Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01014027.1 Corchorus capsularis cultivar CVL-1 contig14048, 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: 112646
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:9842 original size:31 final size:31
Alignment explanation
Indices: 9773--9874 Score: 123
Period size: 31 Copynumber: 3.3 Consensus size: 31
9763 TCCTTTTGTG
* * **
9773 CACGTGGCATGCCACGTGCCATTTTTTGAAA
1 CACGTGGCATGCCACGTGTCACTTTTTGGTA
*
9804 CATGTGGCATGCCACGTGTCACTTTTTGGTA
1 CACGTGGCATGCCACGTGTCACTTTTTGGTA
* * *
9835 CACGTGGCGTGACATGTGTCACTTTTTGGTA
1 CACGTGGCATGCCACGTGTCACTTTTTGGTA
*
9866 CATGTGGCA
1 CACGTGGCA
9875 CGATTTTTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (31 bp):
CACGTGGCATGCCACGTGTCACTTTTTGGTA
Found at i:18615 original size:23 final size:23
Alignment explanation
Indices: 18585--18635 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
18575 CCAACCGTTT
18585 CAAG-TTTCAACAACTTTAAATC
1 CAAGCTTTCAACAACTTTAAATC
18607 CAAGCTTTCAACAACTTTAAATC
1 CAAGCTTTCAACAACTTTAAATC
18630 CAAGCT
1 CAAGCT
18636 GTCCATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.39, C:0.25, G:0.06, T:0.29
Consensus pattern (23 bp):
CAAGCTTTCAACAACTTTAAATC
Found at i:18681 original size:41 final size:41
Alignment explanation
Indices: 18624--18706 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
18614 TCAACAACTT
18624 TAAATCCAAGCTGTCCATTTCACTAACCTTATCAAGTAGCA
1 TAAATCCAAGCTGTCCATTTCACTAACCTTATCAAGTAGCA
18665 TAAATCCAAGCTGTCCATTTCACTAACCTTATCAAGTAGCA
1 TAAATCCAAGCTGTCCATTTCACTAACCTTATCAAGTAGCA
18706 T
1 T
18707 GTGACGTGTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.30
Consensus pattern (41 bp):
TAAATCCAAGCTGTCCATTTCACTAACCTTATCAAGTAGCA
Found at i:23136 original size:109 final size:109
Alignment explanation
Indices: 22945--23167 Score: 376
Period size: 109 Copynumber: 2.0 Consensus size: 109
22935 AAAGAGGAAT
22945 TTAATAATCTACTCCGCTGTTTTTGGGGAGTGGAGCACACGGGGTTCGGTATAACAAATATCAAC
1 TTAATAATCTACTCCGCTGTTTTTGGGGAGTGGAGCACACGGGGTTCGGTATAACAAATATCAAC
* *
23010 CTTCGCGTCAGTCACGAACCAAAATTATGAGTATGCAAAGCATC
66 CTTCGCGTCAGTCACGAACCAAAATTACGAGTATGCAAAGCACC
* *
23054 TTAATAAAT-TACTCCGCTGTTTTTGGGGTGTGGAGCACACGGGGTTCGGTATCACAAATATCAA
1 TTAAT-AATCTACTCCGCTGTTTTTGGGGAGTGGAGCACACGGGGTTCGGTATAACAAATATCAA
* *
23118 CCTTCGCGTCAGTCACGAATCAAAATTACGAGTATGCAATGCACC
65 CCTTCGCGTCAGTCACGAACCAAAATTACGAGTATGCAAAGCACC
23163 TTAAT
1 TTAAT
23168 TGTGTAAATG
Statistics
Matches: 107, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
109 104 0.97
110 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (109 bp):
TTAATAATCTACTCCGCTGTTTTTGGGGAGTGGAGCACACGGGGTTCGGTATAACAAATATCAAC
CTTCGCGTCAGTCACGAACCAAAATTACGAGTATGCAAAGCACC
Found at i:27725 original size:3 final size:3
Alignment explanation
Indices: 27717--27749 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
27707 ATATATATAT
27717 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
27750 TTACTACCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:27788 original size:3 final size:3
Alignment explanation
Indices: 27780--27813 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
27770 CAAGAACGGG
27780 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
27814 TTACTACCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:27817 original size:64 final size:64
Alignment explanation
Indices: 27717--27844 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
27707 ATATATATAT
27717 ATAATAATAATAATAATAATAATAATAATAATATTACTACCATCAAAGACATGCAAGAACGGGA
1 ATAATAATAATAATAATAATAATAATAATAATATTACTACCATCAAAGACATGCAAGAACGGGA
27781 ATAATAATAATAATAATAATAATAATAATAATATTACTACCATCAAAGACATGCAAGAACGGGA
1 ATAATAATAATAATAATAATAATAATAATAATATTACTACCATCAAAGACATGCAAGAACGGGA
27845 GTCCCGCCAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.55, C:0.11, G:0.09, T:0.25
Consensus pattern (64 bp):
ATAATAATAATAATAATAATAATAATAATAATATTACTACCATCAAAGACATGCAAGAACGGGA
Found at i:32063 original size:17 final size:17
Alignment explanation
Indices: 32043--32076 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32033 AATTTGCTTT
*
32043 TTATCAAAATTTTATAA
1 TTATCAAAATTTCATAA
*
32060 TTATTAAAATTTCATAA
1 TTATCAAAATTTCATAA
32077 AAAAATGTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATCAAAATTTCATAA
Found at i:33166 original size:116 final size:117
Alignment explanation
Indices: 33021--33233 Score: 383
Period size: 117 Copynumber: 1.8 Consensus size: 117
33011 GGGTCTCCGT
* * *
33021 CCTCCGACCTGCCTTGATAATCTCGAAGCTCT-GGTAATTGTTGGAAAAATATTGTTGTCGTCAT
1 CCTCCAACATGCCTTAATAATCTCGAAGCTCTGGGTAATTGTTGGAAAAATATTGTTGTCGTCAT
33085 CCAATTGCAACCCCACGAGCTCTCCAATTGCAGCTTAATAATAATTTCTAAG
66 CCAATTGCAACCCCACGAGCTCTCCAATTGCAGCTTAATAATAATTTCTAAG
*
33137 CCTCCAACATGCCTTAATAATCTCGAAGCTCTGGGTAATTGTTGGAAAAGTATTGTTGTCGTCAT
1 CCTCCAACATGCCTTAATAATCTCGAAGCTCTGGGTAATTGTTGGAAAAATATTGTTGTCGTCAT
33202 CCAATTGCAACCCCACGAGCTCTCCAATTGCA
66 CCAATTGCAACCCCACGAGCTCTCCAATTGCA
33234 AGCCCACTCT
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
116 29 0.32
117 63 0.68
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (117 bp):
CCTCCAACATGCCTTAATAATCTCGAAGCTCTGGGTAATTGTTGGAAAAATATTGTTGTCGTCAT
CCAATTGCAACCCCACGAGCTCTCCAATTGCAGCTTAATAATAATTTCTAAG
Found at i:33983 original size:146 final size:146
Alignment explanation
Indices: 33719--34015 Score: 540
Period size: 146 Copynumber: 2.0 Consensus size: 146
33709 ACATTATGTC
*
33719 GAATTGGACTGATTAACCAAGGGGATGCATGCCGTTTCTAATAACATGCCTTCATAATGTTTTCT
1 GAATTGGACTGATTAACCAAGGGGATGCATGCCGTTTCCAATAACATGCCTTCATAATGTTTTCT
* *
33784 TTAGCTCATGGCATGTTCTTGGCCGACTCAGTTTATAACCTTTCCGTAGTTTTCAATTAAGGACA
66 TTAGCTCATGGCATGTTCCTGGCCGACTCAGTTTATAACCTTTCCGCAGTTTTCAATTAAGGACA
33849 CGGGCTCGGAAAAGGT
131 CGGGCTCGGAAAAGGT
*
33865 GAATTGGCCTGATTAACCAAGGGGATGCATGCCGTTTCCAATAACATGCCTTCATAATGTTTTCT
1 GAATTGGACTGATTAACCAAGGGGATGCATGCCGTTTCCAATAACATGCCTTCATAATGTTTTCT
*
33930 TTAGCTCATGGCATGTTCCTGGCCGACTCAGTTTATAACCTTTCCGCAGTTTTCAATTAAGGATA
66 TTAGCTCATGGCATGTTCCTGGCCGACTCAGTTTATAACCTTTCCGCAGTTTTCAATTAAGGACA
*
33995 CGGGTTCGGAAAAGGT
131 CGGGCTCGGAAAAGGT
34011 GAATT
1 GAATT
34016 TTAAGCAAGA
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
146 145 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (146 bp):
GAATTGGACTGATTAACCAAGGGGATGCATGCCGTTTCCAATAACATGCCTTCATAATGTTTTCT
TTAGCTCATGGCATGTTCCTGGCCGACTCAGTTTATAACCTTTCCGCAGTTTTCAATTAAGGACA
CGGGCTCGGAAAAGGT
Found at i:34224 original size:25 final size:25
Alignment explanation
Indices: 34196--34247 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
34186 ATTTCAAGCC
*
34196 AAGAGATCCACATTGGCTATAGGTT
1 AAGAGATCCACATTGGCTATAGCTT
34221 AAGAGATCCACATTGGCTATAGCTT
1 AAGAGATCCACATTGGCTATAGCTT
34246 AA
1 AA
34248 TGGTGAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (25 bp):
AAGAGATCCACATTGGCTATAGCTT
