Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 96 of 226
Found at i:33106256 original size:32 final size:32
Alignment explanation
Indices: 33106215--33106275 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
33106205 AAAAATATAC
* * *
33106215 TTTATTATTTCTATGTTTATAATTCCACCGTA
1 TTTACTATTTCTAAGTTTACAATTCCACCGTA
33106247 TTTACTATTTCTAAGTTTACAATTCCACC
1 TTTACTATTTCTAAGTTTACAATTCCACC
33106276 ATTGAACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.26, C:0.20, G:0.05, T:0.49
Consensus pattern (32 bp):
TTTACTATTTCTAAGTTTACAATTCCACCGTA
Found at i:33109125 original size:63 final size:63
Alignment explanation
Indices: 33109026--33109153 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
33109016 TTATGTGGTA
33109026 AATCTACCAATTTACTTTATGGTGAATGGTTAGGTGATAGTTTTATATGAAATTTGGTTAGTT
1 AATCTACCAATTTACTTTATGGTGAATGGTTAGGTGATAGTTTTATATGAAATTTGGTTAGTT
*
33109089 AATCTACCAATTTACTTTATGGTGGATGGTTAGGTGATAGTTTTATATGAAATTTGGTTAGTT
1 AATCTACCAATTTACTTTATGGTGAATGGTTAGGTGATAGTTTTATATGAAATTTGGTTAGTT
33109152 AA
1 AA
33109154 CAAAGGTTAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.29, C:0.06, G:0.21, T:0.44
Consensus pattern (63 bp):
AATCTACCAATTTACTTTATGGTGAATGGTTAGGTGATAGTTTTATATGAAATTTGGTTAGTT
Found at i:33112355 original size:4 final size:4
Alignment explanation
Indices: 33112342--33112372 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
33112332 TGATTTTTTA
33112342 AATT -ATT AATT AATT AATT AATT AATT AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
33112373 GAAGTTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
AATT
Found at i:33116904 original size:26 final size:26
Alignment explanation
Indices: 33116875--33116948 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
33116865 AATATCGTAG
33116875 CAAAGCTGCCAGTAACAGTATAACAA
1 CAAAGCTGCCAGTAACAGTATAACAA
* ** *
33116901 CAAAGCTGCCAATAACAGTATCGCAG
1 CAAAGCTGCCAGTAACAGTATAACAA
*
33116927 TAAAGCTGCCAGTAACAGTATA
1 CAAAGCTGCCAGTAACAGTATA
33116949 CTTCCTCCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.18
Consensus pattern (26 bp):
CAAAGCTGCCAGTAACAGTATAACAA
Found at i:33123111 original size:26 final size:26
Alignment explanation
Indices: 33123079--33123155 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 26
33123069 GCGCACCAAC
*
33123079 ATCGCAGCAAAGTTGCCAGAAATAGT
1 ATCGCAGCAAAGTTGCCAGAAACAGT
* * *
33123105 ATTGCAGCAAAGCTGCCAGTAACAGT
1 ATCGCAGCAAAGTTGCCAGAAACAGT
* *
33123131 ATCGCGGCAAAGTTGCCAGTAACAG
1 ATCGCAGCAAAGTTGCCAGAAACAG
33123156 AATACTTCCT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
ATCGCAGCAAAGTTGCCAGAAACAGT
Found at i:33126014 original size:15 final size:15
Alignment explanation
Indices: 33125996--33126029 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33125986 TATTATTTTG
33125996 ATGTTAATTATTAAT
1 ATGTTAATTATTAAT
* *
33126011 ATGTTAATTTTTATT
1 ATGTTAATTATTAAT
33126026 ATGT
1 ATGT
33126030 AGTGGGTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (15 bp):
ATGTTAATTATTAAT
Found at i:33126485 original size:11 final size:11
Alignment explanation
Indices: 33126469--33126496 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
33126459 TTAGTAAGCT
33126469 TCACCTCAACC
1 TCACCTCAACC
33126480 TCACCTCAACC
1 TCACCTCAACC
33126491 TCACCT
1 TCACCT
33126497 ATAAATACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.25, C:0.54, G:0.00, T:0.21
Consensus pattern (11 bp):
TCACCTCAACC
Found at i:33131231 original size:163 final size:162
Alignment explanation
Indices: 33130961--33131286 Score: 467
Period size: 163 Copynumber: 2.0 Consensus size: 162
33130951 AGGTCTTTTC
* *
33130961 CACATTATTTTTAGAAATTGATTTAATTTCAAAAAGCCATAGACAAAAATATTTTCGGTTTACCT
1 CACATTATTTTTAGAAATTGATTTAACTTCAAAAAGCCATAAACAAAAATATTTTCGGTTTACCT
* * * * *
33131026 CACTTCAAATTTCTGAACTCAATTTCAAGCCAAAGTTCCAAAACTATCCTTGAAACTTTTAGACC
66 CACTTCAAATTTCCGAACTCAATTTCAAGACAAAATTCCAAAACTATCCTCGAAACTTCTAGA-C
* *
33131091 CAATTTCGGGATGTGACAAAGAGAACGAAGAAG
130 CAATTTCGAGATGTGACAAAGAGAACCAAGAAG
* *
33131124 CACATTATTTTT-GTAAATTGATTTAACTTCAAAAA-CTCATAAACAAATATATTTTTGGTTTAC
1 CACATTATTTTTAG-AAATTGATTTAACTTCAAAAAGC-CATAAACAAAAATATTTTCGGTTTAC
** * * *
33131187 CTCACTTTGAATTTCCGTACTCAATTTCAATATAAAATTCCAAAACTATCCTCGAAACTTCTAGA
64 CTCACTTCAAATTTCCGAACTCAATTTCAAGACAAAATTCCAAAACTATCCTCGAAACTTCTAGA
33131252 CCAATTTCGAGATGTGACAAAGAGAACCAAGAAG
129 CCAATTTCGAGATGTGACAAAGAGAACCAAGAAG
33131286 C
1 C
33131287 CTAAAGACTT
Statistics
Matches: 145, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
162 35 0.24
163 110 0.76
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (162 bp):
CACATTATTTTTAGAAATTGATTTAACTTCAAAAAGCCATAAACAAAAATATTTTCGGTTTACCT
CACTTCAAATTTCCGAACTCAATTTCAAGACAAAATTCCAAAACTATCCTCGAAACTTCTAGACC
AATTTCGAGATGTGACAAAGAGAACCAAGAAG
Found at i:33144902 original size:24 final size:24
Alignment explanation
Indices: 33144875--33144921 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
33144865 TTTTTGGGCT
33144875 ACAGTTAGCTTGACAATTAGGAGA
1 ACAGTTAGCTTGACAATTAGGAGA
33144899 ACAGTTAGCTTGACAATTAGGAG
1 ACAGTTAGCTTGACAATTAGGAG
33144922 CAAAGGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (24 bp):
ACAGTTAGCTTGACAATTAGGAGA
Found at i:33146886 original size:133 final size:134
Alignment explanation
Indices: 33146641--33147014 Score: 464
Period size: 133 Copynumber: 2.8 Consensus size: 134
33146631 AATTCACTAA
* * * *
33146641 TTACGATCATGACTAGTATTATTAAAGCTTGCTGGTTTACGATCATAGCTTAAGTTCACTAATTT
1 TTACAATCATGACTGGTATTATTAAAGCTTGCTGATTTACGATCATAGCTTAAGTTCACTGATTT
* * ** * * *
33146706 ACAATCATGAATAGTTCATTTTGAGTTCGTTGATTAATTATCGCAACTTCATTCAAAAAGTTCAT
66 ACGATCATGAACAGTTCATTTTGAGTTCACTGATTTATGATCGCAACTCCATTCAAAAAGTTCAT
33146771 TGAT
131 TGAT
** * * *
33146775 TTATGATTATGACTGGTATTATTAAAGCTCGCTGATTTACAATCATAGCTTAAGTTCA-TGATTT
1 TTACAATCATGACTGGTATTATTAAAGCTTGCTGATTTACGATCATAGCTTAAGTTCACTGATTT
* * * * *
33146839 ACGATCATGAACAGTTCATTTTGATTTTACTGATTTATGATTGCAACTCCATTCAATAAGTTCGT
66 ACGATCATGAACAGTTCATTTTGAGTTCACTGATTTATGATCGCAACTCCATTCAAAAAGTTCAT
33146904 TGAT
131 TGAT
* * * * * *
33146908 TTACAATCACGACTGCTATTATTAAAGCTTGCTGATTTATGGTCACAGCTTAAGTTCATTGATTT
1 TTACAATCATGACTGGTATTATTAAAGCTTGCTGATTTACGATCATAGCTTAAGTTCACTGATTT
* *
33146973 AAGATCAT-TACTAGTTCATTTTGAGTTCACTGATTTATGATC
66 ACGATCATGAAC-AGTTCATTTTGAGTTCACTGATTTATGATC
33147015 ATGACTAGTA
Statistics
Matches: 204, Mismatches: 34, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
133 112 0.55
134 92 0.45
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (134 bp):
TTACAATCATGACTGGTATTATTAAAGCTTGCTGATTTACGATCATAGCTTAAGTTCACTGATTT
ACGATCATGAACAGTTCATTTTGAGTTCACTGATTTATGATCGCAACTCCATTCAAAAAGTTCAT
TGAT
Found at i:33147068 original size:206 final size:206
Alignment explanation
Indices: 33146833--33147215 Score: 507
Period size: 206 Copynumber: 1.9 Consensus size: 206
33146823 CTTAAGTTCA
* * * * **
33146833 TGATTTACGATCATGAACAGTTCATTTTGATTTTACTGATTTATGATTGCAACTCCATTC-AATA
1 TGATTTACGATCATGAACAATTCATTTTGAGTTCACTGATTTATAATCACAACTCCATTCAAAT-
* * * * *
33146897 AGTTCGTTGATTTACAATCACGACTGCTATTATTAAAGCTTGCTGATTTATGGTCACAGCTTAAG
65 AGTTCATTGATTTACAATCACGACTGCTATTATTAAAGCTTGCTGATGTACGATCACAACTTAAG
* * * *
33146962 TTCATTGATTTAAGATCATTACTAGTTCATTTTGAGTTCACTGATTTATGATCATGACTAGTAGT
130 CTCAATGATTTAAGATCATGAATAGTTCATTTTGAGTTCACTGATTTATGATCATGACTAGTAGT
33147027 ATTAAAGTTTGT
195 ATTAAAGTTTGT
* * ** *
33147039 TGATTTATGATCATGAACAATTTATTTTGAGTTCGTTGATTTATAATCACAACTCCATTGAAATA
1 TGATTTACGATCATGAACAATTCATTTTGAGTTCACTGATTTATAATCACAACTCCATTCAAATA
* *
33147104 GTTCATTGATTTACGATCACGACTGGTATTATTAAAGCTTGCTGATGTACGATCACAACTTAAGC
66 GTTCATTGATTTACAATCACGACTGCTATTATTAAAGCTTGCTGATGTACGATCACAACTTAAGC
*** * *
33147169 TCAATGATTTGCTATCGTGAATAGTTCATTTTGAGTTCATTGATTTA
131 TCAATGATTTAAGATCATGAATAGTTCATTTTGAGTTCACTGATTTA
33147216 AAATCGCAAC
Statistics
Matches: 149, Mismatches: 27, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
206 146 0.98
207 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (206 bp):
TGATTTACGATCATGAACAATTCATTTTGAGTTCACTGATTTATAATCACAACTCCATTCAAATA
GTTCATTGATTTACAATCACGACTGCTATTATTAAAGCTTGCTGATGTACGATCACAACTTAAGC
TCAATGATTTAAGATCATGAATAGTTCATTTTGAGTTCACTGATTTATGATCATGACTAGTAGTA
TTAAAGTTTGT
Found at i:33147340 original size:137 final size:134
Alignment explanation
Indices: 33147038--33147491 Score: 441
Period size: 134 Copynumber: 3.4 Consensus size: 134
33147028 TTAAAGTTTG
* * * * * * *
33147038 TTGATTTATGATCATGAACAATTTATTTTGAGTTCGTTGATTTATAATCACAACTCCATTGAAAT
1 TTGATTTACGATCATGAACAATTCATTTTGAGTTCATTGATTTACAATCGCAACTTCATTCAAAT
* * * * * *
33147103 AGTTCATTGATTTACGATCACGACTGGTAT-TATTAAAGCTTGCTGATGTACGATCACAACTTAA
66 AGTTCACTGATTTACGATCTC-AATTGTATATATTAAAGCTTGCTGATTTACGATCACAACCTAA
*
33147167 GCTCA
130 GTTCA
* * * * * * *
33147172 ATGATTTGCTATCGTGAATAGTTCATTTTGAGTTCATTGATTTAAAATCGCAACTTCATTCAAAT
1 TTGATTTACGATCATGAACAATTCATTTTGAGTTCATTGATTTACAATCGCAACTTCATTCAAAT
*
33147237 AGTTCACTGATTTACGATCTCAATTGATAATAATATTAAAGCTTGCTGATTTACAATCACAACCT
66 AGTTCACTGATTTACGATCTCAATTG-T-AT-ATATTAAAGCTTGCTGATTTACGATCACAACCT
33147302 AAGTTCA
128 AAGTTCA
* * * * * *
33147309 TTGATTAACGATCATGAACAGTTCATTTTGAGTTCACTGATCTACGATCGCAAC-TCTATTTAAA
1 TTGATTTACGATCATGAACAATTCATTTTGAGTTCATTGATTTACAATCGCAACTTC-ATTCAAA
* * * * * **
33147373 TAGTTTACTGGTTTACGATCAT-AATTGGTA-CTATTAAAGCTTGTTGACTTACGATCA-TGCCT
65 TAGTTCACTGATTTACGATC-TCAATT-GTATATATTAAAGCTTGCTGATTTACGATCACAACC-
*
33147435 TATGTTCA
127 TAAGTTCA
** * *
33147443 TTGATTTATAATCATGAACAATTTATTTTGAGTTCATCGATTTACAATC
1 TTGATTTACGATCATGAACAATTCATTTTGAGTTCATTGATTTACAATC
33147492 ATAATGAATG
Statistics
Matches: 262, Mismatches: 50, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
133 5 0.02
134 142 0.54
135 2 0.01
136 3 0.01
137 108 0.41
138 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (134 bp):
TTGATTTACGATCATGAACAATTCATTTTGAGTTCATTGATTTACAATCGCAACTTCATTCAAAT
AGTTCACTGATTTACGATCTCAATTGTATATATTAAAGCTTGCTGATTTACGATCACAACCTAAG
TTCA
Found at i:33153131 original size:50 final size:50
Alignment explanation
Indices: 33153062--33153413 Score: 309
Period size: 50 Copynumber: 7.0 Consensus size: 50
33153052 ATGAAAGTGA
*
33153062 TGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGAT
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAT
* * * *** * *
33153112 GGGTCGCATGTGTAGTACTATGTGCAGGCTACTATACGTA-CCGAATAGCTT
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAAT-G-AT
* * * *
33153163 TGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGG-ATGGAAA
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAAT-G-AT
* * * **
33153214 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAATTTT
