAATAAAACAAA
4531864 CAAATACTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.79, C:0.10, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAATAAAACAAATA
Found at i:4535031 original size:24 final size:24
Alignment explanation
Indices: 4535000--4535049 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4534990 ATAAAGAACC
4535000 AAAATAAA-CTTAAACATACCATTA
1 AAAATAAAGCTTAAACAT-CCATTA
*
4535024 AAAATAAAGTTTAAACATCCATTA
1 AAAATAAAGCTTAAACATCCATTA
4535048 AA
1 AA
4535050 CCAACCACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.58, C:0.14, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAAGCTTAAACATCCATTA
Found at i:4535926 original size:45 final size:45
Alignment explanation
Indices: 4535862--4536142 Score: 427
Period size: 45 Copynumber: 6.2 Consensus size: 45
4535852 AGAGTTATCA
* * *
4535862 GCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTTAAGG
1 GCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGG
* *
4535907 GCTTACAGATGACCCGAAGGCTTTGAAAACATCATGCACTGAAGG
1 GCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGG
* * * * *
4535952 GCTTATAGATGAACCGAAGGTCTTGAAAACATCATGCACTAAAGG
1 GCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGG
* *
4535997 GATTATAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGG
1 GCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGG
* *
4536042 GCTTACAGATGACCCAAAGGTTTTGAAAGCATCATGCACTAAAGG
1 GCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGG
*
4536087 GCTTATAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGG
1 GCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGG
4536132 GCTTACAGATG
1 GCTTACAGATG
4536143 TGAGAAATAG
Statistics
Matches: 217, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 217 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (45 bp):
GCTTACAGATGACCCAAAGGTTTTGAAAACATCATGCACTGAAGG
Found at i:4536821 original size:22 final size:22
Alignment explanation
Indices: 4536796--4536918 Score: 192
Period size: 22 Copynumber: 5.6 Consensus size: 22
4536786 AATAAAGCTT
*
4536796 TCATCTTTGAAAAGAGAATTTA
1 TCATCTTTGAAGAGAGAATTTA
4536818 TCATCTTTGAAGAGAGAATTTA
1 TCATCTTTGAAGAGAGAATTTA
4536840 TCATCTTTGAAGAGAGAATTTA
1 TCATCTTTGAAGAGAGAATTTA
* *
4536862 TCATATTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATTTA
* * *
4536884 TCATTTTTAAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATTTA
4536906 TCATCTTTGAAGA
1 TCATCTTTGAAGA
4536919 ATGTAGATAT
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 94 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATTTA
Found at i:4540231 original size:72 final size:72
Alignment explanation
Indices: 4540114--4540257 Score: 243
Period size: 72 Copynumber: 2.0 Consensus size: 72
4540104 GTATAATAGT
* *
4540114 ATAACAAATTAGTTGAATATTATCCATAAAGTTGGGGCGATTAACCAATTGCTTTAGGGGGATTA
1 ATAACAAATTAGTTGAATATTATCCATAAAGCTGGGGCGATTAACCAATTGCTTTAGGGGGATAA
*
4540179 CTCAAGC
66 CGCAAGC
* *
4540186 ATAACAGATTAGTTGAATATTATCCATAAAGCTGGGGCTATTAACCAATTGCTTTAGGGGGATAA
1 ATAACAAATTAGTTGAATATTATCCATAAAGCTGGGGCGATTAACCAATTGCTTTAGGGGGATAA
4540251 CGCAAGC
66 CGCAAGC
4540258 TTTATTGTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (72 bp):
ATAACAAATTAGTTGAATATTATCCATAAAGCTGGGGCGATTAACCAATTGCTTTAGGGGGATAA
CGCAAGC
Found at i:4542385 original size:13 final size:14
Alignment explanation
Indices: 4542366--4542401 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
4542356 TGTTCAATGC
4542366 AAAAATGCAAATAT
1 AAAAATGCAAATAT
*
4542380 -AAAATGAAAATAT
1 AAAAATGCAAATAT
4542393 AAAAATGCA
1 AAAAATGCA
4542402 TATGCAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.67, C:0.06, G:0.08, T:0.19
Consensus pattern (14 bp):
AAAAATGCAAATAT
Found at i:4547028 original size:3 final size:3
Alignment explanation
Indices: 4547020--4547074 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
4547010 ATTATTTATT
* **
4547020 TAA TAA TAA TATA TAA TAT TAA TAA TAA TAA TAA TTT TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4547066 TAA TAA TAA
1 TAA TAA TAA
4547075 AATGAAATGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:4549203 original size:2 final size:2
Alignment explanation
Indices: 4549196--4549225 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4549186 ACCATTTAAG
4549196 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4549226 TCATATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4551496 original size:182 final size:182
Alignment explanation
Indices: 4551102--4551515 Score: 632
Period size: 182 Copynumber: 2.3 Consensus size: 182
4551092 GATCCAAATT
* * * **
4551102 AAAAATGTATCGATCCACAACGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
* * * * **
4551167 AAACTGGTAAAGCGGTACCGAATATATTTAAAATGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGCTACCGAATATATTGAAAATGTCGAAACTTTAATATAAGGATCGACACTTC
* *
4551232 GTTAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
* * *
4551284 AAAAATATATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACTAGTATCAAAATGATG
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
* * * *
4551349 AAACCGGTAAAACGCTATCGGATATATTGAAAGTGTCGAAACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGCTACCGAATATATTGAAAATGTCGAAACTTTAATATAAGGATCGACACTTC
4551413 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
4551465 AAAAATGTATCGATCAAACAACGATATAACAGGTAAAAATATGATAAAACC
1 AAAAATGTATCGATC-AACAACGATATAACAGGTAAAAATATGATAAAACC
4551516 GGTAAAATGA
Statistics
Matches: 209, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