Found at i:35170 original size:22 final size:22
Alignment explanation
Indices: 35139--35262 Score: 124
Period size: 22 Copynumber: 5.6 Consensus size: 22
35129 TATAGGTAGA
* * *
35139 TTATCAAAATTTCACACTGAGG
1 TTATCGAAATTTCATAGTGAGG
* *
35161 TTATCGAAATTTCATGGTGTGG
1 TTATCGAAATTTCATAGTGAGG
* * * *
35183 TTACCAAAATTTCACAGTGTGG
1 TTATCGAAATTTCATAGTGAGG
*
35205 TTATC-AAATTTTCATAGGGAGG
1 TTATCGAAA-TTTCATAGTGAGG
*
35227 TTATCGAAATTTCATAATGAGG
1 TTATCGAAATTTCATAGTGAGG
*
35249 TTATCGAATTTTCA
1 TTATCGAAATTTCA
35263 AAATGTGGTT
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
21 3 0.04
22 78 0.93
23 3 0.04
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (22 bp):
TTATCGAAATTTCATAGTGAGG
Found at i:35192 original size:44 final size:44
Alignment explanation
Indices: 35124--35262 Score: 140
Period size: 44 Copynumber: 3.2 Consensus size: 44
35114 GTAATTATTA
* * * *
35124 AAATTT-ATAGGTAGATTATCAAAATTTCACACTGAGGTTATCG
1 AAATTTCATAGGGAGGTTACCAAAATTTCACAATGAGGTTATCG
* * *
35167 AAATTTCAT-GGTGTGGTTACCAAAATTTCACAGTGTGGTTATC-
1 AAATTTCATAGG-GAGGTTACCAAAATTTCACAATGAGGTTATCG
* * *
35210 AAATTTTCATAGGGAGGTTATCGAAATTTCATAATGAGGTTATCG
1 AAA-TTTCATAGGGAGGTTACCAAAATTTCACAATGAGGTTATCG
*
35255 AATTTTCA
1 AAATTTCA
35263 AAATGTGGTT
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
43 11 0.14
44 63 0.81
45 4 0.05
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (44 bp):
AAATTTCATAGGGAGGTTACCAAAATTTCACAATGAGGTTATCG
Found at i:35209 original size:66 final size:66
Alignment explanation
Indices: 35139--35283 Score: 173
Period size: 66 Copynumber: 2.2 Consensus size: 66
35129 TATAGGTAGA
* ** * * *
35139 TTATCAAAATTTCACACTGAGGTTATCGAAATTTCATGGTGTGGTTACCAAAATTTCACAGTGTG
1 TTATCAAAATTTCACACGGAGGTTATCGAAATTTCATAATGAGGTTACCAAAATTTCAAAATGTG
35204 G
66 G
* * * * * *
35205 TTATCAAATTTTCATAGGGAGGTTATCGAAATTTCATAATGAGGTTATCGAATTTTCAAAATGTG
1 TTATCAAAATTTCACACGGAGGTTATCGAAATTTCATAATGAGGTTACCAAAATTTCAAAATGTG
35270 G
66 G
*
35271 TTATCAATATTTC
1 TTATCAAAATTTC
35284 TACATTGGAA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (66 bp):
TTATCAAAATTTCACACGGAGGTTATCGAAATTTCATAATGAGGTTACCAAAATTTCAAAATGTG
G
Found at i:35267 original size:22 final size:22
Alignment explanation
Indices: 35156--35283 Score: 96
Period size: 22 Copynumber: 5.8 Consensus size: 22
35146 AATTTCACAC
* **
35156 TGAGGTTATCGAAATTTCATGG
1 TGAGGTTATCGAATTTTCATAA
* * * * * *
35178 TGTGGTTACCAAAATTTCACAG
1 TGAGGTTATCGAATTTTCATAA
* * *
35200 TGTGGTTATCAAATTTTCATAG
1 TGAGGTTATCGAATTTTCATAA
* *
35222 GGAGGTTATCGAAATTTCATAA
1 TGAGGTTATCGAATTTTCATAA
*
35244 TGAGGTTATCGAATTTTCAAAA
1 TGAGGTTATCGAATTTTCATAA
*
35266 TGTGGTTATC-AATATTTC
1 TGAGGTTATCGAAT-TTTC
35284 TACATTGGAA
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
21 3 0.03
22 85 0.97
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (22 bp):
TGAGGTTATCGAATTTTCATAA
Found at i:35273 original size:44 final size:44
Alignment explanation
Indices: 35139--35283 Score: 164
Period size: 44 Copynumber: 3.3 Consensus size: 44
35129 TATAGGTAGA
* * *
35139 TTATCAAAATTTCACACTGAGGTTATCGAAATTTCATGGTGTGG
1 TTATCAAAATTTCACAATGAGGTTATCGAATTTTCATAGTGTGG
* * * * * *
35183 TTACCAAAATTTCACAGTGTGGTTATCAAATTTTCATAGGGAGG
1 TTATCAAAATTTCACAATGAGGTTATCGAATTTTCATAGTGTGG
* * * *
35227 TTATCGAAATTTCATAATGAGGTTATCGAATTTTCAAAATGTGG
1 TTATCAAAATTTCACAATGAGGTTATCGAATTTTCATAGTGTGG
*
35271 TTATCAATATTTC
1 TTATCAAAATTTC
35284 TACATTGGAA
Statistics
Matches: 81, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
44 81 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (44 bp):
TTATCAAAATTTCACAATGAGGTTATCGAATTTTCATAGTGTGG
Found at i:35886 original size:141 final size:141
Alignment explanation
Indices: 35713--35981 Score: 459
Period size: 141 Copynumber: 1.9 Consensus size: 141
35703 AGTTTTCTTC
**
35713 AAAACCTAAAACCTCAACTTCACGATTTTGTGCGTTTTTGCGCGGAACATTATTTATTTGAAAAT
1 AAAACCTAAAACCTCAACTTCAAAATTTTGTGCGTTTTTGCGCGGAACATTATTTATTTGAAAAT
* * * * *
35778 GATGAGAATGATTT-TTTCTTTTTTTAAACTAACGCTCTAATTTCATGTATCGAAGTTAGTAGAA
66 GATCAGAATGATTTCCTT-TTTTTTTAAACCAACACTCTAATGTCATGTATCGAAGTTAGTAGAA
35842 TTTATTCTTTTT
130 TTTATTCTTTTT
35854 AAAACCTAAAACCTCAACTTCAAAATTTTGTGCGTTTTTGCGCGGAACATTATTTATTTGAAAAT
1 AAAACCTAAAACCTCAACTTCAAAATTTTGTGCGTTTTTGCGCGGAACATTATTTATTTGAAAAT
35919 GATCAGAATGATTTCCTTTTTTTTTAAACCAACACTCTAATGTCATGTATCGAAGTTAGTAGA
66 GATCAGAATGATTTCCTTTTTTTTTAAACCAACACTCTAATGTCATGTATCGAAGTTAGTAGA
35982 GCTTATTGGA
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
141 118 0.98
142 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (141 bp):
AAAACCTAAAACCTCAACTTCAAAATTTTGTGCGTTTTTGCGCGGAACATTATTTATTTGAAAAT
GATCAGAATGATTTCCTTTTTTTTTAAACCAACACTCTAATGTCATGTATCGAAGTTAGTAGAAT
TTATTCTTTTT
Found at i:41979 original size:14 final size:14
Alignment explanation
Indices: 41939--41985 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
41929 TGAAAAATAG
*
41939 TAAAATGGTAAAAA
1 TAAAATGGTAAAAT
* * *
41953 TAAACT-TTTAAAT
1 TAAAATGGTAAAAT
41966 TAAAATGGTAAAAT
1 TAAAATGGTAAAAT
41980 TAAAAT
1 TAAAAT
41986 AATCATAAAA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.57, C:0.02, G:0.09, T:0.32
Consensus pattern (14 bp):
TAAAATGGTAAAAT
Found at i:42178 original size:151 final size:148
Alignment explanation
Indices: 41897--42166 Score: 350
Period size: 151 Copynumber: 1.8 Consensus size: 148
41887 TAAAACTGTT
* *
41897 TATTAAAGATTTTAATATATTCAAGTTTTTAATGAAAAATAGTAAAATGGTAAAAATAAACTTTT
1 TATTAAAAATTTTAATATATCCAAGTTTTTAATGAAAAATAGTAAAATGGTAAAAATAAACTTTT
* * * *
41962 AAATTAAAATGGTAAAATTAAAATAATCATAAAAATATTGAATTTAATTAAATGAAAATAGAGTT
66 AAATAAAAATGATAAAATTAAAATAA-CATAAAAATA-TGAATTTAAGTAAATCAAAATAGAGTT
42027 TTTAGTAGAATCAAACTATA
129 TTTAGTAGAATCAAACTATA
*
42047 TATTAAAAAATTTTAATATATCCAAGTTTTTAATGAAAAATAGTAAAATGGTAAAAATAAAGTTA
1 TATT-AAAAATTTTAATATATCCAAGTTTTTAATGAAAAATAGTAAAATGGTAAAAATAAACTT-
* * * * *
42112 TT-TATAAAAAT-ATTAAATTTAATTAA-ATAAAAATA-GAGTTTTAAGTAGAATCAAA
64 TTAAATAAAAATGATAAAATTAAAATAACATAAAAATATGA-ATTTAAGTA-AATCAAA
42167 CTATAATAGT
Statistics
Matches: 104, Mismatches: 12, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
146 2 0.02
147 7 0.07
148 15 0.14
150 15 0.14
151 63 0.61
152 2 0.02
ACGTcount: A:0.52, C:0.03, G:0.09, T:0.36
Consensus pattern (148 bp):
TATTAAAAATTTTAATATATCCAAGTTTTTAATGAAAAATAGTAAAATGGTAAAAATAAACTTTT
AAATAAAAATGATAAAATTAAAATAACATAAAAATATGAATTTAAGTAAATCAAAATAGAGTTTT
TAGTAGAATCAAACTATA
Found at i:43038 original size:150 final size:150
Alignment explanation
Indices: 42762--43068 Score: 499
Period size: 150 Copynumber: 2.0 Consensus size: 150
42752 ATTTATACAC
*
42762 CGGTGTAAATTTTGGACCGCACAAGTGGGTTATGGAGTTGACACATGTCCATCTTTTGAATTAAT
1 CGGTGTAAATTTTGGACCGCACAAGCGGGTTATGGAGTTGACACATGTCCATCTTTTGAATTAAT
* * * * *
42827 TAAGTTTTAAATATTTCAATCTAGTTCCTAGGGGACACATGTCACCCTTCAGGATCTGCTTGTAT