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCG-GAATGAT
* * * * *
33153265 TGGTCACCTGTGTAGTACAATGTGAAGGCTACTACGTGAATCGTAA-AACT
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGA-T
* * * * * * * *
33153315 TGATCACGTGTGTAGTACTATGTGAAGGCCACTACATGAACCGTAA-AACT
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGA-T
* *
33153365 TGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGAT
1 TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAT
33153414 AAAAGTAACA
Statistics
Matches: 246, Mismatches: 49, Indels: 15
0.79 0.16 0.05
Matches are distributed among these distances:
49 8 0.03
50 122 0.50
51 111 0.45
52 3 0.01
53 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGAATGAT
Found at i:33153195 original size:51 final size:49
Alignment explanation
Indices: 33153120--33153398 Score: 247
Period size: 51 Copynumber: 5.5 Consensus size: 49
33153110 ATGGGTCGCA
* * *
33153120 TGTGTAGTACTATGTGCAGGCTACTATACGTACCGAATAGCTTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTATATGTACCGAA-AAC-TTGATCACG
* ** * * *
33153171 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGAAA--TGGTCACA
1 TGTGTAGTACTATGTGAAGGCTACTATATGTA-CCGA---AAACTTGATCACG
* * ** * *
33153222 TGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAATTTTTGGTCACC
1 TGTGTAGTACTATGTGAAGGCTACTATATGTACCGA-AA-ACTTGATCACG
* ** * *
33153273 TGTGTAGTACAATGTGAAGGCTACTACGTGAATCGTAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTATATGTACCG-AAAACTTGATCACG
* * *
33153323 TGTGTAGTACTATGTGAAGGCCACTACATGAACCGTAAAACTTGATCACG
1 TGTGTAGTACTATGTGAAGGCTACTATATGTACCG-AAAACTTGATCACG
33153373 TGTGTAGTACTATGTGAAGGCTACTA
1 TGTGTAGTACTATGTGAAGGCTACTA
33153399 CGTGTATCGA
Statistics
Matches: 193, Mismatches: 27, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
48 3 0.02
50 81 0.42
51 103 0.53
52 4 0.02
54 1 0.01
55 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTATGTGAAGGCTACTATATGTACCGAAAACTTGATCACG
Found at i:33153337 original size:152 final size:151
Alignment explanation
Indices: 33153061--33153413 Score: 387
Period size: 152 Copynumber: 2.3 Consensus size: 151
33153051 AATGAAAGTG
* * * *
33153061 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAATGATGGGTCGCATGTGTA
1 ATGGTCACATGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGGAATGATGGGTCACATGTGTA
* * * *
33153126 GTACTATGTGCAGGCTACTATACGTACCGAATAGCTTTGATCACGTGTGTAGTACTATGTGCAGG
66 GTACAATGTGAAGGCTAC-ATACGTACCGAATAACTTTGATCACGTGTGTAGTACTATGTGAAGG
*
33153191 CTACTACGTGTATCGGATGGAA
130 CCACTACGTGTATCGGATGGAA
* ** * *
33153213 ATGGTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAATTTTTGGTCACCTGTGT
1 ATGGTCACATGTGTAGTACTAAGTGAAGGCTACTACGTGTACCG-GAATGATGGGTCACATGTGT
*
33153278 AGTACAATGTGAAGGCTAC-TACGTGAATCGTAA-AAC-TTGATCACGTGTGTAGTACTATGTGA
65 AGTACAATGTGAAGGCTACATACGT--ACCG-AATAACTTTGATCACGTGTGTAGTACTATGTGA
* * * *
33153340 AGGCCACTACATG-AACCG-T-AAA
127 AGGCCACTACGTGTATCGGATGGAA
* * * *
33153362 ACTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATC-GAATGAT
1 A--TGGTCACATGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGGAATGAT
33153414 AAAAGTAACA
Statistics
Matches: 169, Mismatches: 26, Indels: 15
0.80 0.12 0.07
Matches are distributed among these distances:
149 8 0.05
150 1 0.01
151 45 0.27
152 76 0.45
153 37 0.22
154 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (151 bp):
ATGGTCACATGTGTAGTACTAAGTGAAGGCTACTACGTGTACCGGAATGATGGGTCACATGTGTA
GTACAATGTGAAGGCTACATACGTACCGAATAACTTTGATCACGTGTGTAGTACTATGTGAAGGC
CACTACGTGTATCGGATGGAA
Found at i:33160846 original size:19 final size:20
Alignment explanation
Indices: 33160824--33160867 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
33160814 AGAAATTAAT
33160824 TAAAAACCATAAA-A-TTTTA
1 TAAAAA-CATAAATATTTTTA
*
33160843 TAAAAAGATAAATATTTTTA
1 TAAAAACATAAATATTTTTA
33160863 TAAAA
1 TAAAA
33160868 TTTTATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 5 0.23
19 7 0.32
20 10 0.45
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (20 bp):
TAAAAACATAAATATTTTTA
Found at i:33161072 original size:11 final size:10
Alignment explanation
Indices: 33161048--33161127 Score: 57
Period size: 10 Copynumber: 8.5 Consensus size: 10
33161038 ATAAATTTAT
* *
33161048 ATTTTTTATG
1 ATTTTTAATA
33161058 ATTTTTAATTA
1 ATTTTTAA-TA
33161069 ATTTTTAATA
1 ATTTTTAATA
33161079 ATTTTATAA-A
1 ATTTT-TAATA
*
33161089 A--TTTAA-C
1 ATTTTTAATA
33161096 ATTTTT-ATA
1 ATTTTTAATA
33161105 A-TTTTAAT-
1 ATTTTTAATA
*
33161113 TTTTTTAATA
1 ATTTTTAATA
33161123 ATTTT
1 ATTTT
33161128 ATAAATTTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
7 4 0.07
8 7 0.12
9 13 0.23
10 20 0.36
11 12 0.21
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:33161083 original size:9 final size:9
Alignment explanation
Indices: 33161060--33161128 Score: 52
Period size: 9 Copynumber: 7.6 Consensus size: 9
33161050 TTTTTATGAT
33161060 TTTTAATTAA
1 TTTTAA-TAA
33161070 TTTTTAATAA
1 -TTTTAATAA
33161080 TTTT-ATAAA
1 TTTTAAT-AA
* *
33161089 ATTTAA-CA
1 TTTTAATAA
*
33161097 TTTTTATAA
1 TTTTAATAA
**
33161106 TTTTAATTT
1 TTTTAATAA
33161115 TTTTAATAA
1 TTTTAATAA
33161124 TTTTA
1 TTTTA
33161129 TAAATTTTTA
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
8 7 0.16
9 28 0.62
10 4 0.09
11 6 0.13
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTTAATAA
Found at i:33161132 original size:44 final size:44
Alignment explanation
Indices: 33161032--33161151 Score: 134
Period size: 44 Copynumber: 2.6 Consensus size: 44
33161022 AATAATAAAT
* *
33161032 TTTTATATAAATTTATATTTTTTATGATTTTTAATTAATTTTTAATAA
1 TTTTATA-AAATTTA-AATTTTTAT-AATTTTAATT-ATTTTTAATAA
33161080 TTTTATAAAATTTAACATTTTTATAATTTTAATT-TTTTTAATAA
1 TTTTATAAAATTTAA-ATTTTTATAATTTTAATTATTTTTAATAA
* **
33161124 TTTTATAAATTTTTATGTTTTTATAATT
1 TTTTATAAA-ATTTAAATTTTTATAATT
33161152 ACAGAATGTG
Statistics
Matches: 65, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
44 30 0.46
45 4 0.06
46 10 0.15
47 14 0.22
48 7 0.11
ACGTcount: A:0.35, C:0.01, G:0.02, T:0.62
Consensus pattern (44 bp):
TTTTATAAAATTTAAATTTTTATAATTTTAATTATTTTTAATAA
Found at i:33162292 original size:5 final size:5
Alignment explanation
Indices: 33162282--33162339 Score: 116
Period size: 5 Copynumber: 11.6 Consensus size: 5
33162272 TGGCATACCT
33162282 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
33162332 TATTA TAT
1 TATTA TAT
33162340 ATAGTAGTTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 53 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:33167825 original size:23 final size:22
Alignment explanation
Indices: 33167782--33167825 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
33167772 TTCTATGTCG
33167782 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
33167805 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
33167826 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:33167935 original size:45 final size:45
Alignment explanation
Indices: 33167871--33167958 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
33167861 ACAGATACTC
*
33167871 GGTGGATGCAGCACATAGCAACCACCTTATTAATCAATGATGTCT
1 GGTGGATGCAGCACATAGCAACCACCTTACTAATCAATGATGTCT
33167916 GGTGGAAT-CAGCACATAGCAACCACCTTACTAATCAATGATGT
1 GGTGG-ATGCAGCACATAGCAACCACCTTACTAATCAATGATGT
33167959 TCGGTTCATA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 39 0.95
46 2 0.05
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (45 bp):
GGTGGATGCAGCACATAGCAACCACCTTACTAATCAATGATGTCT
Found at i:33168045 original size:51 final size:50
Alignment explanation
Indices: 33167969--33168155 Score: 196
Period size: 51 Copynumber: 3.7 Consensus size: 50
33167959 TCGGTTCATA
* * * * *
33167969 TAGTAGCGTGCATATAGTACTACACATGTGACCATTACCATCCAATACACG
1 TAGTAGCCTGCACATAGTACTACACACGCGACCA-TACCATCCAGTACACG
* * * * * *
33168020 TAGTAGCCTGCACATAGTACTACACACGCGATCGAAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGCGA-CCATACCATCCAGTACACG
* * *
33168071 TAGTAGCCTGCACATAGTATTACACATGCGACC-TATCATTCCAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGCGACCATACCA-TCCAGTACACG
* *
33168121 TAGTAGCTTGCACATAGTACTACACACGAGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGCGACCAT
33168156 CACTTTCACT
Statistics
Matches: 109, Mismatches: 24, Indels: 6
0.78 0.17 0.04
Matches are distributed among these distances:
49 2 0.02
50 38 0.35
51 67 0.61
52 2 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGCGACCATACCATCCAGTACACG
Found at i:33168175 original size:101 final size:100
Alignment explanation
Indices: 33167968--33168151 Score: 253
Period size: 101 Copynumber: 1.8 Consensus size: 100
33167958 TTCGGTTCAT
* * *
33167968 ATAGTAGCGTGCATATAGTACTACACATGTGACCATTACCATCCAATACACGTAGTAGCCTGCAC
1 ATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCCAATACACGTAGTAGCCTGCAC
* *
33168033 ATAGTACTACACACGCGATCGAAACTATCCGGTACGC
65 ATAGTACTACACACGAGATCCAAACTATCCGGTAC-C
* * * *
33168070 ATAGTAGCCTGCACATAGTATTACACATGCGACC-TATCATTCCAGTACACGTAGTAGCTTGCAC
1 ATAGTAGCCTGCACATAGTACTACACATGCGACCATACCA-TCCAATACACGTAGTAGCCTGCAC
33168134 ATAGTACTACACACGAGA
65 ATAGTACTACACACGAGA
33168152 CCATCACTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 4 0.05
101 39 0.53
102 30 0.41
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (100 bp):
ATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCCAATACACGTAGTAGCCTGCACA
TAGTACTACACACGAGATCCAAACTATCCGGTACC
Found at i:33168496 original size:45 final size:45
Alignment explanation
Indices: 33168432--33168524 Score: 186
Period size: 45 Copynumber: 2.1 Consensus size: 45
33168422 AAATTATGAT
33168432 TTTGCCCCTAGGCTCGTAAAATAATTTTTATTCAATTTCCTTGCA
1 TTTGCCCCTAGGCTCGTAAAATAATTTTTATTCAATTTCCTTGCA
33168477 TTTGCCCCTAGGCTCGTAAAATAATTTTTATTCAATTTCCTTGCA
1 TTTGCCCCTAGGCTCGTAAAATAATTTTTATTCAATTTCCTTGCA
33168522 TTT
1 TTT
33168525 TAGGCCTAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.24, C:0.22, G:0.11, T:0.44
Consensus pattern (45 bp):
TTTGCCCCTAGGCTCGTAAAATAATTTTTATTCAATTTCCTTGCA
Found at i:33172893 original size:28 final size:28
Alignment explanation
Indices: 33172861--33172918 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
33172851 CTGCAATAGC
*
33172861 ACCTCTAGAAGGATCATAAATTTCACAA
1 ACCTCTAGAAAGATCATAAATTTCACAA
33172889 ACCTCTAGAAAGATCATAAATTTCACAA
1 ACCTCTAGAAAGATCATAAATTTCACAA
33172917 AC
1 AC
33172919 ACCTTTTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.45, C:0.22, G:0.09, T:0.24
Consensus pattern (28 bp):
ACCTCTAGAAAGATCATAAATTTCACAA
Found at i:33176492 original size:9 final size:9
Alignment explanation
Indices: 33176480--33176505 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33176470 CGAAAAATTA
33176480 GAAATAAGC
1 GAAATAAGC