181 82 0.39
182 127 0.61
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
AAACCGGTAAAACGCTACCGAATATATTGAAAATGTCGAAACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:4551731 original size:17 final size:17
Alignment explanation
Indices: 4551709--4551743 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4551699 AGGTCAATAC
4551709 ATTTAGGTATGTACAAT
1 ATTTAGGTATGTACAAT
4551726 ATTTAGGTATGTACAAT
1 ATTTAGGTATGTACAAT
4551743 A
1 A
4551744 ACTACCTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (17 bp):
ATTTAGGTATGTACAAT
Found at i:4551973 original size:22 final size:22
Alignment explanation
Indices: 4551929--4551973 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
4551919 ATTACATAAC
**
4551929 TTTAAAAAAAGTATGAATGCTT
1 TTTAAAAAAAGTATGAACACTT
*
4551951 TTTATAAAAAGTATGAACACTT
1 TTTAAAAAAAGTATGAACACTT
4551973 T
1 T
4551974 CAACATATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATGAACACTT
Found at i:4552669 original size:361 final size:361
Alignment explanation
Indices: 4552001--4555174 Score: 5710
Period size: 361 Copynumber: 8.8 Consensus size: 361
4551991 TTTACCTTTT
* * * *
4552001 TTAA-AAGAGAAGAAGTTATATCGTCAATAAAGTGTCAATACTTTATAAAAATGTATCGATCCAT
1 TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
4552065 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
4552130 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
*
4552195 -AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAT
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
*
4552259 GTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACACG-TAAAGCGCTACCGGTTATGTTGA
261 GT-AAAATATGACAAAACCGGTCTCGAAATGACAAAACA-GATAAAGCGCTACCGGATATGTTGA
*
4552323 AAGTGTCGATAATTTATTTTAAGTATCGACTTTTGGAA
324 AAGTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
* *
4552361 TTAATAAGAGAAGAAGTTATAGCGCCAATAATGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
4552426 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCACTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
4552491 CGGTTATGCTGAAAGTGTCGATAATTTATAATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
*
4552556 AAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCATAACAATATAACAG
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
4552621 GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
261 GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
4552686 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
326 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
4552722 TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
4552787 AATAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGTTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
4552852 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
* *
4552917 AAGTTATAGCGCCAATAAAGTGTCGATACTTGATAAAAATGTATCGATCCATAACAATATAATAG
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
4552982 GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
261 GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
4553047 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
326 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
* *
4553083 TTAATAAGAGAAGAAGTTATAACACCAATAACATGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
4553148 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCACTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
4553213 CGGTTATGTTGAAAGTGTCGATAATTTATAATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
*
4553278 AAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCATAACAATATAACAG
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
4553343 GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
261 GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
4553408 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
326 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
4553444 TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
4553509 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGTTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
4553574 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
* *
4553639 AAGTTATAGCGCCAATAAAGTGTCGATACTTGATAAAAATGTATCGATCCATAACAATATAATAG
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
4553704 GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
261 GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
4553769 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
326 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
* *
4553805 TTAATAAGAGAAGAAGTTATAACACCAATAACATGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
4553870 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAT
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
* *
4553935 CAGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAAACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
*
4554000 AAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCATAACAATATAACAG
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
4554065 GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
261 GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
4554130 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
326 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
*
4554166 TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATTGATCCAT
1 TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
4554231 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
4554296 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