66 TAAGTTTTAAATATTTCAATCTAATCCCTAGGGGACACATGTCACCCTTCAGAACCCGCTTGTAT
*
42892 AGTCTGCTAAACTCCACTGA
131 AGTCTGCTAAACTCCACCGA
* *
42912 CGGTGTAAATTTTGGATTC-CACAAGCGGGTTGTGGAGTTGACACATGTCCATCTTTTGAATTAA
1 CGGTGTAAATTTTGGA-CCGCACAAGCGGGTTATGGAGTTGACACATGTCCATCTTTTGAATTAA
42976 TTAAGTTTTAAATATTTCAATCTAATCCCTAGGGGACACATGTCACCCTTCAGAACCCGCTTGTA
65 TTAAGTTTTAAATATTTCAATCTAATCCCTAGGGGACACATGTCACCCTTCAGAACCCGCTTGTA
* *
43041 TAGTCTGGTAAATTCCACCGA
130 TAGTCTGCTAAACTCCACCGA
43062 CGGTGTA
1 CGGTGTA
43069 TTGAATATTT
Statistics
Matches: 145, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
150 144 0.99
151 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (150 bp):
CGGTGTAAATTTTGGACCGCACAAGCGGGTTATGGAGTTGACACATGTCCATCTTTTGAATTAAT
TAAGTTTTAAATATTTCAATCTAATCCCTAGGGGACACATGTCACCCTTCAGAACCCGCTTGTAT
AGTCTGCTAAACTCCACCGA
Found at i:45435 original size:20 final size:22
Alignment explanation
Indices: 45397--45437 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
45387 AAAATAACTG
45397 AAATAAAAATATAATATATATA
1 AAATAAAAATATAATATATATA
45419 AAATAAAAAT-T-ATATATAT
1 AAATAAAAATATAATATATAT
45438 TATCAGGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 10 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATAAAAATATAATATATATA
Found at i:50920 original size:74 final size:73
Alignment explanation
Indices: 50831--51159 Score: 464
Period size: 73 Copynumber: 4.5 Consensus size: 73
50821 TGGCAAGTAA
*
50831 GGCGTTTTCAACTTCTGTTTTAGCTGACTGAAATGGCAATTCGGTGTTTATGCAGAATGGGCACA
1 GGCGTTTTCAACTTCTGTTTTAGCTGACTGAAATGGCAATTCAGTGTTTATGCAGAATGGGCACA
*
50896 ATAGGCTGG
66 ACAGGCT-G
*
50905 GGCGTTTTCAACTTCTGTTTTAG-TGGACTGAAATGGCAATTCAGTGTTTATGCATAATGGGCAC
1 GGCGTTTTCAACTTCTGTTTTAGCT-GACTGAAATGGCAATTCAGTGTTTATGCAGAATGGGCAC
*
50969 AACATGCTG
65 AACAGGCTG
** * * *
50978 AACGTTTTTAACTTCTGTTTTAGCCGACTGAAATGGCAATTCAGTTTTTATGCAGAATGGGCACA
1 GGCGTTTTCAACTTCTGTTTTAGCTGACTGAAATGGCAATTCAGTGTTTATGCAGAATGGGCACA
51043 ACAGGCTG
66 ACAGGCTG
* * *
51051 GGCGTTTTCAACTTCTATTTTAGCTGACTGAAATAGCAATTCACTGTTTATGCAGAATGGGCACA
1 GGCGTTTTCAACTTCTGTTTTAGCTGACTGAAATGGCAATTCAGTGTTTATGCAGAATGGGCACA
* * *
51116 ATAGCCAG
66 ACAGGCTG
* *
51124 AGCGTTTTCAACTTCTGTTTAAGTCT-ACTGAAATGG
1 GGCGTTTTCAACTTCTGTTTTAG-CTGACTGAAATGG
51160 TCCATTTCCC
Statistics
Matches: 226, Mismatches: 26, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
73 158 0.70
74 68 0.30
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.33
Consensus pattern (73 bp):
GGCGTTTTCAACTTCTGTTTTAGCTGACTGAAATGGCAATTCAGTGTTTATGCAGAATGGGCACA
ACAGGCTG
Found at i:52109 original size:32 final size:32
Alignment explanation
Indices: 52067--52144 Score: 79
Period size: 32 Copynumber: 2.4 Consensus size: 32
52057 TTTCCCAATT
*
52067 TTGTCTTCATTTACAATTAATCA-CTTGCAAAA
1 TTGTTTTCATTTACAATTAAT-AGCTTGCAAAA
** * *
52099 TTGTTTTCATTTGTAATTAATAGCTTGTAAAT
1 TTGTTTTCATTTACAATTAATAGCTTGCAAAA
52131 TTGTTTGT-ATTTAC
1 TTGTTT-TCATTTAC
52145 TTGTAAATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
31 1 0.03
32 35 0.95
33 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (32 bp):
TTGTTTTCATTTACAATTAATAGCTTGCAAAA
Found at i:52147 original size:22 final size:24
Alignment explanation
Indices: 52122--52179 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 24
52112 TAATTAATAG
52122 CTTGTAAATTTGT-TTGTATTT-A
1 CTTGTAAATTTGTCTTGTATTTCA
*
52144 CTTGTAAATTTGTCTTGTTTTTCA
1 CTTGTAAATTTGTCTTGTATTTCA
* *
52168 ATCGTAAATTTG
1 CTTGTAAATTTG
52180 GCTTCACTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 13 0.42
23 7 0.23
24 11 0.35
ACGTcount: A:0.22, C:0.09, G:0.14, T:0.55
Consensus pattern (24 bp):
CTTGTAAATTTGTCTTGTATTTCA
Found at i:52178 original size:24 final size:22
Alignment explanation
Indices: 52125--52179 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 22
52115 TTAATAGCTT
* *
52125 GTAAATTTGTTTGTATTTACTT
1 GTAAATTTGTTTGTATTTAATC
*
52147 GTAAATTTGTCTTGTTTTTCAATC
1 GTAAATTTGT-TTGTATTT-AATC
52171 GTAAATTTG
1 GTAAATTTG
52180 GCTTCACTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 10 0.36
23 7 0.25
24 11 0.39
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.55
Consensus pattern (22 bp):
GTAAATTTGTTTGTATTTAATC
Found at i:54704 original size:2 final size:2
Alignment explanation
Indices: 54697--54735 Score: 69
Period size: 2 Copynumber: 19.0 Consensus size: 2
54687 TAGCCAATTG
54697 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT
54736 TACATAGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:58907 original size:22 final size:21
Alignment explanation
Indices: 58881--58933 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 21
58871 TGCTTTCTGA
58881 TTAATTGTTTCGTTTAATTTTC-
1 TTAATTGTTTC--TTAATTTTCT
58903 TTAATTGCTTTCTTAATTTTCT
1 TTAATTG-TTTCTTAATTTTCT
58925 TTAATTGTT
1 TTAATTGTT
58934 CTGTGCGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 11 0.38
22 14 0.48
23 4 0.14
ACGTcount: A:0.19, C:0.09, G:0.08, T:0.64
Consensus pattern (21 bp):
TTAATTGTTTCTTAATTTTCT
Found at i:62474 original size:15 final size:15
Alignment explanation
Indices: 62454--62483 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62444 CAAGTTGTTT
62454 TTTTTTTTGAAAGAA
1 TTTTTTTTGAAAGAA
*
62469 TTTTTTTTTAAAGAA
1 TTTTTTTTGAAAGAA
62484 AAACAATGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (15 bp):
TTTTTTTTGAAAGAA
Found at i:62474 original size:16 final size:15
Alignment explanation
Indices: 62453--62483 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
62443 GCAAGTTGTT
62453 TTTTTTTTTGAAAGAA
1 TTTTTTTTT-AAAGAA
62469 TTTTTTTTTAAAGAA
1 TTTTTTTTTAAAGAA
62484 AAACAATGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (15 bp):
TTTTTTTTTAAAGAA
Found at i:65900 original size:444 final size:441
Alignment explanation
Indices: 65070--65902 Score: 1191
Period size: 444 Copynumber: 1.9 Consensus size: 441
65060 ACTAAGTATT
*
65070 ATAAAGTAGAAAAGTATGAGGGTCAGCTGATAAATAATCCAAATAAGAAAATGTTTGTTGATAGA
1 ATAAAGTAGAAAAATATGAGGGTCAGCTGATAAATAATCCAAATAAGAAAATGTTTGTTGATAGA
* * *
65135 GGTCTTGAAACATAAAAATTCCCTTTTGAACCCTTCATGAAACTTGTAGATCAAATTTAACTTTT
66 GATCTTGAAACATAAAAATTCCCTTTTGAACCCTTAATGAAACTCGTAGATCAAATTTAACTTTT
* * * *
65200 GGGTCCTTCATGAAAGTCGTAGATCACGCAATAACCTTTAGCCGACACTTAAATAACTTTAATCG
131 GGGTCCTTCATAAAAGTCGTAGATCACGCAATAACCTTTAACCGACACTTAAATAACATTAATCA
** * *
65265 GATATGTGGATTCAAAATTATATAGTATTAAATAGACCGGCAATCAATCGAAACCACCAAATTTG
196 GATATGTGGATAAAAAATTATATAGTATTAAATAGACCGACAATCAA-C-AAACCACCAAATTTC
* * *
65330 GGAAGCAATTTTTTTCAATTGAAAAATAAAAATTGGCTTTTGAGTCCTTCATGAAATTAAGTTAG
259 GGAAGCAATTTTTTTCAACTGAAAAATAAAAATTGACTTTTGAATCCTTCATGAAATT-AGTTAG
* * * *
65395 AGATCATGAAATTACCTTTTAATAGACACCTGAATCACCTAAATCAGATAAATAGAAAAAAATAA
323 AGATCACGAAATTACATTTTAATAAACACCTGAATCACCTAAATCAGAAAAATAGAAAAAAATAA
65460 ATATAGTTTAAGCGTTAAATCAATTAAGATAGAATTAGTAAATAAATAAGTAGC
388 ATATAGTTTAAGCGTTAAATCAATTAAGATAGAATTAGTAAATAAATAAGTAGC