33176489 GAAATAAGC
1 GAAATAAGC
33176498 GAAATAAG
1 GAAATAAG
33176506 AGAGAGAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.23, T:0.12
Consensus pattern (9 bp):
GAAATAAGC
Found at i:33179560 original size:14 final size:14
Alignment explanation
Indices: 33179541--33179567 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
33179531 GTGTGCTACT
33179541 GAAGAGAAAAAAAG
1 GAAGAGAAAAAAAG
33179555 GAAGAGAAAAAAA
1 GAAGAGAAAAAAA
33179568 TGGGGGGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
GAAGAGAAAAAAAG
Found at i:33180201 original size:12 final size:12
Alignment explanation
Indices: 33180186--33180210 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33180176 AAATTTTTTT
33180186 AAAAAAATTAAA
1 AAAAAAATTAAA
33180198 AAAAAAATTAAA
1 AAAAAAATTAAA
33180210 A
1 A
33180211 CAGAACCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAAAAATTAAA
Found at i:33180344 original size:32 final size:32
Alignment explanation
Indices: 33180249--33180354 Score: 119
Period size: 29 Copynumber: 3.4 Consensus size: 32
33180239 AATGTTAGTG
* *
33180249 TGAAAAAAAAAATTAAAAACAAAATTTTAATGT
1 TGAATAAAAAAA-TAAAATCAAAATTTTAATGT
** * * *
33180282 TGAATAAAAAAACGAAGT---TACTTTAATGT
1 TGAATAAAAAAATAAAATCAAAATTTTAATGT
33180311 TGAATAAAAAAATAAAATCAAAATTTTAATGT
1 TGAATAAAAAAATAAAATCAAAATTTTAATGT
33180343 TGAATAAAAAAA
1 TGAATAAAAAAA
33180355 GGTAGATTAC
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
29 24 0.41
32 23 0.40
33 11 0.19
ACGTcount: A:0.59, C:0.04, G:0.08, T:0.28
Consensus pattern (32 bp):
TGAATAAAAAAATAAAATCAAAATTTTAATGT
Found at i:33180642 original size:29 final size:30
Alignment explanation
Indices: 33180601--33180661 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
33180591 CTTTTCTATT
33180601 TTTTTAATAAATGACCCAATAT-TTT-TAC
1 TTTTTAATAAATGACCCAATATGTTTATAC
*
33180629 TTTTTACATAAATGGCCCAATATGTTTATAC
1 TTTTTA-ATAAATGACCCAATATGTTTATAC
33180660 TT
1 TT
33180662 CTTCTTTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 6 0.21
29 15 0.52
30 3 0.10
31 5 0.17
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.46
Consensus pattern (30 bp):
TTTTTAATAAATGACCCAATATGTTTATAC
Found at i:33188414 original size:45 final size:43
Alignment explanation
Indices: 33188319--33188472 Score: 182
Period size: 45 Copynumber: 3.5 Consensus size: 43
33188309 AAACACCATG
* *
33188319 GTTGAAAGATACTATGGCATTTAACCGAAATGAATAAGAGCATA
1 GTTGAAAGATACTATGGCATTAAATCGAAATGAATAAGA-CATA
* * *
33188363 GTTGAAAGATACTATGGCATTAAATATGATACGAATAAGACTATA
1 GTTGAAAGATACTATGGCATTAAAT-CGAAATGAATAAGAC-ATA
* ** *
33188408 GTTGAAAGATACTATGGCAATACGTCGACAATGAATAATACCATA
1 GTTGAAAGATACTATGGCATTAAATCGA-AATGAATAAGA-CATA
33188453 GTTGAAAGATACTATGGCAT
1 GTTGAAAGATACTATGGCAT
33188473 CACTTTGGAA
Statistics
Matches: 93, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
44 26 0.28
45 66 0.71
46 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.19, T:0.27
Consensus pattern (43 bp):
GTTGAAAGATACTATGGCATTAAATCGAAATGAATAAGACATA
Found at i:33190874 original size:25 final size:25
Alignment explanation
Indices: 33190823--33190889 Score: 66
Period size: 25 Copynumber: 2.7 Consensus size: 25
33190813 CTTACCACAA
* * *
33190823 CTCGTATGAGCTTACTGATTTGTAG
1 CTCGTAAGAGCTTACCGATTTGCAG
*
33190848 CTCGTAGGAGCTTACCGATATT-CAG
1 CTCGTAAGAGCTTACCGAT-TTGCAG
33190873 CTCAG-AAGAGCTTACCG
1 CTC-GTAAGAGCTTACCG
33190890 TTTATCCCTC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 33 0.92
26 3 0.08
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (25 bp):
CTCGTAAGAGCTTACCGATTTGCAG
Found at i:33195009 original size:20 final size:20
Alignment explanation
Indices: 33194981--33195037 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
33194971 AATATTTTGA
* *
33194981 ACCACTCCATTTACTTTCTC
1 ACCATTCCATTTACTTACTC
*
33195001 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTC
* *
33195021 TCCATTTCATTTACTTA
1 ACCATTCCATTTACTTA
33195038 GCATAAACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.32, G:0.00, T:0.46
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTC
Found at i:33199336 original size:21 final size:21
Alignment explanation
Indices: 33199311--33199350 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
33199301 TATAATTACT
33199311 TCATG-CCAAAACATATATATA
1 TCATGACCAAAA-ATATATATA
33199332 TCATGACCAAAAATATATA
1 TCATGACCAAAAATATATA
33199351 ACTCAAGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.50, C:0.17, G:0.05, T:0.28
Consensus pattern (21 bp):
TCATGACCAAAAATATATATA
Found at i:33201367 original size:11 final size:11
Alignment explanation
Indices: 33201351--33201378 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
33201341 ATAAGCACAA
33201351 AAAATAATATT
1 AAAATAATATT
33201362 AAAATAATATT
1 AAAATAATATT
33201373 AAAATA
1 AAAATA
33201379 TTTTTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATAATATT
Found at i:33210426 original size:22 final size:22
Alignment explanation
Indices: 33210373--33210415 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
33210363 TTTATTGTTC
33210373 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
33210395 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
33210416 TAGCCATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:33218270 original size:9 final size:9
Alignment explanation
Indices: 33218258--33218292 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
33218248 AAGTTTAAAA
33218258 TGAGAGAGT
1 TGAGAGAGT
33218267 TGAGAGAGTT
1 TGAGAGAG-T
*
33218277 TGATAGAGT
1 TGAGAGAGT
33218286 TGAGAGA
1 TGAGAGA
33218293 TGGATGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.34, C:0.00, G:0.40, T:0.26
Consensus pattern (9 bp):
TGAGAGAGT
Found at i:33218650 original size:33 final size:34
Alignment explanation
Indices: 33218613--33218709 Score: 85
Period size: 33 Copynumber: 2.9 Consensus size: 34
33218603 ATGGTTATAT
33218613 TTAAATATTTAAAATATAATTTATATATT-CTAA
1 TTAAATATTTAAAATATAATTTATATATTGCTAA
* *
33218646 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTAA
* * *
33218680 -AAAATATTTTAAATTTATATTTCATATATT
1 TTAAATATTTAAAATATA-ATTT-ATATATT
33218710 AAAATATTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.34
34 10 0.20
35 8 0.16
36 3 0.06
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (34 bp):
TTAAATATTTAAAATATAATTTATATATTGCTAA
Found at i:33218886 original size:13 final size:13
Alignment explanation
Indices: 33218870--33218917 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
33218860 TAAACTAAAA
33218870 TTTTCAAAAACAC
1 TTTTCAAAAACAC
* *
33218883 TTTTCCACAACAC
1 TTTTCAAAAACAC
*
33218896 TTTTCAAAAGCAC
1 TTTTCAAAAACAC
*
33218909 TTTTTAAAA
1 TTTTCAAAA
33218918 GCATTGCCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (13 bp):
TTTTCAAAAACAC
Found at i:33218886 original size:26 final size:26
Alignment explanation
Indices: 33218857--33218912 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
33218847 AACATTCAAA
33218857 TTTTAAACTAA-AATTTTCAAAAACAC
1 TTTTAAAC-AACAATTTTCAAAAACAC
** * *
33218883 TTTTCCACAACACTTTTCAAAAGCAC
1 TTTTAAACAACAATTTTCAAAAACAC
33218909 TTTT
1 TTTT
33218913 TAAAAGCATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (26 bp):
TTTTAAACAACAATTTTCAAAAACAC
Found at i:33220160 original size:3 final size:3
Alignment explanation
Indices: 33220152--33220181 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
33220142 TTGGCGGTGC
*
33220152 AGG AGG AGG AGG TGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
33220182 TGCAGAGTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.00, G:0.67, T:0.03
Consensus pattern (3 bp):
AGG
Found at i:33220170 original size:15 final size:15
Alignment explanation
Indices: 33220147--33220178 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33220137 AGCCGTTGGC
33220147 GGTGCAGGAGGAGGA
1 GGTGCAGGAGGAGGA
*
33220162 GGTGGAGGAGGAGGA
1 GGTGCAGGAGGAGGA
33220177 GG
1 GG
33220179 AGGTGCAGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.03, G:0.66, T:0.06
Consensus pattern (15 bp):
GGTGCAGGAGGAGGA
Found at i:33225085 original size:85 final size:85
Alignment explanation
Indices: 33224942--33225112 Score: 342
Period size: 85 Copynumber: 2.0 Consensus size: 85
33224932 ACTCTTAAAG
33224942 TATGTGGAAAACTCCATTTTTGATTTAAGCTTTGGCTCTTATGAGTATCTGATTTACAAGTTTTC
1 TATGTGGAAAACTCCATTTTTGATTTAAGCTTTGGCTCTTATGAGTATCTGATTTACAAGTTTTC
33225007 TTACGCAGAAATGGTTGAGT
66 TTACGCAGAAATGGTTGAGT
33225027 TATGTGGAAAACTCCATTTTTGATTTAAGCTTTGGCTCTTATGAGTATCTGATTTACAAGTTTTC
1 TATGTGGAAAACTCCATTTTTGATTTAAGCTTTGGCTCTTATGAGTATCTGATTTACAAGTTTTC
33225092 TTACGCAGAAATGGTTGAGT
66 TTACGCAGAAATGGTTGAGT
33225112 T
1 T
33225113 GCTTTACAGT
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 86 1.00
ACGTcount: A:0.26, C:0.13, G:0.20, T:0.42
Consensus pattern (85 bp):
TATGTGGAAAACTCCATTTTTGATTTAAGCTTTGGCTCTTATGAGTATCTGATTTACAAGTTTTC
TTACGCAGAAATGGTTGAGT
Found at i:33225581 original size:29 final size:29
Alignment explanation
Indices: 33225529--33225586 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
33225519 AGCCACGTAT
* * * *
33225529 TGTATGTAGTGAGTTGTTGGAAGGAGATA
1 TGTATGTAGTAAGTAGCTGAAAGGAGATA
33225558 TGTATGTAGTAAGTAGCTGAAAGGAGATA
1 TGTATGTAGTAAGTAGCTGAAAGGAGATA
33225587 GAGTGAAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.34, T:0.31
Consensus pattern (29 bp):
TGTATGTAGTAAGTAGCTGAAAGGAGATA
Found at i:33225872 original size:3 final size:3
Alignment explanation
Indices: 33225866--33225948 Score: 54
Period size: 3 Copynumber: 30.0 Consensus size: 3
33225856 TCTGGGTAGT
* * * * *
33225866 AGA AGA ACA AG- AGA AAA AGA AGA ATA AG- AGA AGA A-A TGG AGA A-A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* *
33225910 AGA AGA A-A AGA AGA A-A AGA AGA AGA TG- AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
33225949 GAAAATGGAA
Statistics
Matches: 59, Mismatches: 14, Indels: 14
0.68 0.16 0.16
Matches are distributed among these distances:
2 12 0.20
3 47 0.80
ACGTcount: A:0.67, C:0.01, G:0.28, T:0.04
Consensus pattern (3 bp):
AGA
Found at i:33225897 original size:11 final size:11
Alignment explanation
Indices: 33225883--33225951 Score: 61
Period size: 11 Copynumber: 6.4 Consensus size: 11
33225873 CAAGAGAAAA
*
33225883 AGAAGAATAAG
1 AGAAGAAGAAG
*
33225894 AGAAGAA-ATGG
1 AGAAGAAGA-AG
33225905 AGAA-AAGAAG
1 AGAAGAAGAAG
* *
33225915 AAAAGAAGAAA
1 AGAAGAAGAAG
*
33225926 AGAAGAAGATG
1 AGAAGAAGAAG
*
33225937 AGAAGAAAAAG
1 AGAAGAAGAAG
33225948 AGAA
1 AGAA
33225952 AATGGAAGGA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
10 7 0.15
11 39 0.85
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (11 bp):
AGAAGAAGAAG
Found at i:33225915 original size:16 final size:16