* * *
4554361 AAGTTATAGCACCAATAAAGTGTCGATACGTGATAAAAATGTATCGATCCATAACAATATAACAG
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
4554426 GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
261 GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
4554491 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
326 GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
4554527 TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
4554592 AACAGTATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAT
66 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
4554657 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGAAATTTAAAAGAGAAG
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
*
4554722 AAGTTATAGCGCCAATAAAGTGTCGATACTTGATAAAAATGTATCGATCCATAACAATATAACAG
196 AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
* * *
4554787 GTAATAATATGACAAAACCGTTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGTTATGTTGAA
261 GTAA-AATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAA
4554852 AGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
325 AGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
* * * * *
4554891 TTTAA-AAGAGAAGAAGTCATAGCGTCAATAAAGTGTCGATA-TTTGATAAAAATATATCGATCC
1 -TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTT-ATAAAAATGTATCGATCC
* * * * **
4554954 ATAAGAATATAACAGGTAATAATATGACAAAACCGGTCTCGAAATGACAAAACAGTTAAAATGCT
64 ATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCT
4555019 ACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGA
129 ACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGA
* *
4555084 AGAAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCATAATAATATAAC
194 AGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAAC
* *
4555149 ATGTAAAAATATGATAAAACCGGTCT
259 AGGT-AAAATATGACAAAACCGGTCT
4555175 ATAAGTGACA
Statistics
Matches: 2717, Mismatches: 88, Indels: 14
0.96 0.03 0.00
Matches are distributed among these distances:
360 5 0.00
361 2293 0.84
362 148 0.05
363 3 0.00
364 262 0.10
365 6 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (361 bp):
TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAATTTAAAAGAGAAG
AAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAG
GTAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTACCGGATATGTTGAAA
GTGTCGATAATTTATTATAAGTATCGACTTTTGGAA
Found at i:4555187 original size:182 final size:182
Alignment explanation
Indices: 4552000--4555174 Score: 5332
Period size: 182 Copynumber: 17.6 Consensus size: 182
4551990 TTTTACCTTT
* * *
4552000 TTTAAAAGAGAAGAAGTTATATCGTCAATAAAGTGTCAATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
4552065 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
4552130 CGGTTATGTTGAAAGTGTCGATAATTTATTATACGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
4552182 TTTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
4552246 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACACGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
4552311 CGGTTATGTTGAAAGTGTCGATAATTTATTTTAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
4552361 -TTAATAAGAGAAGAAGTTATAGCGCCAATAATGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* *
4552425 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCACTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
* *
4552490 CCGGTTATGCTGAAAGTGTCGATAATTTATAATAAGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
4552543 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
4552608 AACAATATAACAGGT-AAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
4552672 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
4552722 -TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* * *
4552786 TAATAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGTTAAAGCGCTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
4552851 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
4552904 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTGATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
4552969 AACAATATAATAGGT-AAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
4553033 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
4553083 -TTAATAAGAGAAGAAGTTATAACACCAATAACA-TGTCGATACTTTATAAAAATGTATCGATCC
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAA-AGTGTCGATACTTTATAAAAATGTATCGATCC
* *
4553146 ATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCACT
64 ATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCT
*
4553211 ACCGGTTATGTTGAAAGTGTCGATAATTTATAATAAGTATCGACACTTTTGGAA
129 ACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
4553265 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
4553330 AACAATATAACAGGT-AAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
4553394 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
4553444 -TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* *
4553508 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGTTAAAGCGCTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
4553573 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
4553626 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTGATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
4553691 AACAATATAATAGGT-AAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
4553755 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
4553805 -TTAATAAGAGAAGAAGTTATAACACCAATAACA-TGTCGATACTTTATAAAAATGTATCGATCC