* **
65514 ATAAAGTAGAAAAATATGAGTGTCATTTGATAAATAATCCAAATAAGAAAATGTTTGTTGAT-GT
1 ATAAAGTAGAAAAATATGAGGGTCAGCTGATAAATAATCCAAATAAGAAAATGTTTGTTGATAG-
* **
65578 AGATCTTGAAATATAAAAATTCCCTTTTGAACCCTTAATGAAACTCGTAGATCAAATTTGGCTTT
65 AGATCTTGAAACATAAAAATTCCCTTTTGAACCCTTAATGAAACTCGTAGATCAAATTTAACTTT
* * *
65643 TGGGTCCTTCATAAAAGTCGTAGATCATGCAATAACTTTTTAACCGACACTTGAATAACATTAAT
130 TGGGTCCTTCATAAAAGTCGTAGATCACGCAATAAC-CTTTAACCGACACTTAAATAACATTAAT
65708 CAGATATGTGGATAAAAAATTATAT-GATATTAAATAGACCGACAAT-AA-AAACCACCAAATTT
194 CAGATATGTGGATAAAAAATTATATAG-TATTAAATAGACCGACAATCAACAAACCACCAAA-TT
* *
65770 TCGGAAGC-ATTTTTTTGAACTGAAACATAAAAATTGACTTTTGAATCCTTCATGAAAGTT-G-T
257 TCGGAAGCAATTTTTTTCAACTGAAAAATAAAAATTGACTTTTGAATCCTTCATGAAA-TTAGTT
* * *
65832 A-A-ATCACGAAATTACATTTTAATAAATACTTGAATCACCTAATTAATCGGAAAAATAGAAGAA
321 AGAGATCACGAAATTACATTTTAATAAACACCTGAATCACCT-A--AATCAGAAAAATAGAA-AA
65895 AAA-AAATA
382 AAATAAATA
65903 CCTAAAACGT
Statistics
Matches: 347, Mismatches: 33, Indels: 22
0.86 0.08 0.05
Matches are distributed among these distances:
437 33 0.10
438 2 0.01
439 2 0.01
440 20 0.06
441 60 0.17
442 11 0.03
443 1 0.00
444 154 0.44
445 64 0.18
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (441 bp):
ATAAAGTAGAAAAATATGAGGGTCAGCTGATAAATAATCCAAATAAGAAAATGTTTGTTGATAGA
GATCTTGAAACATAAAAATTCCCTTTTGAACCCTTAATGAAACTCGTAGATCAAATTTAACTTTT
GGGTCCTTCATAAAAGTCGTAGATCACGCAATAACCTTTAACCGACACTTAAATAACATTAATCA
GATATGTGGATAAAAAATTATATAGTATTAAATAGACCGACAATCAACAAACCACCAAATTTCGG
AAGCAATTTTTTTCAACTGAAAAATAAAAATTGACTTTTGAATCCTTCATGAAATTAGTTAGAGA
TCACGAAATTACATTTTAATAAACACCTGAATCACCTAAATCAGAAAAATAGAAAAAAATAAATA
TAGTTTAAGCGTTAAATCAATTAAGATAGAATTAGTAAATAAATAAGTAGC
Found at i:66759 original size:54 final size:54
Alignment explanation
Indices: 66697--66861 Score: 303
Period size: 54 Copynumber: 3.1 Consensus size: 54
66687 TATATATACA
*
66697 AATAGATTCCGTAACATTTTATTATATGTAACTTTTATAAGTAATTTTGTTTTT
1 AATAGATTCTGTAACATTTTATTATATGTAACTTTTATAAGTAATTTTGTTTTT
* *
66751 AATAGATTCTGTAACATGTTATTATATCTAACTTTTATAAGTAATTTTGTTTTT
1 AATAGATTCTGTAACATTTTATTATATGTAACTTTTATAAGTAATTTTGTTTTT
66805 AATAGATTCTGTAACATTTTATTATATGTAACTTTTATAAGTAATTTTGTTTTT
1 AATAGATTCTGTAACATTTTATTATATGTAACTTTTATAAGTAATTTTGTTTTT
66859 AAT
1 AAT
66862 TTCATTAATA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 106 1.00
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (54 bp):
AATAGATTCTGTAACATTTTATTATATGTAACTTTTATAAGTAATTTTGTTTTT
Found at i:67056 original size:71 final size:72
Alignment explanation
Indices: 66974--67114 Score: 257
Period size: 73 Copynumber: 2.0 Consensus size: 72
66964 AATTTGAAAA
*
66974 CCAATTATTATTAATAGTTTTGGTAAC-TATATTTCATAAATAATGATGACTATCAAATTAACAA
1 CCAATTATTATTAATAGTTTTGGTAACATATATTTCATAAATAATGAGGACTATCAAATTAACAA
67038 TATTATT
66 TATTATT
67045 CCAATTATTATTAATAGTTTTGGTAACTATATATTTCATAAATAATGAGGACTATCAAATTAACA
1 CCAATTATTATTAATAGTTTTGGTAAC-ATATATTTCATAAATAATGAGGACTATCAAATTAACA
67110 ATATT
65 ATATT
67115 TTTTTTTCGA
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
71 27 0.40
73 40 0.60
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (72 bp):
CCAATTATTATTAATAGTTTTGGTAACATATATTTCATAAATAATGAGGACTATCAAATTAACAA
TATTATT
Found at i:71731 original size:18 final size:19
Alignment explanation
Indices: 71708--71743 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
71698 ATACAATAAT
*
71708 TATTAGTGTTA-TTATTAA
1 TATTAGTATTATTTATTAA
71726 TATTAGTATTATTTATTA
1 TATTAGTATTATTTATTA
71744 TTAGTAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (19 bp):
TATTAGTATTATTTATTAA
Found at i:73218 original size:3 final size:3
Alignment explanation
Indices: 73210--73301 Score: 50
Period size: 3 Copynumber: 31.3 Consensus size: 3
73200 ACATACTTAA
* * * *
73210 ATT ATT ATTT ATT GTT ATT ACT GTT ATT ATT -TT -TT ATT ATT A-G
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
73253 ATTT ATT -TA ATT -TT ATT ACT ATT CTT ATT ATT AGT ATT ATGT ATT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
73298 ATT A
1 ATT A
73302 GTACTAGCAT
Statistics
Matches: 66, Mismatches: 16, Indels: 14
0.69 0.17 0.15
Matches are distributed among these distances:
2 8 0.12
3 51 0.77
4 7 0.11
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:73258 original size:22 final size:22
Alignment explanation
Indices: 73211--73259 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
73201 CATACTTAAA
* *
73211 TTATTATTTATTGTTATTACTG
1 TTATTATTTATTATTATTAATG
*
73233 TTATTATTTTTTATTATTAGAT-
1 TTATTATTTATTATTATTA-ATG
73255 TTATT
1 TTATT
73260 TAATTTTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (22 bp):
TTATTATTTATTATTATTAATG
Found at i:73307 original size:34 final size:34
Alignment explanation
Indices: 73243--73307 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
73233 TTATTATTTT
* *
73243 TTATTATTAGATTTATTTAATTTTATTACTATTC
1 TTATTATTAGATTTATGTAATTTTAGTACTATTC
73277 TTATTATTAG-TATTATGT-ATTATTAGTACTA
1 TTATTATTAGAT-TTATGTAATT-TTAGTACTA
73308 GCATACCAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.31, C:0.05, G:0.06, T:0.58
Consensus pattern (34 bp):
TTATTATTAGATTTATGTAATTTTAGTACTATTC
Found at i:75968 original size:33 final size:33
Alignment explanation
Indices: 75925--76049 Score: 144
Period size: 33 Copynumber: 3.8 Consensus size: 33
75915 CGGTTTTGCA
* *
75925 CCTGAGCCACGGCCGAGGCGCAACCGGATTTTG
1 CCTGAGCCACGACCGAGGCGCAATCGGATTTTG
* * * * *
75958 CCTGGGCCACGGCCGAGGTGCAATTGTATTTTG
1 CCTGAGCCACGACCGAGGCGCAATCGGATTTTG
* *
75991 CCT-ATGCCACGACCGAGGCGTAATCGGATTTCG
1 CCTGA-GCCACGACCGAGGCGCAATCGGATTTTG
*
76024 CCTGAGACACGACCGAGGCGCAATCG
1 CCTGAGCCACGACCGAGGCGCAATCG
76050 AGGGGCGCCC
Statistics
Matches: 76, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
33 75 0.99
34 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.31, T:0.18
Consensus pattern (33 bp):
CCTGAGCCACGACCGAGGCGCAATCGGATTTTG
Found at i:76759 original size:14 final size:14
Alignment explanation
Indices: 76740--76766 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
76730 ATTATAAATA
76740 AAAAATAAATTATG
1 AAAAATAAATTATG
76754 AAAAATAAATTAT
1 AAAAATAAATTAT
76767 TAATTACAAT
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:0.67, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
AAAAATAAATTATG
Found at i:79242 original size:14 final size:15
Alignment explanation
Indices: 79218--79246 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
79208 ATTTTAATTA
79218 AATTGAATTTTTCTT
1 AATTGAATTTTTCTT
79233 AATT-AATTTTTCTT
1 AATTGAATTTTTCTT
79247 TTATATCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (15 bp):
AATTGAATTTTTCTT
Found at i:80641 original size:22 final size:22
Alignment explanation
Indices: 80616--81130 Score: 204
Period size: 22 Copynumber: 23.6 Consensus size: 22
80606 ATGATCCCAT
80616 TATGAAATTTTGATAACCTTCC