Alignment explanation
Indices: 33225866--33225932 Score: 64
Period size: 16 Copynumber: 3.9 Consensus size: 16
33225856 TCTGGGTAGT
33225866 AGAAGAACAAG-AGAAAA
1 AGAAGAA-AAGAAG-AAA
33225883 AGAAGAATAAGAGAAGAAA
1 AGAAG-A-AA-AGAAGAAA
* *
33225902 TGGAGAAAAGAAGAAA
1 AGAAGAAAAGAAGAAA
33225918 AGAAGAAAAGAAGAA
1 AGAAGAAAAGAAGAA
33225933 GATGAGAAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
16 21 0.50
17 7 0.17
18 3 0.07
19 9 0.21
20 2 0.05
ACGTcount: A:0.69, C:0.01, G:0.27, T:0.03
Consensus pattern (16 bp):
AGAAGAAAAGAAGAAA
Found at i:33225928 original size:43 final size:44
Alignment explanation
Indices: 33225866--33225953 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 44
33225856 TCTGGGTAGT
* **
33225866 AGAAGAACAAGAGAAAAAGAAGAATAAGAGAAGAAATGGAGAAA
1 AGAAGAACAAGAGAAAAAGAAGAAGAAGAGAAGAAAAAGAGAAA
*
33225910 AGAAGAA-AAGA-AGAAAAGAAGAAGATGAGAAGAAAAAGAGAAA
1 AGAAGAACAAGAGA-AAAAGAAGAAGAAGAGAAGAAAAAGAGAAA
33225953 A
1 A
33225954 TGGAAGGAGC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
42 1 0.03
43 31 0.79
44 7 0.18
ACGTcount: A:0.68, C:0.01, G:0.27, T:0.03
Consensus pattern (44 bp):
AGAAGAACAAGAGAAAAAGAAGAAGAAGAGAAGAAAAAGAGAAA
Found at i:33225940 original size:19 final size:18
Alignment explanation
Indices: 33225894--33225945 Score: 67
Period size: 16 Copynumber: 3.1 Consensus size: 18
33225884 GAAGAATAAG
33225894 AGAAGAAATG-G-AGAAA
1 AGAAGAAATGAGAAGAAA
33225910 AGAAGAAA--AGAAGAAA
1 AGAAGAAATGAGAAGAAA
33225926 AGAAGAAGATGAGAAGAAA
1 AGAAGAA-ATGAGAAGAAA
33225945 A
1 A
33225946 AGAGAAAATG
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.03
16 20 0.65
17 1 0.03
19 9 0.29
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (18 bp):
AGAAGAAATGAGAAGAAA
Found at i:33228332 original size:14 final size:15
Alignment explanation
Indices: 33228307--33228340 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
33228297 TAAGTAATGT
33228307 TTAATATTATTAATA
1 TTAATATTATTAATA
*
33228322 TTAAT-TTATTAATG
1 TTAATATTATTAATA
33228336 TTAAT
1 TTAAT
33228341 CCAAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
TTAATATTATTAATA
Found at i:33236571 original size:67 final size:67
Alignment explanation
Indices: 33236462--33236588 Score: 218
Period size: 67 Copynumber: 1.9 Consensus size: 67
33236452 TTTTCAATTT
* * *
33236462 AGAGAGCACACTCCCACGAACCTCATTTCTTACAGTGGGATTACCAGTCCAGGCTAAATCTCCTG
1 AGAGAGCACACTCCCACGAACCTCATTCCTTACAGCGAGATTACCAGTCCAGGCTAAATCTCCTG
33236527 CA
66 CA
*
33236529 AGAGAGCACACTCCCGCGAACCTCATTCCTTACAGCGAGATTACCAGTCCAGGCTAAATC
1 AGAGAGCACACTCCCACGAACCTCATTCCTTACAGCGAGATTACCAGTCCAGGCTAAATC
33236589 CCCTATAATA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 56 1.00
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.20
Consensus pattern (67 bp):
AGAGAGCACACTCCCACGAACCTCATTCCTTACAGCGAGATTACCAGTCCAGGCTAAATCTCCTG
CA
Found at i:33236808 original size:57 final size:59
Alignment explanation
Indices: 33236740--33236855 Score: 157
Period size: 57 Copynumber: 2.0 Consensus size: 59
33236730 GCTAAATCCA
*
33236740 TTTTCCACATATTCTTAGGGAGGGCTATATC-A-A-GATCACCCGTCCGGACTAGATAT
1 TTTTCCACATATTCTTAGAGAGGGCTATATCGATAGGATCACCCGTCCGGACTAGATAT
* *
33236796 TTTTCACACATATTCTTCGAGAGGGCTATATCAGGATAGGATCACCCGTCCGGGCTAGAT
1 TTTTC-CACATATTCTTAGAGAGGGCTATATC--GATAGGATCACCCGTCCGGACTAGAT
33236856 CCTTTTTACC
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
56 5 0.10
57 24 0.47
60 1 0.02
61 1 0.02
62 20 0.39
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (59 bp):
TTTTCCACATATTCTTAGAGAGGGCTATATCGATAGGATCACCCGTCCGGACTAGATAT
Found at i:33239028 original size:14 final size:14
Alignment explanation
Indices: 33239009--33239036 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33238999 AGGATTTAAA
33239009 ATATCATTGTTGAT
1 ATATCATTGTTGAT
33239023 ATATCATTGTTGAT
1 ATATCATTGTTGAT
33239037 GTCAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.50
Consensus pattern (14 bp):
ATATCATTGTTGAT
Found at i:33239157 original size:36 final size:36
Alignment explanation
Indices: 33239107--33239176 Score: 115
Period size: 36 Copynumber: 1.9 Consensus size: 36
33239097 AACTCTATTT
33239107 AGTTTAGCAACCTTTTG-GATCTATTCTGACTGATTC
1 AGTTTAGCAACCTTTTGAG-TCTATTCTGACTGATTC
*
33239143 AGTTTAGCAGCCTTTTGAGTCTATTCTGACTGAT
1 AGTTTAGCAACCTTTTGAGTCTATTCTGACTGAT
33239177 GTGCTCCTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 31 0.97
37 1 0.03
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (36 bp):
AGTTTAGCAACCTTTTGAGTCTATTCTGACTGATTC
Found at i:33241975 original size:27 final size:26
Alignment explanation
Indices: 33241945--33242083 Score: 158
Period size: 27 Copynumber: 5.3 Consensus size: 26
33241935 TATAACAGTA
*
33241945 ATTTTTCCCTATGGGGATATTTTGGTC
1 ATTTTACCCTATGGGG-TATTTTGGTC
*
33241972 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTAT-GGGGTATTTTGGTC
* * *
33241999 ATTCTACCTTATGAGGT-TATTT-GTC
1 ATTTTACCCTATGGGGTAT-TTTGGTC
* *
33242024 ATTTTACCTTATAGGGGTATTTCGGTC
1 ATTTTACCCTAT-GGGGTATTTTGGTC
33242051 ATTTTACCCTAT-GGGTATTTTGGTC
1 ATTTTACCCTATGGGGTATTTTGGTC
33242076 ATTTTACC
1 ATTTTACC
33242084 TATTTTAGGG
Statistics
Matches: 96, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
25 35 0.36
26 12 0.12
27 45 0.47
28 4 0.04
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.46
Consensus pattern (26 bp):
ATTTTACCCTATGGGGTATTTTGGTC
Found at i:33242031 original size:25 final size:26
Alignment explanation
Indices: 33241965--33242084 Score: 131
Period size: 25 Copynumber: 4.6 Consensus size: 26
33241955 ATGGGGATAT
* *
33241965 TTTGGTCATTTTACCCTATGGGGGTA
1 TTTGGTCATTTTACCTTATGAGGGTA
* *
33241991 TTTCGGTCATTCTACCTTATGAGGTTA
1 TTT-GGTCATTTTACCTTATGAGGGTA
33242018 TTT-GTCATTTTACCTTAT-AGGGGTA
1 TTTGGTCATTTTACCTTATGA-GGGTA
*
33242043 TTTCGGTCATTTTACCCTAT--GGGTA
1 TTT-GGTCATTTTACCTTATGAGGGTA
33242068 TTTTGGTCATTTTACCT
1 -TTTGGTCATTTTACCT
33242085 ATTTTAGGGT
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
24 1 0.01
25 38 0.47
26 6 0.07
27 36 0.44
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.47
Consensus pattern (26 bp):
TTTGGTCATTTTACCTTATGAGGGTA
Found at i:33242041 original size:52 final size:52
Alignment explanation
Indices: 33241951--33242084 Score: 182
Period size: 52 Copynumber: 2.5 Consensus size: 52
33241941 AGTAATTTTT
* *
33241951 CCCTATGGGGATATTTTGGTCATTTTACCCTATGGGGGTATTTCGGTCATTCTA
1 CCCTAT-GGG-TATTTTGGTCATTTTACCTTATAGGGGTATTTCGGTCATTCTA
* *
33242005 CCTTATGAGGT-TATTT-GTCATTTTACCTTATAGGGGTATTTCGGTCATTTTA
1 CCCTATG-GGTAT-TTTGGTCATTTTACCTTATAGGGGTATTTCGGTCATTCTA
33242057 CCCTATGGGTATTTTGGTCATTTTACCT
1 CCCTATGGGTATTTTGGTCATTTTACCT
33242085 ATTTTAGGGT
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
51 6 0.08
52 53 0.75
53 5 0.07
54 7 0.10
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (52 bp):
CCCTATGGGTATTTTGGTCATTTTACCTTATAGGGGTATTTCGGTCATTCTA
Found at i:33256073 original size:26 final size:26
Alignment explanation
Indices: 33256042--33256116 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 26
33256032 CATATATCTA
33256042 ATAGTCCTCAT-GATCTTCCACATAAG
1 ATAGTCCTCATGGA-CTTCCACATAAG
* * *
33256068 ATAGTCTTGATGGACTTTCACATAAG
1 ATAGTCCTCATGGACTTCCACATAAG
** * *
33256094 ATAGTTTTAATGGGCTTCCACAT
1 ATAGTCCTCATGGACTTCCACAT
33256117 TTACGGTAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 39 0.95
27 2 0.05
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (26 bp):
ATAGTCCTCATGGACTTCCACATAAG
Found at i:33258068 original size:20 final size:21
Alignment explanation
Indices: 33258022--33258069 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
33258012 ATTTTATGGT
33258022 TTTAAATAATTTTTGGGTAAA
1 TTTAAATAATTTTTGGGTAAA
**
33258043 AATAAAT-A-TTTTGGGTTAAA
1 TTTAAATAATTTTTGGG-TAAA
33258063 TTTAAAT
1 TTTAAAT
33258070 TTAAAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
19 7 0.32
20 10 0.45
21 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (21 bp):
TTTAAATAATTTTTGGGTAAA
Found at i:33282002 original size:20 final size:20
Alignment explanation
Indices: 33281977--33282016 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
33281967 ACTAGGAAAA
33281977 ACCTTAATCATCATGTCTCC
1 ACCTTAATCATCATGTCTCC
33281997 ACCTTAATCATCATGTCTCC
1 ACCTTAATCATCATGTCTCC
33282017 CACTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.35, G:0.05, T:0.35
Consensus pattern (20 bp):
ACCTTAATCATCATGTCTCC
Found at i:33285147 original size:14 final size:13
Alignment explanation
Indices: 33285102--33285154 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
33285092 TCATAATGAC
33285102 TAATTGATTTAATT
1 TAATT-ATTTAATT
33285116 TAATT-TTTAAAATT
1 TAATTATTT--AATT
33285130 TAATTATTTAATT
1 TAATTATTTAATT
*
33285143 ATAATTAATTAA
1 -TAATTATTTAA
33285155 ATAATAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 3 0.09
13 4 0.12
14 24 0.71
15 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TAATTATTTAATT
Found at i:33286494 original size:32 final size:32
Alignment explanation
Indices: 33286401--33286603 Score: 230
Period size: 32 Copynumber: 6.4 Consensus size: 32
33286391 GAATGACTAC
* * *
33286401 AAGCCATAAGT-ACAGTAATATGATTAGCACA
1 AAGCCATCAGTAACGGTAATATGATTGGCACA
* * * * **
33286432 AAGCCATTAGTAGCAGTGATATGACCGGCACA
1 AAGCCATCAGTAACGGTAATATGATTGGCACA
33286464 CAA-CCATCAGTAACGGTAATATGATTGGCACA
1 -AAGCCATCAGTAACGGTAATATGATTGGCACA
*** *
33286496 AAATGATCAGTAACGGTAATATGATTGGCATA
1 AAGCCATCAGTAACGGTAATATGATTGGCACA
***
33286528 AAGCCATCAGTAACGGTAATATGATAAACACA
1 AAGCCATCAGTAACGGTAATATGATTGGCACA
*
33286560 AAGCCATCAGTAACGATAATATGATTGGCACA
1 AAGCCATCAGTAACGGTAATATGATTGGCACA
33286592 AAGCCATCAGTA
1 AAGCCATCAGTA
33286604 GCATCGCAGT
Statistics
Matches: 143, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
31 12 0.08
32 129 0.90
33 2 0.01
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATTGGCACA
Found at i:33286818 original size:24 final size:24
Alignment explanation
Indices: 33286791--33286856 Score: 71
Period size: 23 Copynumber: 2.8 Consensus size: 24
33286781 TCGTTTAAAT
33286791 CACAGACAAATCAGTCATACCAAA
1 CACAGACAAATCAGTCATACCAAA
* * ** *
33286815 CACAAACATATCAGTCAT-TTAAC
1 CACAGACAAATCAGTCATACCAAA
*
33286838 CACAGACAAATCAATCATA
1 CACAGACAAATCAGTCATA
33286857 TGACCTTGAG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
23 17 0.52
24 16 0.48
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (24 bp):
CACAGACAAATCAGTCATACCAAA
Found at i:33286904 original size:27 final size:27
Alignment explanation
Indices: 33286870--33287153 Score: 250
Period size: 27 Copynumber: 10.5 Consensus size: 27
33286860 CCTTGAGGGT
*
33286870 ATTACGGTCATTTTATCCTTCAGGGGC
1 ATTACGGTCATTTTATCCTACAGGGGC