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAA-AGTGTCGATACTTTATAAAAATGTATCGATCC
*
4553868 ATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCT
64 ATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCT
* * *
4553933 ATCAGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAAACTTTTGGAA
129 ACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
4553987 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
4554052 AACAATATAACAGGT-AAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
4554116 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* * *
4554166 -TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATTGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
*
4554230 TAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
4554295 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* * *
4554348 TTTAAAAGAGAAGAAGTTATAGCACCAATAAAGTGTCGATACGTGATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
4554413 AACAATATAACAGGT-AAAATATGACAAAACCGGTCTCGAAATGACAAAACAGATAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
*
4554477 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCG--ACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* *
4554527 -TTAATAAGAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCA
1 TTTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCA
* *
4554591 TAACAGTATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
* *
4554656 TCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGAAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
4554709 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTGATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
4554774 AACAATATAACAGGTAATAATATGACAAAACCGTTCTCGAAATGACAAAACAGGTAAAGCGCTAC
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
4554839 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
131 CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
* * *
4554891 TTTAAAAGAGAAGAAGTCATAGCGTCAATAAAGTGTCGATA-TTTGATAAAAATATATCGATCCA
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTT-ATAAAAATGTATCGATCCA
* * * **
4554955 TAAGAATATAACAGGTAATAATATGACAAAACCGGTCTCGAAATGACAAAACAGTTAAAATGCTA
65 TAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTA
4555020 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
130 CCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
*
4555073 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATATTTTATAAAAATGTATCGATCCAT
1 TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
4555138 AATAATATAACATGTAAAAATATGATAAAACCGGTCT
66 AACAATATAACAGGTAAAAATATGACAAAACCGGTCT
4555175 ATAAGTGACA
Statistics
Matches: 2817, Mismatches: 135, Indels: 82
0.93 0.04 0.03
Matches are distributed among these distances:
178 28 0.01
179 493 0.18
180 669 0.24
181 668 0.24
182 928 0.33
183 31 0.01
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (182 bp):
TTTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
CGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGACACTTTTGGAA
Found at i:4555455 original size:23 final size:23
Alignment explanation
Indices: 4555405--4555449 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4555395 TACCTATTTT
* *
4555405 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
4555428 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
4555450 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:4558608 original size:27 final size:27
Alignment explanation
Indices: 4558569--4558628 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
4558559 TGAGAAAACG
4558569 AGGGCTTTGTCCCTTAAGGATCGGATTA
1 AGGG-TTTGTCCCTTAAGGATCGGATTA
4558597 AGGGTTTGTCCCTTAAGGATCGGATTA
1 AGGGTTTGTCCCTTAAGGATCGGATTA
4558624 AGGGT
1 AGGGT
4558629 ATTTATACCC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.32
Consensus pattern (27 bp):
AGGGTTTGTCCCTTAAGGATCGGATTA
Found at i:4559119 original size:2 final size:2
Alignment explanation
Indices: 4559112--4559138 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4559102 TTTAATAATT
4559112 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
4559139 TGATATTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4559174 original size:25 final size:26
Alignment explanation
Indices: 4559129--4559178 Score: 75
Period size: 25 Copynumber: 1.9 Consensus size: 26
4559119 ATATATATAT
*
4559129 ATATATATATTGATATTTATTATTTGA
1 ATATATATATT-ATATGTATTATTTGA
4559156 ATATATATATT-TATGTATTATTT
1 ATATATATATTATATGTATTATTT
4559179 TTATACGAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 11 0.50
27 11 0.50
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (26 bp):
ATATATATATTATATGTATTATTTGA
Found at i:4564394 original size:99 final size:99
Alignment explanation
Indices: 4564285--4564464 Score: 281
Period size: 99 Copynumber: 1.8 Consensus size: 99
4564275 ATATGTATAT
** * * **
4564285 AATAAAGCTTGATCTGTCCCTCTAGAGCAATTGGTTAAACGTTTC-GGCTTTATGGATAAGATTC
1 AATAAAGCTTGAGATGTCCCTCCAGAGCAATTAGTTAAACG-CCCAGGCTTTATGGATAAGATTC
*
4564349 AGCTAGCCTGATAAAGGTGATTATAATATATATGC
65 AGCTAACCTGATAAAGGTGATTATAATATATATGC
4564384 AATAAAGCTTGAGATGTCCCTCCAGAGCAATTAGTTAAACGCCCAGGCTTTATGGATAAGATTCA
1 AATAAAGCTTGAGATGTCCCTCCAGAGCAATTAGTTAAACGCCCAGGCTTTATGGATAAGATTCA
4564449 GCTAACCTGATAAAGG
66 GCTAACCTGATAAAGG
4564465 CAAATTACAA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
98 1 0.01
99 72 0.99
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (99 bp):
AATAAAGCTTGAGATGTCCCTCCAGAGCAATTAGTTAAACGCCCAGGCTTTATGGATAAGATTCA
GCTAACCTGATAAAGGTGATTATAATATATATGC
Done.