1 TATGAAATTTTGATAACCTTCC
* ** *
80638 TATGAAATTTTAATAACGATAC
1 TATGAAATTTTGATAACCTTCC
* ** * * **
80660 TATGGAATTTCAAGAACTTTTT
1 TATGAAATTTTGATAACCTTCC
* ** *
80682 TAT-AATTTTTTTTAACCTTCT
1 TATGAAATTTTGATAACCTTCC
* * *
80703 TATGAAATTTGGTTAACCTCCC
1 TATGAAATTTTGATAACCTTCC
* * *
80725 TACGGAATTTTGA-AGACC-TCAA
1 TATGAAATTTTGATA-ACCTTC-C
80747 TATGAAATTTTGATAA-CTTCCC
1 TATGAAATTTTGATAACCTT-CC
* ** *
80769 AATGAAATTTTGATAACCAACAT
1 TATGAAATTTTGATAACCTTC-C
* *
80792 TATGAGATGTTGATAACC-TCC
1 TATGAAATTTTGATAACCTTCC
* * * *
80813 ATATGATATATTGATAACC-ACGT
1 -TATGAAATTTTGATAACCTTC-C
* * *
80836 TATGAAAATTTAAAAACC-TCC
1 TATGAAATTTTGATAACCTTCC
* *
80857 ATATG-AATTGTT-AGTAATC-ACAC
1 -TATGAAATT-TTGA-TAACCTTC-C
* * *
80880 TCTGAAATTTTGATAATC-ACAC
1 TATGAAATTTTGATAACCTTC-C
* *
80902 TATGAAATTGTGATAACCTTGC
1 TATGAAATTTTGATAACCTTCC
*
80924 TATGAAATTTTGATAAATCTTCC
1 TATGAAATTTTGAT-AACCTTCC
* *
80947 TATAAAATTTTGATAAACTTCCC
1 TATGAAATTTTGATAACCTT-CC
* * *
80970 TATAAAATTTTGATAACTTTCT
1 TATGAAATTTTGATAACCTTCC
* *
80992 TATGAAATCTTGTTAA-----C
1 TATGAAATTTTGATAACCTTCC
* *
81009 TAT-AAATTTCGATAACCTCCC
1 TATGAAATTTTGATAACCTTCC
* *
81030 TATGATATTTTGATAACC-TCAT
1 TATGAAATTTTGATAACCTTC-C
* * *
81052 TATGAAATTTTGTTAATCTCCC
1 TATGAAATTTTGATAACCTTCC
* * * *
81074 TATGAAATTTCGATCTA-CATAC
1 TATGAAATTTTGAT-AACCTTCC
* *
81096 TATGAAATTTTGATAACCCTCT
1 TATGAAATTTTGATAACCTTCC
81118 TATGAAATTTTGA
1 TATGAAATTTTGA
81131 AAACTAAATT
Statistics
Matches: 366, Mismatches: 98, Indels: 58
0.70 0.19 0.11
Matches are distributed among these distances:
16 9 0.02
17 3 0.01
21 26 0.07
22 263 0.72
23 65 0.18
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (22 bp):
TATGAAATTTTGATAACCTTCC
Found at i:80805 original size:45 final size:44
Alignment explanation
Indices: 80747--80863 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 44
80737 AAGACCTCAA
* * *
80747 TATGAAATTTTGATAACTTCCCA-ATGAAATTTTGATAACCAACAT
1 TATGAAATGTTGATAACCT-CCATATGAAATATTGATAACC-ACAT
* * *
80792 TATGAGATGTTGATAACCTCCATATGATATATTGATAACCACGT
1 TATGAAATGTTGATAACCTCCATATGAAATATTGATAACCACAT
* *
80836 TATGAAAAT-TTAAAAACCTCCATATGAA
1 TATG-AAATGTTGATAACCTCCATATGAA
80864 TTGTTAGTAA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
44 26 0.43
45 34 0.57
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (44 bp):
TATGAAATGTTGATAACCTCCATATGAAATATTGATAACCACAT
Found at i:80954 original size:23 final size:23
Alignment explanation
Indices: 80884--80985 Score: 104
Period size: 23 Copynumber: 4.5 Consensus size: 23
80874 TCACACTCTG
* *
80884 AAATTTTGAT-AATC-ACACTATG
1 AAATTTTGATAAATCTTC-CTATA
* * * *
80906 AAATTGTGAT-AACCTTGCTATG
1 AAATTTTGATAAATCTTCCTATA
80928 AAATTTTGATAAATCTTCCTATA
1 AAATTTTGATAAATCTTCCTATA
80951 AAATTTTGATAAA-CTTCCCTATA
1 AAATTTTGATAAATCTT-CCTATA
80974 AAATTTTGATAA
1 AAATTTTGATAA
80986 CTTTCTTATG
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
22 29 0.42
23 40 0.58
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (23 bp):
AAATTTTGATAAATCTTCCTATA
Found at i:81040 original size:60 final size:62
Alignment explanation
Indices: 80946--81067 Score: 160
Period size: 60 Copynumber: 2.0 Consensus size: 62
80936 ATAAATCTTC
* * *
80946 CTATAAAATTTTGATAAACTTCCCTATAAAATTTTGATAACTTTC-TTATGAAATCTTGTTAA
1 CTATAAAATTTCGATAAACCTCCCTATAAAATTTTGATAAC-CTCATTATGAAATCTTGTTAA
* * *
81008 CTAT-AAATTTCGAT-AACCTCCCTATGATATTTTGATAACCTCATTATGAAATTTTGTTAA
1 CTATAAAATTTCGATAAACCTCCCTATAAAATTTTGATAACCTCATTATGAAATCTTGTTAA
81068 TCTCCCTATG
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 2 0.04
60 38 0.72
61 9 0.17
62 4 0.08
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (62 bp):
CTATAAAATTTCGATAAACCTCCCTATAAAATTTTGATAACCTCATTATGAAATCTTGTTAA
Found at i:81075 original size:44 final size:44
Alignment explanation
Indices: 80613--81673 Score: 301
Period size: 44 Copynumber: 24.5 Consensus size: 44
80603 TTTATGATCC
* * *
80613 CATTATGAAATTTTGATAACCTTCCTATGAAATTTTAATAACGAT
1 CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAAC-CT
* * ** * * *** * **
80658 -ACTATGGAATTTCAAGAACTTTTTTAT-AATTTTTTTTAACCTT
1 CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAACC-T
* * * *
80701 C-TTATGAAATTTGGTTAACCTCCCTACGGAATTTTGA-AGACCT
1 CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATA-ACCT
* * * *
80744 CAATATGAAATTTTGATAACTTCCCAATGAAATTTTGATAACCAA
1 CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAACC-T
* * * * * *
80789 CATTATGAGATGTTGATAACCTCCATATGATATATTGATAACCA
1 CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAACCT
* * * * * * *
80833 CGTTATGAAAATTTAAAAACCTCCATATG-AATTGTT-AGTAATCA
1 CATTATGAAATTTTGATAACCTCCCTATGAAATT-TTGA-TAACCT
* * * * * *
80877 CACTCTGAAATTTTGATAATCACACTATGAAATTGTGATAACCT
1 CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAACCT
*** * * * *
80921 TGCTATGAAATTTTGATAAATCTTCCTATAAAATTTTGATAAACTT
1 CATTATGAAATTTTGAT-AACCTCCCTATGAAATTTTGAT-AACCT
** * * * * * *
80967 CCCTATAAAATTTTGATAACTTTCTTATGAAATCTTGTTAA---
1 CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAACCT
* *
81008 C--TAT-AAATTTCGATAACCTCCCTATGATATTTTGATAACCT
1 CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAACCT
* * * * *
81049 CATTATGAAATTTTGTTAATCTCCCTATGAAATTTCGATCTACAT
1 CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGAT-AACCT
* * *
81094 -ACTATGAAATTTTGATAACC-CTCTTATGAAATTTTGA-AAACT
1 CATTATGAAATTTTGATAACCTC-CCTATGAAATTTTGATAACCT
* * * *
81136 AAATTATGAAATTTTGATATCCTCAC--TGAAATTTTGATTA-CT
1 -CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAACCT
* * * * * *
81178 CCATAATAAAAGTTTAATAACCTTCC--T--AA-TTTGGTAACCAT
1 -CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAACC-T
* *
81219 -ACTATGATATTTTGATAACCT-CCTA-G-AA-----AT-A-C-
1 CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAACCT
* * * * ** * *
81251 CACTATAAAATTTTTG-TAATCACATTCTGAAAATTTGATAACCT
1 CATTATGAAA-TTTTGATAACCTCCCTATGAAATTTTGATAACCT
* ** * * * *
81295 CTTTATGAAATTTTGATAACCTCTTTATAAAATTTTGTTGACCC
1 CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAACCT
* * ** * *
81339 CTTTATGAAATTCTT-ATAATCAT-ATTATGTAATTTTGATAATCT
1 CATTATGAAATT-TTGATAA-CCTCCCTATGAAATTTTGATAACCT
* * ** * *
81383 CGCTT-TGAATTTTTGATAACAACGCTATGAAATTTTGATAATCT
1 C-ATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAACCT
* * *
81427 -TTCTAT-AAATTTTGATAATCCGATCTCTATGAAATTTCGATAA--T
1 CAT-TATGAAATTTTGATAA-CC--TCCCTATGAAATTTTGATAACCT
* * * * * *
81471 CACTCTATGAGA-TTGGATAACCT-TCTATCAAATTTTGGTATTCCT
1 CA-T-TATGAAATTTTGATAACCTCCCTATGAAATTTTGATA-ACCT
* * * * * * *
81516 TATGAAATTGAGACTTTT-ATAACCTTCATATGAAATTTTAATAACCA
1 CAT--TA-TGA-AATTTTGATAACCTCCCTATGAAATTTTGATAACCT
* * * *
81563 CAATATAAAATTTTGATAACCTCCCCATGAAATATT-AGTAACCT
1 CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGA-TAACCT
* * * * *
81607 CCTAATGAAATTTTGTTAACCACACTATGAAATTCTT-ATAACCT