* *
33286897 ATTACGGTTATTTTATCCTATAGGGGC
1 ATTACGGTCATTTTATCCTACAGGGGC
*
33286924 ATTACGGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTATCCTACAGGGGC
* * **
33286951 ATTATGATCATTTTA-CCTTACAGGGTT
1 ATTACGGTCATTTTATCC-TACAGGGGC
* * *
33286978 ATTACGGTAATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTATCCTACAGGGGC
* * * *
33287005 ATTACGATCATTTTTTCTTACAGGGGT
1 ATTACGGTCATTTTATCCTACAGGGGC
* *
33287032 ATTACGATCATTTT-TCCCTACAAGGGGT
1 ATTACGGTCATTTTAT-CCTAC-AGGGGC
* *
33287060 ATTACTGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTATCCTACAGGGGC
* * * * **
33287087 ATTACGGTTATTGTAACCTATAGGGAT
1 ATTACGGTCATTTTATCCTACAGGGGC
* *
33287114 ATTACGGTGATTTTA-CCATACAGGGGT
1 ATTACGGTCATTTTATCC-TACAGGGGC
* *
33287141 ATTATGATCATTT
1 ATTACGGTCATTT
33287154 AACAACTTTT
Statistics
Matches: 213, Mismatches: 38, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.02
27 183 0.86
28 25 0.12
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (27 bp):
ATTACGGTCATTTTATCCTACAGGGGC
Found at i:33287016 original size:81 final size:81
Alignment explanation
Indices: 33286870--33287144 Score: 282
Period size: 81 Copynumber: 3.4 Consensus size: 81
33286860 CCTTGAGGGT
* * * * * *
33286870 ATTACGGTCATTTTATCCTT-CAGGGGCATTACGGTTATTTTATCCTATAGGGGCATTACGGTCA
1 ATTACGATCATTTTA-CCTTACAGGGGTATTACGGTAATTTTACCCTACAGGGGCATTACGATCA
33286934 TTTTACCCTACAGGGGC
65 TTTTACCCTACAGGGGC
* * *
33286951 ATTATGATCATTTTACCTTACAGGGTTATTACGGTAATTTTACCCTACAGGGGTATTACGATCAT
1 ATTACGATCATTTTACCTTACAGGGGTATTACGGTAATTTTACCCTACAGGGGCATTACGATCAT
** * *
33287016 TTTTTCTTACAGGGGT
66 TTTACCCTACAGGGGC
* * * * * *
33287032 ATTACGATCATTTTTCCCTACAAGGGGTATTACTGTCATTTTACCCTACAGGGGCATTACGGTTA
1 ATTACGATCATTTTACCTTAC-AGGGGTATTACGGTAATTTTACCCTACAGGGGCATTACGATCA
* * * **
33287097 TTGTAACCTATAGGGAT
65 TTTTACCCTACAGGGGC
* * *
33287114 ATTACGGTGATTTTACCATACAGGGGTATTA
1 ATTACGATCATTTTACCTTACAGGGGTATTA
33287145 TGATCATTTA
Statistics
Matches: 160, Mismatches: 32, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
80 4 0.03
81 91 0.57
82 65 0.41
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (81 bp):
ATTACGATCATTTTACCTTACAGGGGTATTACGGTAATTTTACCCTACAGGGGCATTACGATCAT
TTTACCCTACAGGGGC
Found at i:33298285 original size:20 final size:22
Alignment explanation
Indices: 33298260--33298301 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
33298250 AAAAAAGGGA
33298260 CCATA-TCTCGAGA-CCTTGAC
1 CCATAGTCTCGAGACCCTTGAC
33298280 CCATATGTCTCGAGACCCTTGA
1 CCATA-GTCTCGAGACCCTTGA
33298302 TTGAATTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
22 8 0.42
23 6 0.32
ACGTcount: A:0.24, C:0.33, G:0.17, T:0.26
Consensus pattern (22 bp):
CCATAGTCTCGAGACCCTTGAC
Found at i:33305815 original size:42 final size:41
Alignment explanation
Indices: 33305767--33305933 Score: 217
Period size: 41 Copynumber: 4.0 Consensus size: 41
33305757 AAAGTGCATC
* * *
33305767 CAGGGGTACCGAAGTACAAACAGGGACACATATGTGTAATT
1 CAGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
* * ** * *
33305808 TAGGGGGTACCAAAGTACAAAGAGGGGTACGCATGTGTAATT
1 CA-GGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
* *
33305850 CAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGCAATT
1 CAGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
*
33305891 CAGGGGTACCAAAGTACAAACGGGGACACGTATGTGCAATT
1 CAGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
33305932 CA
1 CA
33305934 ACAATAATAT
Statistics
Matches: 109, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
41 75 0.69
42 34 0.31
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (41 bp):
CAGGGGTACCAAAGTACAAACAGGGACACGTATGTGCAATT
Found at i:33305875 original size:20 final size:20
Alignment explanation
Indices: 33305850--33305915 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
33305840 ATGTGTAATT
33305850 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
33305870 CAGGGGCA-CGTATGTGCAATT
1 CAGGGGTACCG-AAGTACAA-A
*
33305891 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
33305911 C-GGGG
1 CAGGGG
33305916 ACACGTATGT
Statistics
Matches: 34, Mismatches: 9, Indels: 7
0.68 0.18 0.14
Matches are distributed among these distances:
19 6 0.18
20 14 0.41
21 13 0.38
22 1 0.03
ACGTcount: A:0.33, C:0.20, G:0.33, T:0.14
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:33322185 original size:21 final size:19
Alignment explanation
Indices: 33322148--33322187 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
33322138 TAAAAAACCT
*
33322148 AAAAACTTAAGTACAAAAG
1 AAAAACTTAAATACAAAAG
33322167 AAAAACTTAGAATATCAAAAG
1 AAAAACTTA-AATA-CAAAAG
33322188 TTGTCCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 3 0.17
21 6 0.33
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (19 bp):
AAAAACTTAAATACAAAAG
Found at i:33331762 original size:9 final size:9
Alignment explanation
Indices: 33331748--33331778 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33331738 GTTAAACGAA
33331748 TCGAGTTAT
1 TCGAGTTAT
*
33331757 TCGAGTTAA
1 TCGAGTTAT
33331766 TCGAGTTAT
1 TCGAGTTAT
33331775 TCGA
1 TCGA
33331779 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:33331847 original size:9 final size:9
Alignment explanation
Indices: 33331830--33331866 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
33331820 TGAGTTTTTG
33331830 AATTCGAAT
1 AATTCGAAT
*
33331839 AACTCGAAT
1 AATTCGAAT
33331848 AATTCGAAT
1 AATTCGAAT
33331857 AATTCGAAT
1 AATTCGAAT
33331866 A
1 A
33331867 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33332123 original size:30 final size:31
Alignment explanation
Indices: 33332075--33332134 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
33332065 AAACCTTTTA
*
33332075 TTTTGCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTGCCCCAAAACTTTTACTCCCTTCCCAC
*
33332105 TTTT-CCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTGCCCC-AAAACTTTTACTCCCTTCCCA
33332135 TCCCACCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 4 0.15
30 17 0.65
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.02, T:0.40
Consensus pattern (31 bp):
TTTTGCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:33332817 original size:31 final size:31
Alignment explanation
Indices: 33332781--33332848 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
33332771 GAACAGATAT
33332781 ATTCGATTCGAATTCCATCTCACTCGACTCG
1 ATTCGATTCGAATTCCATCTCACTCGACTCG
33332812 ATTCGATTCGAATTCCATCTCACTCGACTCG
1 ATTCGATTCGAATTCCATCTCACTCGACTCG
33332843 ATTCGA
1 ATTCGA
33332849 GAAAACTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (31 bp):
ATTCGATTCGAATTCCATCTCACTCGACTCG
Found at i:33334674 original size:12 final size:12
Alignment explanation
Indices: 33334651--33334689 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
33334641 TATTAACAGT
*
33334651 ACAAGTATAAGA
1 ACAAGAATAAGA
*
33334663 ATAAGAATAAGA
1 ACAAGAATAAGA
*
33334675 ACAAGAACAAGA
1 ACAAGAATAAGA
33334687 ACA
1 ACA
33334690 TGTTTATGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.64, C:0.10, G:0.15, T:0.10
Consensus pattern (12 bp):
ACAAGAATAAGA
Found at i:33336116 original size:28 final size:29
Alignment explanation
Indices: 33336083--33336228 Score: 167
Period size: 28 Copynumber: 5.2 Consensus size: 29
33336073 ATTGACAGTA
*
33336083 CAGTGTTGGCCTTAGCCCAATACAGTAA-
1 CAGTGTGGGCCTTAGCCCAATACAGTAAT
* *
33336111 CAGTGTAGGCCTTAGCCCAATACA-AAAT
1 CAGTGTGGGCCTTAGCCCAATACAGTAAT
*
33336139 CAGTGTGGGCCTTAGTCCAATACAG-AAT
1 CAGTGTGGGCCTTAGCCCAATACAGTAAT
* *
33336167 CAGTGTGGGCCTTAGTCCAATACA-AAAT
1 CAGTGTGGGCCTTAGCCCAATACAGTAAT
* * * *
33336195 GAGTTTAGGCCTTAGCCCAATTCAGTAA-
1 CAGTGTGGGCCTTAGCCCAATACAGTAAT
33336223 CAGTGT
1 CAGTGT
33336229 AGTGCAACAA
Statistics
Matches: 102, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
27 2 0.02
28 98 0.96
29 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (29 bp):
CAGTGTGGGCCTTAGCCCAATACAGTAAT
Found at i:33336159 original size:56 final size:56
Alignment explanation
Indices: 33336083--33336230 Score: 208
Period size: 56 Copynumber: 2.6 Consensus size: 56
33336073 ATTGACAGTA
*
33336083 CAGTGTTGGCCTTAGCCCAATACAGTAACAGTGTAGGCCTTAGCCCAATACAAAAT
1 CAGTGTAGGCCTTAGCCCAATACAGTAACAGTGTAGGCCTTAGCCCAATACAAAAT
* * * *
33336139 CAGTGTGGGCCTTAGTCCAATACAG-AATCAGTGTGGGCCTTAGTCCAATACAAAAT
1 CAGTGTAGGCCTTAGCCCAATACAGTAA-CAGTGTAGGCCTTAGCCCAATACAAAAT
* * *
33336195 GAGTTTAGGCCTTAGCCCAATTCAGTAACAGTGTAG
1 CAGTGTAGGCCTTAGCCCAATACAGTAACAGTGTAG
33336231 TGCAACAATG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
55 2 0.03
56 76 0.95
57 2 0.03
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (56 bp):
CAGTGTAGGCCTTAGCCCAATACAGTAACAGTGTAGGCCTTAGCCCAATACAAAAT
Found at i:33336407 original size:26 final size:26
Alignment explanation
Indices: 33336329--33336407 Score: 104
Period size: 26 Copynumber: 3.0 Consensus size: 26
33336319 AACACACCAA
*
33336329 TATCGCAGCAAAGCTACTAGTAATAG
1 TATCGCAGCAAAGCTACTAGTAACAG
* * * *
33336355 CATCACAGCAAAGCTACCAGTATCAG
1 TATCGCAGCAAAGCTACTAGTAACAG
*
33336381 TATCGCAGCAAAGCTGCTAGTAACAG
1 TATCGCAGCAAAGCTACTAGTAACAG
33336407 T
1 T
33336408 GTATGTGGCA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACTAGTAACAG
Found at i:33336758 original size:81 final size:80
Alignment explanation
Indices: 33336643--33336893 Score: 281
Period size: 81 Copynumber: 3.1 Consensus size: 80
33336633 GGGTATAACA
* * **
33336643 GTCATTTTACCCTATGGGGGTATTTCACTCATTTTACTTTATAGCGGTATTTTGGTCATTTT-CC
1 GTCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATAG-GGTATTTTGGTCATTTTACC
*
33336707 CTTACGGGGGTATTTCG
65 C-TATGGGGGTATTTCG
* * * * *
33336724 GTCATTTT-CCCTTATGGAGGTATTTTAGTAATTTTACCCTATGGGGGAATTTTGGTCATTTTAT
1 GTCATTTTACCC-TATGGGGGTATTTTAGTCATTTTACCCTAT-AGGGTATTTTGGTCATTTTAC
*
33336788 CCTATGAGGGTATTTCG
64 CCTATGGGGGTATTTCG
** * * * *
33336805 ACCATTTTATCCTATGGGGGTATTTTAGTCATCTTACCCTATGAGGGTATTTTAGTAATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTAT-AGGGTATTTTGGTCATTTTACC
*
33336870 CTATGGGGGTATTTCA
65 CTATGGGGGTATTTCG
33336886 GTCATTTT
1 GTCATTTT
33336894 CATCTATTAA
Statistics
Matches: 140, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
80 3 0.02
81 132 0.94
82 5 0.04
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (80 bp):
GTCATTTTACCCTATGGGGGTATTTTAGTCATTTTACCCTATAGGGTATTTTGGTCATTTTACCC
TATGGGGGTATTTCG
Found at i:33336900 original size:27 final size:27
Alignment explanation
Indices: 33336641--33336893 Score: 242
Period size: 27 Copynumber: 9.4 Consensus size: 27
33336631 ATGGGTATAA
33336641 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* ** * *
33336668 CACTCATTTTACTTTATAGCGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** *
33336695 TGGTCATTTT-CCCTTACGGGGGTATTT
1 CAGTCATTTTACCC-TATGGGGGTATTT
* *
33336722 CGGTCATTTT-CCCTTATGGAGGTATTT
1 CAGTCATTTTACCC-TATGGGGGTATTT
* * *
33336749 TAGTAATTTTACCCTATGGGGGAATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** * *
33336776 TGGTCATTTTATCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
33336803 C-GACCATTTTATCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* * *
33336830 TAGTCATCTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
33336857 TAGTAATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
33336884 CAGTCATTTT
1 CAGTCATTTT
33336894 CATCTATTAA
Statistics
Matches: 183, Mismatches: 39, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
26 2 0.01
27 177 0.97
28 4 0.02
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:33337221 original size:19 final size:19
Alignment explanation
Indices: 33337182--33337241 Score: 54
Period size: 20 Copynumber: 3.2 Consensus size: 19
33337172 ATCCGTGTGG
* *
33337182 GGCCCACA-AACCCA-TTG
1 GGCCCACACAGCCCATTTC
*
33337199 GGCCCACACAGCCCATTTT
1 GGCCCACACAGCCCATTTC
33337218 GGCCCA-ACATGGCCCATTTC
1 GGCCCACACA--GCCCATTTC
33337238 GGCC
1 GGCC
33337242 TAAGCCCATG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 8 0.22
18 8 0.22
19 8 0.22
20 12 0.33
ACGTcount: A:0.22, C:0.42, G:0.20, T:0.17
Consensus pattern (19 bp):
GGCCCACACAGCCCATTTC
Found at i:33338324 original size:27 final size:27
Alignment explanation
Indices: 33338294--33338423 Score: 111
Period size: 27 Copynumber: 4.8 Consensus size: 27
33338284 TTTCAGTTTT
*
33338294 GGGGTATTTTAGTCATTTTACTCTATA
1 GGGGTATTTTAGTCATTTTACCCTATA
* * *
33338321 GGGGTATTTCAGTAATTTTACCCTATG
1 GGGGTATTTTAGTCATTTTACCCTATA
* *
33338348 GGGGTATTTCAGTCATTTT-CATCTATTA
1 GGGGTATTTTAGTCATTTTAC-CCTA-TA
* ***
33338376 GAGGTAAAATAGTCATTTTACCCT-TCA
1 GGGGTATTTTAGTCATTTTACCCTAT-A
* *
33338403 GGGGTATTTTGGTTATTTTAC
1 GGGGTATTTTAGTCATTTTAC
33338424 ATATTTTAGG
Statistics
Matches: 80, Mismatches: 19, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
26 2 0.03
27 60 0.75
28 17 0.21
29 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.44
Consensus pattern (27 bp):
GGGGTATTTTAGTCATTTTACCCTATA
Found at i:33339864 original size:33 final size:33
Alignment explanation
Indices: 33339824--33339890 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
33339814 CTTGTACAAC
33339824 TAAGTATTTATGTCCAGTTCCTAACTGTTCCCT
1 TAAGTATTTATGTCCAGTTCCTAACTGTTCCCT
33339857 TAAGTATTTATGTCCAGTTCCTAACTGTTCCCT
1 TAAGTATTTATGTCCAGTTCCTAACTGTTCCCT
33339890 T
1 T
33339891 GCTCAAAACC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (33 bp):
TAAGTATTTATGTCCAGTTCCTAACTGTTCCCT
Found at i:33342776 original size:28 final size:28
Alignment explanation
Indices: 33342745--33342916 Score: 141
Period size: 28 Copynumber: 6.0 Consensus size: 28
33342735 AGCATGCATC
* * *
33342745 AACAGTCTGGGCCTTAGCCCTATTCAGG
1 AACAGTGTGGGCCTTAGCCCAATACAGG
* * *
33342773 AACAGTACAGTGTAGTCCTTAGCCCAATATAGT
1 AACAGT---GTG--GGCCTTAGCCCAATACAGG
* **
33342806 AACAGTGTGGGCCTTAGCTCAATACAAT
1 AACAGTGTGGGCCTTAGCCCAATACAGG
*
33342834 AATAGTGTGGGCCTTAGCCCAATACA-G
1 AACAGTGTGGGCCTTAGCCCAATACAGG
*
33342861 AATCAGTGTGGGCCTTAGCCCAATACA-A
1 AA-CAGTGTGGGCCTTAGCCCAATACAGG
* * *
33342889 AATCTGTGTGGGTCGTAGCCCAATACAG
1 AA-CAGTGTGGGCCTTAGCCCAATACAG
33342917 TAACCGTGCA
Statistics
Matches: 119, Mismatches: 18, Indels: 13
0.79 0.12 0.09
Matches are distributed among these distances:
27 2 0.02
28 92 0.77
30 3 0.03
31 2 0.02
33 20 0.17
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.24
Consensus pattern (28 bp):
AACAGTGTGGGCCTTAGCCCAATACAGG
Found at i:33342856 original size:56 final size:56
Alignment explanation
Indices: 33342780--33342920 Score: 187
Period size: 56 Copynumber: 2.5 Consensus size: 56
33342770 AGGAACAGTA
* * * *
33342780 CAGTGTAGTCCTTAGCCCAATATAGTAACAGTGTGGGCCTTAGCTCAATACAATAAT
1 CAGTGTGGGCCTTAGCCCAATACAGTAACAGTGTGGGCCTTAGCCCAATACAA-AAT
33342837 -AGTGTGGGCCTTAGCCCAATACAG-AATCAGTGTGGGCCTTAGCCCAATACAAAAT
1 CAGTGTGGGCCTTAGCCCAATACAGTAA-CAGTGTGGGCCTTAGCCCAATACAAAAT
* * *
33342892 CTGTGTGGGTCGTAGCCCAATACAGTAAC
1 CAGTGTGGGCCTTAGCCCAATACAGTAAC
33342921 CGTGCAGTGC
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
55 5 0.07
56 67 0.91
57 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (56 bp):
CAGTGTGGGCCTTAGCCCAATACAGTAACAGTGTGGGCCTTAGCCCAATACAAAAT
Found at i:33343010 original size:33 final size:33
Alignment explanation
Indices: 33342973--33343087 Score: 88
Period size: 28 Copynumber: 3.8 Consensus size: 33
33342963 ACATGCAGCA
* * *
33342973 ACAGTCTGGGCCTTAGCCCTATTTAGTGACAGT
1 ACAGTCTGGGCCTTAGCCCAATATAGTAACAGT
* * *
33343006 ACAGTGTGGTCCTTCGCCCAATATAGTAACAGT
1 ACAGTCTGGGCCTTAGCCCAATATAGTAACAGT
* *
33343039 ---G--TGGGCCTTAGCTCAATACAGTAACAGT
1 ACAGTCTGGGCCTTAGCCCAATATAGTAACAGT
33343067 ---G--TGGGCCTTAGCCCAATATAG
1 ACAGTCTGGGCCTTAGCCCAATATAG
33343088 AATCAGTGTG
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
28 42 0.60
30 1 0.01
33 27 0.39
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.27
Consensus pattern (33 bp):
ACAGTCTGGGCCTTAGCCCAATATAGTAACAGT
Found at i:33343042 original size:28 final size:28
Alignment explanation
Indices: 33343006--33343112 Score: 144
Period size: 28 Copynumber: 3.8 Consensus size: 28
33342996 TAGTGACAGT
* *
33343006 ACAGTGTGGTCCTTCGCCCAATATAGTA
1 ACAGTGTGGGCCTTAGCCCAATATAGTA
* *
33343034 ACAGTGTGGGCCTTAGCTCAATACAGTA
1 ACAGTGTGGGCCTTAGCCCAATATAGTA
33343062 ACAGTGTGGGCCTTAGCCCAATATAG-A
1 ACAGTGTGGGCCTTAGCCCAATATAGTA
* *
33343089 ATCAGTGTGGACCTTAGCTCAATA
1 A-CAGTGTGGGCCTTAGCCCAATA
33343113 CCAAATCTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
27 2 0.03
28 68 0.97
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (28 bp):
ACAGTGTGGGCCTTAGCCCAATATAGTA
Found at i:33343095 original size:56 final size:55
Alignment explanation
Indices: 33343001--33343113 Score: 174
Period size: 56 Copynumber: 2.0 Consensus size: 55
33342991 CTATTTAGTG
* * *
33343001 ACAGTACAGTGTGGTCCTTCGCCCAATATAGTAACAGTGTGGGCCTTAGCTCAAT
1 ACAGTACAGTGTGGGCCTTAGCCCAATATAGTAACAGTGTGGACCTTAGCTCAAT
33343056 ACAGTAACAGTGTGGGCCTTAGCCCAATATAG-AATCAGTGTGGACCTTAGCTCAAT
1 ACAGT-ACAGTGTGGGCCTTAGCCCAATATAGTAA-CAGTGTGGACCTTAGCTCAAT
33343112 AC
1 AC
33343114 CAAATCTATG
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
55 7 0.13
56 46 0.87
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (55 bp):
ACAGTACAGTGTGGGCCTTAGCCCAATATAGTAACAGTGTGGACCTTAGCTCAAT
Found at i:33343139 original size:227 final size:227
Alignment explanation
Indices: 33342737--33343191 Score: 759
Period size: 227 Copynumber: 2.0 Consensus size: 227
33342727 CAGTAAACAG
*
33342737 CATGCATCAACAGTCTGGGCCTTAGCCCTATTCAGGAACAGTACAGTGTAGTCCTTAGCCCAATA
1 CATGCAGCAACAGTCTGGGCCTTAGCCCTATTCAGGAACAGTACAGTGTAGTCCTTAGCCCAATA
*
33342802 TAGTAACAGTGTGGGCCTTAGCTCAATACAATAATAGTGTGGGCCTTAGCCCAATACAGAATCAG
66 TAGTAACAGTGTGGGCCTTAGCTCAATACAATAACAGTGTGGGCCTTAGCCCAATACAGAATCAG
* *
33342867 TGTGGGCCTTAGCCCAATACAAAATCTGTGTGGGTCGTAGCCCAATACAGTAACCGTGCAGTGCA
131 TGTGGACCTTAGCCCAATACAAAATCTATGTGGGTCGTAGCCCAATACAGTAACCGTGCAGTGCA
*
33342932 AGAATGTAACCCATCCCAATCCAGCCCACACA
196 AGAATGTAACCCATCCCAATCCAACCCACACA
* * *
33342964 CATGCAGCAACAGTCTGGGCCTTAGCCCTATTTAGTG-ACAGTACAGTGTGGTCCTTCGCCCAAT
1 CATGCAGCAACAGTCTGGGCCTTAGCCCTATTCAG-GAACAGTACAGTGTAGTCCTTAGCCCAAT
* *
33343028 ATAGTAACAGTGTGGGCCTTAGCTCAATACAGTAACAGTGTGGGCCTTAGCCCAATATAGAATCA
65 ATAGTAACAGTGTGGGCCTTAGCTCAATACAATAACAGTGTGGGCCTTAGCCCAATACAGAATCA
* * * *
33343093 GTGTGGACCTTAGCTCAATACCAAATCTATGTTGGTTGTAGCCCAATACAGTAACCGTGCAGTGC
130 GTGTGGACCTTAGCCCAATACAAAATCTATGTGGGTCGTAGCCCAATACAGTAACCGTGCAGTGC
*
33343158 AATAATGTAACCCATCCCAATCCAACCCACACA
195 AAGAATGTAACCCATCCCAATCCAACCCACACA
33343191 C
1 C
33343192 CACTCCGTAC
Statistics
Matches: 212, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
227 211 1.00
228 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (227 bp):
CATGCAGCAACAGTCTGGGCCTTAGCCCTATTCAGGAACAGTACAGTGTAGTCCTTAGCCCAATA
TAGTAACAGTGTGGGCCTTAGCTCAATACAATAACAGTGTGGGCCTTAGCCCAATACAGAATCAG
TGTGGACCTTAGCCCAATACAAAATCTATGTGGGTCGTAGCCCAATACAGTAACCGTGCAGTGCA
AGAATGTAACCCATCCCAATCCAACCCACACA
Found at i:33343332 original size:26 final size:26
Alignment explanation
Indices: 33343253--33343333 Score: 92
Period size: 26 Copynumber: 3.1 Consensus size: 26
33343243 AACACACCAA
* *
33343253 TATCGTAACAAAGCTACCAGTAATAG
1 TATCGCAACAAAGCTGCCAGTAATAG
* * *
33343279 AATCGCAGCAGAGCTGCCAGT-ATCAG
1 TATCGCAACAAAGCTGCCAGTAAT-AG
*
33343305 TATTGCAACAAAGCTGCCAGTAATAG
1 TATCGCAACAAAGCTGCCAGTAATAG
33343331 TAT
1 TAT
33343334 ATGTGGCAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.05
26 40 0.91
27 2 0.05
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (26 bp):
TATCGCAACAAAGCTGCCAGTAATAG
Found at i:33343586 original size:27 final size:27
Alignment explanation
Indices: 33343564--33343897 Score: 334
Period size: 27 Copynumber: 12.4 Consensus size: 27
33343554 ATGGGTATAA
*
33343564 CAGTCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * * *
33343591 C-GATCATTTTACCTTATAGGGGAACTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* * *
33343618 CTGTCATTTTACCCTTTTGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
33343645 C-GATCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* * **
33343672 CAATTATTTTACCCTATCTGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
33343699 CGGTCTTTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** * * *
33343726 TGGTCCTTTTATCCTATTGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
33343753 CAGTTATTTTACCTTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
33343780 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
33343807 CACTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
33343834 C-GATTATTTTACCCTATGAGGATATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* * *
33343861 C-GATCATTTTACCCTCTGAGGTTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
*
33343888 CTGTCATTTT
1 CAGTCATTTT
33343898 CATCTATTAG
Statistics
Matches: 258, Mismatches: 43, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 254 0.98
28 2 0.01
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.45
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:33343948 original size:27 final size:27
Alignment explanation
Indices: 33343537--33343955 Score: 311
Period size: 27 Copynumber: 15.5 Consensus size: 27
33343527 AAGGCCATAA
* * **
33343537 CAGTCATTTTATCTCT-TATGGGTATAA
1 CAGTCATTTTA-CCCTATAGGGGTATTT
33343564 CAGTCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* * *
33343591 C-GATCATTTTACCTTATAGGGGAACTT
1 CAG-TCATTTTACCCTATAGGGGTATTT