1 CATTATGAAATTTTGATAACCTCCCTATGAAATT-TTGATAACCT
** **
81651 CGCTATGTCATTTTGATAACCTC
1 CATTATGAAATTTTGATAACCTC
81674 TTTGATAACC
Statistics
Matches: 735, Mismatches: 213, Indels: 137
0.68 0.20 0.13
Matches are distributed among these distances:
33 11 0.01
34 7 0.01
35 2 0.00
36 3 0.00
38 29 0.04
39 24 0.03
40 5 0.01
41 5 0.01
42 49 0.07
43 66 0.09
44 365 0.50
45 93 0.13
46 50 0.07
47 12 0.02
48 14 0.02
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (44 bp):
CATTATGAAATTTTGATAACCTCCCTATGAAATTTTGATAACCT
Found at i:81479 original size:22 final size:22
Alignment explanation
Indices: 81253--81480 Score: 117
Period size: 22 Copynumber: 10.3 Consensus size: 22
81243 AGAAATACCA
*
81253 CTATAAAATTTTTG-TAATCACAT
1 CTATGAAA-TTTTGATAATCAC-T
* * * *
81276 -TCTGAAAATTTGATAACCTCT
1 CTATGAAATTTTGATAATCACT
* * *
81297 TTATGAAATTTTGATAACCTCT
1 CTATGAAATTTTGATAATCACT
* * * * * *
81319 TTATAAAATTTTGTTGACCCCT
1 CTATGAAATTTTGATAATCACT
*
81341 TTATGAAATTCTT-ATAATCA-T
1 CTATGAAATT-TTGATAATCACT
* * * *
81362 ATTATGTAATTTTGATAATCTCG
1 -CTATGAAATTTTGATAATCACT
* * *
81385 CTTTGAATTTTTGATAA-CAACG
1 CTATGAAATTTTGATAATC-ACT
**
81407 CTATGAAATTTTGATAATCTTT
1 CTATGAAATTTTGATAATCACT
81429 CTAT-AAATTTTGATAATCCGATCT
1 CTATGAAATTTTGATAAT-C-A-CT
*
81453 CTATGAAATTTCGATAATCACT
1 CTATGAAATTTTGATAATCACT
81475 CTATGA
1 CTATGA
81481 GATTGGATAA
Statistics
Matches: 161, Mismatches: 32, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
21 22 0.14
22 117 0.73
23 4 0.02
24 6 0.04
25 12 0.07
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.43
Consensus pattern (22 bp):
CTATGAAATTTTGATAATCACT
Found at i:81656 original size:22 final size:22
Alignment explanation
Indices: 81278--81673 Score: 139
Period size: 22 Copynumber: 17.8 Consensus size: 22
81268 AATCACATTC
* **
81278 TGAAAATTTGATAACCTCTTTA
1 TGAAATTTTGATAACCTCACTA
**
81300 TGAAATTTTGATAACCTCTTTA
1 TGAAATTTTGATAACCTCACTA
* * * * **
81322 TAAAATTTTGTTGACCCCTTTA
1 TGAAATTTTGATAACCTCACTA
* *
81344 TGAAATTCTT-ATAATCAT-ATTA
1 TGAAATT-TTGATAA-CCTCACTA
* * * *
81366 TGTAATTTTGATAATCTCGCTT
1 TGAAATTTTGATAACCTCACTA
* ** *
81388 TGAATTTTTGATAACAACGCTA
1 TGAAATTTTGATAACCTCACTA
* **
81410 TGAAATTTTGATAATCTTTCTA
1 TGAAATTTTGATAACCTCACTA
*
81432 T-AAATTTTGATAATCCGATCTCTA
1 TGAAATTTTGATAA-CC--TCACTA
* * * *
81456 TGAAATTTCGATAATCACTCTA
1 TGAAATTTTGATAACCTCACTA
* * *
81478 TGAGA-TTGGATAACCT-TCTA
1 TGAAATTTTGATAACCTCACTA
* * * *
81498 TCAAATTTTGGTATTCCTTA-TGAAA
1 TGAAATTTTGATA-ACCTCACT---A
*
81523 TTGAGACTTTT-ATAACCTTCA-TA
1 -TGA-AATTTTGATAACC-TCACTA
* * *
81546 TGAAATTTTAATAACCACAATA
1 TGAAATTTTGATAACCTCACTA
* * *
81568 TAAAATTTTGATAACCTCCCCA
1 TGAAATTTTGATAACCTCACTA
*
81590 TGAAATATT-AGTAACCTC-CTAA
1 TGAAATTTTGA-TAACCTCACT-A
* *
81612 TGAAATTTTGTTAACCACACTA
1 TGAAATTTTGATAACCTCACTA
*
81634 TGAAATTCTT-ATAACCTCGCTA
1 TGAAATT-TTGATAACCTCACTA
**
81656 TGTCATTTTGATAACCTC
1 TGAAATTTTGATAACCTC
81674 TTTGATAACC
Statistics
Matches: 281, Mismatches: 68, Indels: 50
0.70 0.17 0.13
Matches are distributed among these distances:
20 7 0.02
21 39 0.14
22 194 0.69
23 8 0.03
24 7 0.02
25 14 0.05
26 7 0.02
27 5 0.02
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (22 bp):
TGAAATTTTGATAACCTCACTA
Found at i:81737 original size:22 final size:22
Alignment explanation
Indices: 81705--81752 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
81695 TTGTGATAAT
* *
81705 TAACCACCCTATGAAATTTCAA
1 TAACCAACCTAAGAAATTTCAA
*
81727 TAACCAACCTAAGAAATTTTAA
1 TAACCAACCTAAGAAATTTCAA
81749 TAAC
1 TAAC
81753 ATGGTCCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.46, C:0.23, G:0.04, T:0.27
Consensus pattern (22 bp):
TAACCAACCTAAGAAATTTCAA
Found at i:82952 original size:30 final size:29
Alignment explanation
Indices: 82907--82965 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
82897 ATTATTTAGT
82907 AATGACAATTTAGAAATATGATTTTAAAAA
1 AATGACAATTTAGAAATATG-TTTTAAAAA
82937 AATGTACAA-TTAGAAATATGTTTTAAAAA
1 AATG-ACAATTTAGAAATATGTTTTAAAAA
82966 TAAGGCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 9 0.32
30 15 0.54
31 4 0.14
ACGTcount: A:0.53, C:0.03, G:0.10, T:0.34
Consensus pattern (29 bp):
AATGACAATTTAGAAATATGTTTTAAAAA
Found at i:87004 original size:2 final size:2
Alignment explanation
Indices: 86990--87030 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
86980 TTAAAGAATA
*
86990 AT AT AT AC A- 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
87031 GAAAAATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:88776 original size:32 final size:32
Alignment explanation
Indices: 88731--88798 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
88721 AGGCCTTGAG
* *
88731 TCGGGTTGGATTTGGGGCAGGTTAATTCGGGT
1 TCGGATTGAATTTGGGGCAGGTTAATTCGGGT
**
88763 TCGGATTGAATTTGGGTTAGGTTAATTCGGGT
1 TCGGATTGAATTTGGGGCAGGTTAATTCGGGT
88795 TCGG
1 TCGG
88799 GTTCTGTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.15, C:0.09, G:0.40, T:0.37
Consensus pattern (32 bp):
TCGGATTGAATTTGGGGCAGGTTAATTCGGGT
Found at i:88970 original size:16 final size:16
Alignment explanation
Indices: 88949--89038 Score: 101
Period size: 16 Copynumber: 5.6 Consensus size: 16
88939 TTTTCATAAA
* *
88949 TTTTCGGATTCGGGTT
1 TTTTCGGGTTCGAGTT
* *
88965 TTTTCGGGTTTGAGCT
1 TTTTCGGGTTCGAGTT
*
88981 TTTTCGGGTTCGGGTT
1 TTTTCGGGTTCGAGTT
* *
88997 TTTTCGGGTTTGAGCT
1 TTTTCGGGTTCGAGTT
89013 TTTTCGGGTTCGTA-TT
1 TTTTCGGGTTCG-AGTT
89029 TTTTCGGGTT
1 TTTTCGGGTT
89039 TGAACTTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
16 60 0.98
17 1 0.02
ACGTcount: A:0.04, C:0.12, G:0.31, T:0.52
Consensus pattern (16 bp):
TTTTCGGGTTCGAGTT
Found at i:88993 original size:32 final size:32
Alignment explanation
Indices: 88949--89063 Score: 176
Period size: 32 Copynumber: 3.6 Consensus size: 32
88939 TTTTCATAAA
* *
88949 TTTTCGGATTCGGGTTTTTTCGGGTTTGAGCT
1 TTTTCGGGTTCGGATTTTTTCGGGTTTGAGCT
*
88981 TTTTCGGGTTCGGGTTTTTTCGGGTTTGAGCT
1 TTTTCGGGTTCGGATTTTTTCGGGTTTGAGCT
* *
89013 TTTTCGGGTTCGTATTTTTTCGGGTTTGAACT
1 TTTTCGGGTTCGGATTTTTTCGGGTTTGAGCT
*
89045 TTTTCGAGTTCGGATTTTT
1 TTTTCGGGTTCGGATTTTT
89064 ACGGATTCAG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 77 1.00
ACGTcount: A:0.07, C:0.12, G:0.29, T:0.52
Consensus pattern (32 bp):
TTTTCGGGTTCGGATTTTTTCGGGTTTGAGCT
Found at i:89047 original size:16 final size:16
Alignment explanation
Indices: 88964--89050 Score: 104
Period size: 16 Copynumber: 5.4 Consensus size: 16
88954 GGATTCGGGT
88964 TTTTTCGGGTTTGAGC
1 TTTTTCGGGTTTGAGC
* * *
88980 TTTTTCGGGTTCGGGT
1 TTTTTCGGGTTTGAGC
88996 TTTTTCGGGTTTGAGC
1 TTTTTCGGGTTTGAGC
* *
89012 TTTTTCGGGTTCGTA-T
1 TTTTTCGGGTTTG-AGC
*
89028 TTTTTCGGGTTTGAAC
1 TTTTTCGGGTTTGAGC
89044 TTTTTCG
1 TTTTTCG
89051 AGTTCGGATT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
15 1 0.02
16 57 0.97
17 1 0.02
ACGTcount: A:0.06, C:0.13, G:0.29, T:0.53
Consensus pattern (16 bp):
TTTTTCGGGTTTGAGC
Found at i:89063 original size:16 final size:16
Alignment explanation
Indices: 88949--89063 Score: 90
Period size: 16 Copynumber: 7.2 Consensus size: 16
88939 TTTTCATAAA
* *
88949 TTTTCGGATTCGGGTT
1 TTTTCGGGTTCGGATT
* *
88965 TTTTCGGGTT-TGAGCT
1 TTTTCGGGTTCGGA-TT
*
88981 TTTTCGGGTTCGGGTT
1 TTTTCGGGTTCGGATT
* *
88997 TTTTCGGGTT-TGAGCT
1 TTTTCGGGTTCGGA-TT
*
89013 TTTTCGGGTTCGTATT
1 TTTTCGGGTTCGGATT
* * *
89029 TTTTCGGGTTTGAACT
1 TTTTCGGGTTCGGATT
*
89045 TTTTCGAGTTCGGATT
1 TTTTCGGGTTCGGATT
89061 TTT
1 TTT
89064 ACGGATTCAG
Statistics
Matches: 75, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
15 2 0.03
16 71 0.95
17 2 0.03
ACGTcount: A:0.07, C:0.12, G:0.29, T:0.52
Consensus pattern (16 bp):
TTTTCGGGTTCGGATT
Found at i:89085 original size:64 final size:64
Alignment explanation
Indices: 88963--89088 Score: 146
Period size: 64 Copynumber: 2.0 Consensus size: 64
88953 CGGATTCGGG
* * * * * * ***
88963 TTTTTTCGGGTTTGAGCTTTTTCGGGTTCGGGTTTTTTCGGGTTTGAGCTTTTTCGGGTTCGTA
1 TTTTTTCGGGTTTGAACTTTTTCGAGTTCGGATTTTTACGGGATTCAGCTTAGACGGGTTCGTA
*
89027 TTTTTTCGGGTTTGAACTTTTTCGAGTTCGGATTTTTAC-GGATTCAGGTTCAGACGGGTTCG
1 TTTTTTCGGGTTTGAACTTTTTCGAGTTCGGATTTTTACGGGATTCAGCTT-AGACGGGTTCG
89089 GATAGTTGAC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
63 8 0.16
64 43 0.84
ACGTcount: A:0.10, C:0.13, G:0.29, T:0.48
Consensus pattern (64 bp):
TTTTTTCGGGTTTGAACTTTTTCGAGTTCGGATTTTTACGGGATTCAGCTTAGACGGGTTCGTA
Found at i:93523 original size:44 final size:44
Alignment explanation
Indices: 93459--93548 Score: 153
Period size: 44 Copynumber: 2.0 Consensus size: 44
93449 AAGGAGGATT
*
93459 ATTGAAAGAAGATTCACGTATGTAGAGGATTATTATCAAAGAAG
1 ATTGAAAGAAGATCCACGTATGTAGAGGATTATTATCAAAGAAG
* *
93503 ATTGAAAGAAGATCCGCGTATGTGGAGGATTATTATCAAAGAAG
1 ATTGAAAGAAGATCCACGTATGTAGAGGATTATTATCAAAGAAG
93547 AT
1 AT
93549 CCAAGGAGGA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.41, C:0.08, G:0.24, T:0.27
Consensus pattern (44 bp):
ATTGAAAGAAGATCCACGTATGTAGAGGATTATTATCAAAGAAG
Found at i:95640 original size:61 final size:62
Alignment explanation
Indices: 95513--95640 Score: 143
Period size: 61 Copynumber: 2.1 Consensus size: 62
95503 GACTGCACAC
** * * * ** *
95513 CAAAAAAAAGTTCGCTAAGTTGAAAATCCTGTAAAGGATGGCCTAGGCAAAAGTAAGACCGA
1 CAAAAAAAACCTCGCTAAGCTGAAAATCCAGCAAAGGATAACCTAGGCAAAACTAAGACCGA
* * *
95575 -AAAAAAAACCTCGCTAAGCTGAAAATCCAGCAAAGGATAACTTAGGCAAAACTTAGAGC-A
1 CAAAAAAAACCTCGCTAAGCTGAAAATCCAGCAAAGGATAACCTAGGCAAAACTAAGACCGA
95635 CAAAAA
1 CAAAAA
95641 TAAATGAACT
Statistics
Matches: 54, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
60 1 0.02
61 53 0.98
ACGTcount: A:0.48, C:0.18, G:0.19, T:0.16
Consensus pattern (62 bp):
CAAAAAAAACCTCGCTAAGCTGAAAATCCAGCAAAGGATAACCTAGGCAAAACTAAGACCGA
Found at i:96451 original size:44 final size:44
Alignment explanation
Indices: 96401--96490 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
96391 AAGGAGGATT
*
96401 ATTGAAAGAAGATCCACGTATGTGGAGGATTATTATCAAAGAAG
1 ATTGAAAGAAGATCCACGTATGTAGAGGATTATTATCAAAGAAG
*
96445 ATTGAAAGAAGATCCATGTATGTAGAGGATTATTATCAAAGAAG
1 ATTGAAAGAAGATCCACGTATGTAGAGGATTATTATCAAAGAAG
96489 AT
1 AT
96491 CCAAGGAGGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (44 bp):
ATTGAAAGAAGATCCACGTATGTAGAGGATTATTATCAAAGAAG
Found at i:96673 original size:53 final size:58
Alignment explanation
Indices: 96586--96735 Score: 150
Period size: 62 Copynumber: 2.6 Consensus size: 58
96576 TTTTTGTTTA
* * *
96586 TTCAAGATCAAGTCGC-CAAGACCCTCGAATCAAAT-T-AAACTC-CAAA-GTCATCAA-
1 TTCAAGATCAAGTCACTC--GACCCTTGAATCAAATATCAAACTCTCAAATATCATCAAG
*
96640 TTCAAGATCAAGTCATTCGACCCTTGAATCAAATCAAATCAAACTCTCAAATTATCATCAAG
1 TTCAAGATCAAGTCACTCGACCCTTGAATCAAAT---ATCAAACTCTCAAA-TATCATCAAG
* *
96702 TTCAAGATCAAGTCACTCAACCCTTGAATTAAAT
1 TTCAAGATCAAGTCACTCGACCCTTGAATCAAAT
96736 CCTGAAGCAG
Statistics
Matches: 79, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
53 15 0.19
54 14 0.18
55 1 0.01
57 1 0.01
58 6 0.08
59 4 0.05
61 7 0.09
62 31 0.39
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.25
Consensus pattern (58 bp):
TTCAAGATCAAGTCACTCGACCCTTGAATCAAATATCAAACTCTCAAATATCATCAAG
Found at i:96715 original size:62 final size:58
Alignment explanation
Indices: 96613--96736 Score: 167
Period size: 62 Copynumber: 2.1 Consensus size: 58
96603 AAGACCCTCG
* * * *
96613 AATCAAATTAAACTCCAAAGTCATCAATTCAAGATCAAGTCATTCGACCCTTGAATCA
1 AATCAAATCAAACTCCAAAATCATCAATTCAAGATCAAGTCACTCAACCCTTGAATCA
*
96671 AATCAAATCAAACTCTCAAATTATCATCAAGTTCAAGATCAAGTCACTCAACCCTTGAATTA
1 AATCAAATCAAACTC-CAAA--ATCATCAA-TTCAAGATCAAGTCACTCAACCCTTGAATCA
96733 AATC
1 AATC
96737 CTGAAGCAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 14 0.25
59 4 0.07
61 7 0.12
62 32 0.56
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (58 bp):
AATCAAATCAAACTCCAAAATCATCAATTCAAGATCAAGTCACTCAACCCTTGAATCA
Found at i:97876 original size:54 final size:54
Alignment explanation
Indices: 97817--97928 Score: 147
Period size: 59 Copynumber: 2.0 Consensus size: 54
97807 AATTCTAACA
*
97817 ATATTTCCTTCC-A-TTTAACATAATTGCTATTATATAAGATATAAAATTTTACTT
1 ATATTTCCTTCCTATTTTAACATAATTGCTATTACATAAG--ATAAAATTTTACTT
*
97871 ATATTTCCTTCCATTTATTTTAACTTAATTGCTATTACATAAGATAAAATTTTACTT
1 ATATTTCCTTCC---TATTTTAACATAATTGCTATTACATAAGATAAAATTTTACTT
97928 A
1 A
97929 GAATTGAAAT
Statistics
Matches: 51, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
54 12 0.24
57 15 0.29
58 1 0.02
59 23 0.45
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (54 bp):
ATATTTCCTTCCTATTTTAACATAATTGCTATTACATAAGATAAAATTTTACTT
Found at i:100155 original size:11 final size:11
Alignment explanation
Indices: 100118--100155 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
100108 CGATACTATA
*
100118 AAATAAATTAT
1 AAATTAATTAT
100129 CAAA-TAATTAT
1 -AAATTAATTAT
100140 AAATTAATTAT
1 AAATTAATTAT
100151 AAATT
1 AAATT
100156 TCATTTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (11 bp):
AAATTAATTAT
Found at i:104024 original size:15 final size:15
Alignment explanation
Indices: 104000--104029 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
103990 TTAAATTCCC
*
104000 TTAATGACAAGGAAA
1 TTAATAACAAGGAAA
104015 TTAATAACAAGGAAA
1 TTAATAACAAGGAAA
104030 ACCCAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.17, T:0.20
Consensus pattern (15 bp):
TTAATAACAAGGAAA
Found at i:106874 original size:2 final size:2
Alignment explanation
Indices: 106867--106900 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
106857 CGCACCCTAA
106867 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
106901 CAACTCTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107246 original size:22 final size:21
Alignment explanation
Indices: 107208--107266 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
107198 CTTTTTGGTC
*
107208 ACCTTATAAAG-TCTTTTACCTA