* * *
33343618 CTGTCATTTTACCCTTTTGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
*
33343645 C-GATCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATAGGGGTATTT
* * **
33343672 CAATTATTTTACCCTATCTGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* * *
33343699 CGGTCTTTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
** * * *
33343726 TGGTCCTTTTATCCTATTGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
33343753 CAGTTATTTTACCTTAT-GAGGGTATTT
1 CAGTCATTTTACCCTATAG-GGGTATTT
*
33343780 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
33343807 CACTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
33343834 C-GATTATTTTACCCTAT-GAGGATATTT
1 CAG-TCATTTTACCCTATAG-GGGTATTT
* *
33343861 C-GATCATTTTACCCTCT-GAGGTTATTT
1 CAG-TCATTTTACCCTATAG-GGGTATTT
* * **
33343888 CTGTCATTTT-CATCTATTAGGGGTAAAAT
1 CAGTCATTTTAC-CCTA-TAGGGGT-ATTT
33343917 -AGTCATTTTACCCT-TCAGGGGTATTT
1 CAGTCATTTTACCCTAT-AGGGGTATTT
**
33343943 TTGTCATTTTACC
1 CAGTCATTTTACC
33343956 TATTTTGGGG
Statistics
Matches: 322, Mismatches: 53, Indels: 34
0.79 0.13 0.08
Matches are distributed among these distances:
26 11 0.03
27 290 0.90
28 17 0.05
29 4 0.01
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTATAGGGGTATTT
Found at i:33344228 original size:20 final size:19
Alignment explanation
Indices: 33344203--33344246 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 19
33344193 AAGACCATTG
33344203 GGCCCACACA-GCCCATTTT
1 GGCCCA-ACAGGCCCATTTT
33344222 CGGCCCAACATGGCCCATTTT
1 -GGCCCAACA-GGCCCATTTT
33344243 GGCC
1 GGCC
33344247 TAAGCCCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.14
20 10 0.45
21 9 0.41
ACGTcount: A:0.18, C:0.41, G:0.20, T:0.20
Consensus pattern (19 bp):
GGCCCAACAGGCCCATTTT
Found at i:33350502 original size:8 final size:8
Alignment explanation
Indices: 33350489--33350513 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
33350479 TTTTAAATAA
33350489 TATTTTAT
1 TATTTTAT
33350497 TATTTTAT
1 TATTTTAT
33350505 TATTTTAT
1 TATTTTAT
33350513 T
1 T
33350514 GTTTAGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:33352013 original size:2 final size:2
Alignment explanation
Indices: 33352008--33352040 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
33351998 TATATATATA
33352008 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
33352041 TTTATTATTG
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:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:33353234 original size:45 final size:45
Alignment explanation
Indices: 33353170--33353256 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
33353160 CAGATACTCG
* *
33353170 GTGGATTCAACACATAGCAACCACCTTATTAATCAATGATGTCTA
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCTA
* *
33353215 GTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
1 GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGT
33353257 TCGGTTCACA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.28
Consensus pattern (45 bp):
GTGGAATCAACACATAGCAACCACCTTACTAATCAATGATGTCTA
Found at i:33353373 original size:51 final size:50
Alignment explanation
Indices: 33353258--33353452 Score: 187
Period size: 51 Copynumber: 3.9 Consensus size: 50
33353248 TAATGATGTT
* * * * * *
33353258 CGGTTCACATAGTAGCCTGTACGTAGTACTATACATGTGACCATTACCA-TC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA--AACATTC
* * * *
33353309 TGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAAC-TATC
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAACAT-TC
* * * * * *
33353360 CGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTT
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACATTC
*
33353410 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCA
33353453 TCACTTTCAC
Statistics
Matches: 115, Mismatches: 25, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
50 44 0.38
51 69 0.60
52 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
CGGTACACATAGTAGCCTGCACATAGTACTACACACGTGACCAAACATTC
Found at i:33353441 original size:101 final size:101
Alignment explanation
Indices: 33353265--33353449 Score: 282
Period size: 101 Copynumber: 1.8 Consensus size: 101
33353255 GTTCGGTTCA
* * * *
33353265 CATAGTAGCCTGTACGTAGTACTATACATGTGACCATTACCATCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATCTGATACACGTAGTAGCCTGCA
33353330 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTACG
* * *
33353367 CATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTTCGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCT-GATACACGTAGTAGCCTGCA
33353431 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
33353450 CCATCACTTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
100 6 0.08
101 38 0.51
102 31 0.41
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATACCATCTGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTACG
Found at i:33356983 original size:40 final size:40
Alignment explanation
Indices: 33356919--33357004 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
33356909 AAATTGTAGT
*
33356919 TGTACTTTGAGTTAGCTTAAAAGCATTCATTCATTAGGTCG
1 TGTA-TTTAAGTTAGCTTAAAAGCATTCATTCATTAGGTCG
33356960 TGTATTTAAGTTAGCTTAAAAGCATTCATTCATTAGGTCG
1 TGTATTTAAGTTAGCTTAAAAGCATTCATTCATTAGGTCG
33357000 TGTAT
1 TGTAT
33357005 ACTTATGATT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
40 40 0.91
41 4 0.09
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.41
Consensus pattern (40 bp):
TGTATTTAAGTTAGCTTAAAAGCATTCATTCATTAGGTCG
Found at i:33359373 original size:28 final size:28
Alignment explanation
Indices: 33359282--33359359 Score: 138
Period size: 28 Copynumber: 2.8 Consensus size: 28
33359272 AGTAACAGTA
*
33359282 CAGTGTGGGCCTTAGCCCAACACAGAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
33359310 CAGTGTGGGCCTTAGCCCAATACAGAAT
1 CAGTGTGGGCCTTAGCCCAATACAGAAT
*
33359338 CAGTGTGGACCTTAGCCCAATA
1 CAGTGTGGGCCTTAGCCCAATA
33359360 TAGTAACAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (28 bp):
CAGTGTGGGCCTTAGCCCAATACAGAAT
Found at i:33359555 original size:32 final size:32
Alignment explanation
Indices: 33359512--33359716 Score: 250
Period size: 32 Copynumber: 6.4 Consensus size: 32
33359502 ACCAACCCAA
* ** *
33359512 CACACAGCCATCAGTAGCAGTAATATGATTGG
1 CACACAACCATCAGTAATAGTAATATGATCGG
* *
33359544 CACACAACCATCAATAATAGTAGTATGATCGG
1 CACACAACCATCAGTAATAGTAATATGATCGG
* *
33359576 TACA-AAGCCATCAGTAATAGTAATATGATCGA
1 CACACAA-CCATCAGTAATAGTAATATGATCGG
* *
33359608 CACACAACCATCAATAATGGTAATATGATCGG
1 CACACAACCATCAGTAATAGTAATATGATCGG
* *
33359640 CACACAACTATCAGTAATGGTAATATGATCGG
1 CACACAACCATCAGTAATAGTAATATGATCGG
* *
33359672 CACACAACCATCAGTAATGGTAATATGATCGA
1 CACACAACCATCAGTAATAGTAATATGATCGG
* *
33359704 CACAAAACTATCA
1 CACACAACCATCA
33359717 ATTGCATTGC
Statistics
Matches: 151, Mismatches: 20, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
31 2 0.01
32 147 0.97
33 2 0.01
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.22
Consensus pattern (32 bp):
CACACAACCATCAGTAATAGTAATATGATCGG
Found at i:33359631 original size:96 final size:96
Alignment explanation
Indices: 33359531--33359718 Score: 279
Period size: 96 Copynumber: 2.0 Consensus size: 96
33359521 ATCAGTAGCA
* * *
33359531 GTAATATGATTGGCACACAACCATCAATAATAGTAGTATGATCGGTACA-AAGCCATCAGTAATA
1 GTAATATGATCGGCACACAACCATCAATAATAGTAATATGATCGGCACACAA-CCATCAGTAATA
*
33359595 GTAATATGATCGACACACAACCATCAATAATG
65 GTAATATGATCGACACAAAACCATCAATAATG
* * * *
33359627 GTAATATGATCGGCACACAACTATCAGTAATGGTAATATGATCGGCACACAACCATCAGTAATGG
1 GTAATATGATCGGCACACAACCATCAATAATAGTAATATGATCGGCACACAACCATCAGTAATAG
*
33359692 TAATATGATCGACACAAAACTATCAAT
66 TAATATGATCGACACAAAACCATCAAT
33359719 TGCATTGCAG
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
96 80 0.98
97 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (96 bp):
GTAATATGATCGGCACACAACCATCAATAATAGTAATATGATCGGCACACAACCATCAGTAATAG
TAATATGATCGACACAAAACCATCAATAATG
Found at i:33359876 original size:24 final size:24
Alignment explanation
Indices: 33359837--33359946 Score: 114
Period size: 24 Copynumber: 4.6 Consensus size: 24
33359827 CCATGCACGG
** *
33359837 AATCAGTCATACAAATCATAGACA
1 AATCAGTCATTTAAATCACAGACA
*
33359861 AACCAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* *
33359885 AATCAGTCATTTACA-CATCGGACA
1 AATCAGTCATTTAAATCA-CAGACA
* * *
33359909 AATCAATCATTTACATCACAGGCA
1 AATCAGTCATTTAAATCACAGACA
*
33359933 AATCAATCATTTAA
1 AATCAGTCATTTAA
33359947 CCCCGAGGGG
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
23 2 0.03
24 69 0.95
25 2 0.03
ACGTcount: A:0.45, C:0.23, G:0.08, T:0.25
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:33359998 original size:27 final size:27
Alignment explanation
Indices: 33359968--33360299 Score: 357
Period size: 27 Copynumber: 12.3 Consensus size: 27
33359958 AAAATAGTCG
* *
33359968 TTTTACCCTACAAGGGCATTAAGGTTA
1 TTTTACCCTACAAGGGCATTACGGTCA
*
33359995 TTTTACCCTACAGGGGCATTACGGTCA
1 TTTTACCCTACAAGGGCATTACGGTCA
* *
33360022 TTTTATCCTACAAGGGCATTACGGTTA
1 TTTTACCCTACAAGGGCATTACGGTCA
* * *
33360049 TTTTACCCTATAGGGGCATTACAGTCA
1 TTTTACCCTACAAGGGCATTACGGTCA
* ***
33360076 TTTTACCCTACAAGAGCATTACAACCA
1 TTTTACCCTACAAGGGCATTACGGTCA
* *
33360103 TTTTACCCTAC-AGGGACGTTACGATCA
1 TTTTACCCTACAAGGG-CATTACGGTCA
*
33360130 TTTTACCCTACAGGGGCATTACGGTCA
1 TTTTACCCTACAAGGGCATTACGGTCA
* * *
33360157 TTTCACTCTA-TAGGAGCATTACGGTCA
1 TTTTACCCTACAAGG-GCATTACGGTCA
* * *
33360184 TTTTACCCTATAGGGGCGTTACGGTCA
1 TTTTACCCTACAAGGGCATTACGGTCA
* *
33360211 TTTTATCCTA-TAGGAGCATTACGGTCA
1 TTTTACCCTACAAGG-GCATTACGGTCA
*
33360238 TTTTACCCTAC-AGGAGCATTACAGTCA
1 TTTTACCCTACAAGG-GCATTACGGTCA
** *
33360265 TTTTACCCTACCGGGGCGTTACGGTCA
1 TTTTACCCTACAAGGGCATTACGGTCA
33360292 TTTTACCC
1 TTTTACCC
33360300 ATTGAGGCTA
Statistics
Matches: 257, Mismatches: 41, Indels: 14
0.82 0.13 0.04
Matches are distributed among these distances:
26 7 0.03
27 243 0.95
28 7 0.03
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (27 bp):
TTTTACCCTACAAGGGCATTACGGTCA
Found at i:33360321 original size:81 final size:81
Alignment explanation
Indices: 33359968--33360326 Score: 441
Period size: 81 Copynumber: 4.4 Consensus size: 81
33359958 AAAATAGTCG
* * * * * * *
33359968 TTTTACCCTACAAGGGCATTAAGGTTATTTTACCCTACAGGGGCATTACGGTCATTTTATCCTAC
1 TTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGAGCATTACAGTCATTTTACCCTAC
* * *
33360033 AAGGGCATTACGGTTA
66 AGGGGCGTTACGGTCA
* * **
33360049 TTTTACCCTATAGGGGCATTACAGTCATTTTACCCTACAAGAGCATTACAACCATTTTACCCTAC
1 TTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGAGCATTACAGTCATTTTACCCTAC
* *
33360114 AGGGACGTTACGATCA
66 AGGGGCGTTACGGTCA
* * * * * *
33360130 TTTTACCCTACAGGGGCATTACGGTCATTTCACTCTATAGGAGCATTACGGTCATTTTACCCTAT
1 TTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGAGCATTACAGTCATTTTACCCTAC
33360195 AGGGGCGTTACGGTCA
66 AGGGGCGTTACGGTCA
* *
33360211 TTTTATCCTATAGGAGCATTACGGTCATTTTACCCTACAGGAGCATTACAGTCATTTTACCCTAC
1 TTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGAGCATTACAGTCATTTTACCCTAC
*
33360276 CGGGGCGTTACGGTCA
66 AGGGGCGTTACGGTCA
* * * *
33360292 TTTTACCC-ATTGAGGCTATTTCGGACATTTTACCC
1 TTTTACCCTATAGGGGC-ATTACGGTCATTTTACCC
33360327 ATTGGAGGTA
Statistics
Matches: 234, Mismatches: 43, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
80 5 0.02
81 229 0.98
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.33
Consensus pattern (81 bp):
TTTTACCCTATAGGGGCATTACGGTCATTTTACCCTACAGGAGCATTACAGTCATTTTACCCTAC
AGGGGCGTTACGGTCA
Found at i:33360375 original size:27 final size:26
Alignment explanation
Indices: 33360291--33360431 Score: 117
Period size: 27 Copynumber: 5.3 Consensus size: 26
33360281 CGTTACGGTC
* * *
33360291 ATTTTACCCATT-GAGGCTATTTCGGA
1 ATTTTACCC-TTCGAGGGTATTTAGTA
* * *
33360317 CATTTTACCCATTGGA-GGTATTTCGATC
1 -ATTTTACCC-TTCGAGGGTATTTAG-TA
* *
33360345 ATTTTACCCTTCAAGTGTATTATAGTA
1 ATTTTACCCTTCGAGGGTATT-TAGTA
33360372 A-TTTACCCTTCGAGGGTATTTCAGTA
1 ATTTTACCCTTCGAGGGTATTT-AGTA
*
33360398 AGTTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTA-TTTAGTA
33360425 ATTTTAC
1 ATTTTAC
33360432 AAACTTTCTG
Statistics
Matches: 96, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
25 1 0.01
26 25 0.26
27 63 0.66
28 7 0.07
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.41
Consensus pattern (26 bp):
ATTTTACCCTTCGAGGGTATTTAGTA
Found at i:33360381 original size:26 final size:25
Alignment explanation
Indices: 33360347--33360428 Score: 110
Period size: 26 Copynumber: 3.1 Consensus size: 25
33360337 TTTCGATCAT
* *
33360347 TTTACCCTTCAAGTGTATTATAGTAA
1 TTTACCCTTCGAGGGTATT-TAGTAA
33360373 TTTACCCTTCGAGGGTATTTCAGTAA
1 TTTACCCTTCGAGGGTATTT-AGTAA
33360399 GTTTACCCTTCGAGGGTATTTTAGTAA
1 -TTTACCCTTCGAGGGTA-TTTAGTAA
33360426 TTT
1 TTT
33360429 TACAAACTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
25 1 0.02
26 25 0.49
27 22 0.43
28 3 0.06
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (25 bp):
TTTACCCTTCGAGGGTATTTAGTAA
Found at i:33360390 original size:53 final size:53
Alignment explanation
Indices: 33360320--33360428 Score: 132
Period size: 53 Copynumber: 2.1 Consensus size: 53
33360310 TTTCGGACAT
* * * *
33360320 TTTACCCATTGGAGGTATTTC-GATCATTTTACCCTTCAAGTGTATTATAGTAA
1 TTTACCCATTCGAGGTATTTCAG-TAAGTTTACCCTTCAAGGGTATTATAGTAA
* *
33360373 TTTACCC-TTCGAGGGTATTTCAGTAAGTTTACCCTTCGAGGGTATTTTAGTAA
1 TTTACCCATTCGA-GGTATTTCAGTAAGTTTACCCTTCAAGGGTATTATAGTAA
33360426 TTT
1 TTT
33360429 TACAAACTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
52 4 0.08
53 43 0.90
54 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (53 bp):
TTTACCCATTCGAGGTATTTCAGTAAGTTTACCCTTCAAGGGTATTATAGTAA
Found at i:33365187 original size:77 final size:77
Alignment explanation
Indices: 33365094--33365247 Score: 281
Period size: 77 Copynumber: 2.0 Consensus size: 77
33365084 AGGCACAAAC
*
33365094 ACTATAGACATGATTTAAACAAATTTCATTAAATAAATGCAATCATCCTAGCTAAACAAAATTAA
1 ACTATAGACATGATTTAAACAAACTTCATTAAATAAATGCAATCATCCTAGCTAAACAAAATTAA
*
33365159 GCTACCGTTGTT
66 GCTACCATTGTT
*
33365171 ACTATAGACATGATTTAAACAAACTTCATTAAATAAATGCAATCATCCTAGCTAAACGAAATTAA
1 ACTATAGACATGATTTAAACAAACTTCATTAAATAAATGCAATCATCCTAGCTAAACAAAATTAA
33365236 GCTACCATTGTT
66 GCTACCATTGTT
33365248 GATGACAAGA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.31
Consensus pattern (77 bp):
ACTATAGACATGATTTAAACAAACTTCATTAAATAAATGCAATCATCCTAGCTAAACAAAATTAA
GCTACCATTGTT
Found at i:33374820 original size:25 final size:25
Alignment explanation
Indices: 33374760--33374820 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
33374750 CTCCTAAATT
*
33374760 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
33374785 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
33374810 TTAATTAAATT
1 TTAATTAAATT
33374821 TTTGAGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:33378569 original size:21 final size:21
Alignment explanation
Indices: 33378536--33378575 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33378526 GAATGGTTAA
33378536 TTTAATCAATTTAGCTTGAAT
1 TTTAATCAATTTAGCTTGAAT
* * *
33378557 TTTATTCATTTTAGGTTGA
1 TTTAATCAATTTAGCTTGA
33378576 TTGCATTTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.07, G:0.12, T:0.53
Consensus pattern (21 bp):
TTTAATCAATTTAGCTTGAAT
Found at i:33382320 original size:36 final size:36
Alignment explanation
Indices: 33382268--33382339 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
33382258 TAACAGAAGG
33382268 AAGGGGTGAATAGAAATATCACCCAGGTACCAACAT
1 AAGGGGTGAATAGAAATATCACCCAGGTACCAACAT
* *
33382304 AAGGGGTGAATGGAAATATCACCCAGGTACTAACAT
1 AAGGGGTGAATAGAAATATCACCCAGGTACCAACAT
33382340 CCCAACCTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (36 bp):
AAGGGGTGAATAGAAATATCACCCAGGTACCAACAT
Found at i:33391957 original size:24 final size:25
Alignment explanation
Indices: 33391930--33391976 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
33391920 ATTTATCCAT
*
33391930 TTTTTATTTT-ATTTTATTTTTATA
1 TTTTTATTTTAATTTAATTTTTATA
*
33391954 TTTTTGTTTTAATTTAATTTTTA
1 TTTTTATTTTAATTTAATTTTTA
33391977 CACTTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTTATTTTAATTTAATTTTTATA
Found at i:33398087 original size:5 final size:5
Alignment explanation
Indices: 33398072--33398104 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
33398062 TTATTGCATG
33398072 TTAATT TTAAT TTAAT TTAAT TTAAT TTAAT TT
1 TTAA-T TTAAT TTAAT TTAAT TTAAT TTAAT TT
33398105 TAAAAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (5 bp):
TTAAT
Found at i:33398917 original size:28 final size:28
Alignment explanation
Indices: 33398876--33398998 Score: 187
Period size: 28 Copynumber: 4.4 Consensus size: 28
33398866 CTATTCAGTG
33398876 ACAGT-ACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
33398903 ATAGTAACAGTGTGGGCCTTAGCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
33398931 ACAGTAACAGTGTGGGCCTTATCCCAAT
1 ACAGTAACAGTGTGGGCCTTAGCCCAAT
*
33398959 ACAG-AATCGGTGTGGGCCTTAGCCCAAT
1 ACAGTAA-CAGTGTGGGCCTTAGCCCAAT
*
33398987 ACAATAACAGTG
1 ACAGTAACAGTG
33398999 CAGTGCAATA
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
27 6 0.07
28 78 0.91
29 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.23
Consensus pattern (28 bp):
ACAGTAACAGTGTGGGCCTTAGCCCAAT
Found at i:33398941 original size:61 final size:60
Alignment explanation
Indices: 33398843--33399003 Score: 163
Period size: 56 Copynumber: 2.7 Consensus size: 60
33398833 AAACAGCATG
* * * *
33398843 CAGTAACAGTCTAGG-CTTGAGCCCTATTCAGTGACAGTACAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTT-AGCCCAATACAGT-ACAGTACAGTGTGGGCCTTAGCCCAATA
* *
33398904 TAGTAACAGTGTGGGCCTTAGCCCAATACAGT--A--ACAGTGTGGGCCTTATCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATACAGTACAGTACAGTGTGGGCCTTAGCCCAATA
* * *
33398960 CAG-AATCGGTGTGGGCCTTAGCCCAATACAATAACAGTGCAGTG
1 CAGTAA-CAGTGTGGGCCTTAGCCCAATACAGT-ACAGTACAGTG
33399004 CAATAATGCA
Statistics
Matches: 83, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
55 2 0.02
56 48 0.58
58 1 0.01
59 1 0.01
61 28 0.34
62 3 0.04
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (60 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATACAGTACAGTACAGTGTGGGCCTTAGCCCAATA
Found at i:33399130 original size:26 final size:26
Alignment explanation
Indices: 33399101--33399174 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 26
33399091 ACGCACCAAT
33399101 ATCGCAGCAAAGCTGCCAGTAAT-AG
1 ATCGCAGCAAAGCTGCCAGTAATAAG
* *
33399126 CATCGCAGCAGAGCTGCTAGT-ATCAAG
1 -ATCGCAGCAAAGCTGCCAGTAAT-AAG
* *
33399153 ATCACAGCAAAGCTTCCAGTAA
1 ATCGCAGCAAAGCTGCCAGTAA
33399175 CAGTATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
25 2 0.05
26 34 0.87
27 3 0.08
ACGTcount: A:0.35, C:0.26, G:0.22, T:0.18
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGTAATAAG
Found at i:33399433 original size:27 final size:27
Alignment explanation
Indices: 33399387--33399585 Score: 226
Period size: 27 Copynumber: 7.4 Consensus size: 27
33399377 AAGGCCATTA
* *
33399387 CAGTCATTTTATCTCT-TAGGGGTATAAT
1 CAGTCATTTTA-CCCTATAGGGGTAT-TT
*
33399415 -AGTCATTTTACCCTATAGGGTTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* * *
33399441 TAGTCATTTTACACTATAGGGGCATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
*
33399468 C-GATCATTTTACCCTATGGGGGTATTT
1 CAG-TCATTTTACCCTATAGGGGTATTT
*
33399495 CAGTTATTTTACCCTAT-GGGGATATTT
1 CAGTCATTTTACCCTATAGGGG-TATTT
* *
33399522 CGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
* *
33399549 CGGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTATTT
33399576 CAGTCATTTT
1 CAGTCATTTT
33399586 CATCTATTGC
Statistics
Matches: 151, Mismatches: 14, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
26 9 0.06
27 137 0.91
28 5 0.03
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
CAGTCATTTTACCCTATAGGGGTATTT
Found at i:33399592 original size:27 final size:27
Alignment explanation
Indices: 33399415--33399585 Score: 236
Period size: 27 Copynumber: 6.3 Consensus size: 27
33399405 GGGGTATAAT
* * *
33399415 AGTCATTTTACCCTATAGGGTTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
33399442 AGTCATTTTACACTATAGGGGCATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
33399469 -GATCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
* *
33399496 AGTTATTTTACCCTATGGGGATATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
*
33399523 GGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
*
33399550 GGTCATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
33399577 AGTCATTTT
1 AGTCATTTT
33399586 CATCTATTGC
Statistics
Matches: 129, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
26 1 0.01
27 127 0.98
28 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTC
Found at i:33412053 original size:26 final size:26
Alignment explanation
Indices: 33411973--33412055 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
33411963 GATGAACACG
* *
33411973 TGTGTAGTACTATGTGAAGGCTACTG
1 TGTGTAGTACTAAGTGAAGGCTACTA
* * *
33411999 CGTGTATTGA-TAAAT-AATGG-TCAC-A
1 TGTGTAGT-ACTAAGTGAA-GGCT-ACTA
33412024 TGTGTAGTACTAAGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
33412050 TGTGTA
1 TGTGTA
33412056 TCGAAAAGCT
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
24 1 0.02
25 17 0.40
26 23 0.55
27 1 0.02
ACGTcount: A:0.29, C:0.11, G:0.27, T:0.34
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGAAGGCTACTA
Done.