1 ACCTTATTAAGAT-TTTTA-CTA
*
107230 ACCTTATTAAGATTTTTAGTA
1 ACCTTATTAAGATTTTTACTA
107251 ACCTTAATTAA-ATTTT
1 ACCTT-ATTAAGATTTT
107267 AGAAGTCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
21 12 0.36
22 20 0.61
23 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (21 bp):
ACCTTATTAAGATTTTTACTA
Found at i:107252 original size:21 final size:21
Alignment explanation
Indices: 107188--107256 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
107178 TCTTTTTAGG
* * *
107188 CCTTATAAAGCTTTTTGGTCA
1 CCTTATAAAGATTTTTAGTAA
*
107209 CCTTATAAAG-TCTTTTACCTAA
1 CCTTATAAAGAT-TTTTA-GTAA
*
107231 CCTTATTAAGATTTTTAGTAA
1 CCTTATAAAGATTTTTAGTAA
107252 CCTTA
1 CCTTA
107257 ATTAAATTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 1 0.03
21 22 0.55
22 16 0.40
23 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.09, T:0.43
Consensus pattern (21 bp):
CCTTATAAAGATTTTTAGTAA
Found at i:107377 original size:33 final size:34
Alignment explanation
Indices: 107322--107385 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 34
107312 AATCTTAGAG
*
107322 ATTTTAAGTAACCTTGATAATTT-TTATTAATGGT
1 ATTTTAAGTAACATTGATAATTTATT-TTAATGGT
107356 ATTTT-AGTAACATT-ATCAATTTATTTTAAT
1 ATTTTAAGTAACATTGAT-AATTTATTTTAAT
107386 AATCTTACAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
32 2 0.07
33 18 0.67
34 7 0.26
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (34 bp):
ATTTTAAGTAACATTGATAATTTATTTTAATGGT
Found at i:108578 original size:87 final size:87
Alignment explanation
Indices: 108477--108648 Score: 317
Period size: 87 Copynumber: 2.0 Consensus size: 87
108467 ATCTAGCTTT
*
108477 ATTATGCAATTTAGTAATTGTATCAAGTATTTTAGTAACTTATTAAACTAACATTAACCTTATAA
1 ATTATGAAATTTAGTAATTGTATCAAGTATTTTAGTAACTTATTAAACTAACATTAACCTTATAA
108542 GCTCTTGAGATATCACATTATA
66 GCTCTTGAGATATCACATTATA
**
108564 ATTATGAAATTTAGTAATTGTATCAAGTATTTTAGTAACTTATTAAACTTTCATTAACCTTATAA
1 ATTATGAAATTTAGTAATTGTATCAAGTATTTTAGTAACTTATTAAACTAACATTAACCTTATAA
108629 GCTCTTGAGATATCACATTA
66 GCTCTTGAGATATCACATTA
108649 AGTACTTTTA
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 82 1.00
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.41
Consensus pattern (87 bp):
ATTATGAAATTTAGTAATTGTATCAAGTATTTTAGTAACTTATTAAACTAACATTAACCTTATAA
GCTCTTGAGATATCACATTATA
Found at i:110017 original size:69 final size:69
Alignment explanation
Indices: 109900--110141 Score: 333
Period size: 69 Copynumber: 3.5 Consensus size: 69
109890 AATTTTGAGT
* * * *
109900 CAAAGTCTAATGGTTTCTTATATAAAT-TCCAGAATGATGCTCACTCAGAAGCCGAGAAATCTTT
1 CAAAGCCTAATGTTTTCTTATATAAATCT-CAGAACGATGCTCAATCAGAAGCCGAGAAATCTTT
* *
109964 TGAGT
65 TCAGC
* * * *
109969 GAAAGCCTAATGTTTTCTTATATAAATCTCAGAACGGTGCTTAATCAGAAGCCGATAAATCTTTT
1 CAAAGCCTAATGTTTTCTTATATAAATCTCAGAACGATGCTCAATCAGAAGCCGAGAAATCTTTT
110034 CAGC
66 CAGC
* * * * *
110038 CAAAGTCTAATATTTTCTTATATAAATCCCAGAACGATGGTCAATTAGAAGCCGAGAAATCTTTT
1 CAAAGCCTAATGTTTTCTTATATAAATCTCAGAACGATGCTCAATCAGAAGCCGAGAAATCTTTT
110103 CAGC
66 CAGC
110107 CAAAGCCTAATGTTTTCTTATATAAATCTCAGAAC
1 CAAAGCCTAATGTTTTCTTATATAAATCTCAGAAC
110142 AAAGCCTAAT
Statistics
Matches: 150, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
69 149 0.99
70 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (69 bp):
CAAAGCCTAATGTTTTCTTATATAAATCTCAGAACGATGCTCAATCAGAAGCCGAGAAATCTTTT
CAGC
Found at i:110146 original size:34 final size:34
Alignment explanation
Indices: 110107--110174 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
110097 TCTTTTCAGC
*
110107 CAAAGCCTAATGTTTTCTTATATAAATCTCAGAA
1 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
110141 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
1 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
110175 TGGTGCTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (34 bp):
CAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
Found at i:110163 original size:103 final size:103
Alignment explanation
Indices: 110038--110244 Score: 351
Period size: 103 Copynumber: 2.0 Consensus size: 103
110028 TCTTTTCAGC
* * *
110038 CAAAGTCTAATATTTTCTTATATAAATCCCAGAACGATGGTCAATTAGAAGCCGAGAAATCTTTT
1 CAAAGCCTAATATTTTCTTATATAAATCCCAGAACGATGCTCAATCAGAAGCCGAGAAATCTTTT
*
110103 CAGCCAAAGCCTAATGTTTTCTTATATAAATCTCAGAA
66 CAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
* * *
110141 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAATGGTGCTCAATCAGAAGCCGAGAAATCTTTT
1 CAAAGCCTAATATTTTCTTATATAAATCCCAGAACGATGCTCAATCAGAAGCCGAGAAATCTTTT
110206 CAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
66 CAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
110244 C
1 C
110245 GGTGCTCAAT
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (103 bp):
CAAAGCCTAATATTTTCTTATATAAATCCCAGAACGATGCTCAATCAGAAGCCGAGAAATCTTTT
CAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
Found at i:110222 original size:69 final size:69
Alignment explanation
Indices: 110141--110789 Score: 983
Period size: 69 Copynumber: 9.2 Consensus size: 69
110131 AATCTCAGAA
*
110141 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAATGGTGCTCAATCAGAAGCCGAGAAATCTTTT
1 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATCTTTT
110206 CAGC
66 CAGC
*
110210 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCAGAGAAATCTTTT
1 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATCTTTT
*
110275 TAGC
66 CAGC
* *
110279 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAATGGTGCTGAATCAGAAGCCGAGAAATCTTTT
1 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATCTTTT
*
110344 CATC
66 CAGC
*
110348 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATTAGAAGCCGAGAAATCTTTT
1 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATCTTTT
110413 CAGC
66 CAGC
* *
110417 CAAAGCCTAATGTTTTCTTATATAAATCCGAGAACGGTGCTCAATCAGAAGACGAGAAATCTTTT
1 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATCTTTT
110482 CAGC
66 CAGC
* * *
110486 CAGAGCCTAATGTTTTCTTATATAAATCCCAGTATGGTGCTCAATCAGAAGCCGAGAAATCTTTT
1 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATCTTTT
*
110551 CAGT
66 CAGC
* *
110555 CAAAACCTAATATTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATCTTTT
1 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATC-TTT
110620 CAGTCAAAGC
65 ---TC--AGC
* * *
110630 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAATGGTGCTCAATCAGAAGCTGAGAAAACTTTT
1 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATCTTTT
*
110695 GAGC
66 CAGC
* ** *
110699 CAAACCCTAATGTTTTCACATATAAATCCCAGAACGGTGCTCATGAATCAGAAGCTGAGAAATCT
1 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTC---AATCAGAAGCCGAGAAATCT
*
110764 TTTGAGC
63 TTTCAGC
110771 CAAACGGCCTAATGTTTTC
1 CAAA--GCCTAATGTTTTC
110790 ACATATTCTG
Statistics
Matches: 530, Mismatches: 39, Indels: 17
0.90 0.07 0.03
Matches are distributed among these distances:
69 421 0.79
70 3 0.01
71 1 0.00
72 30 0.06
73 2 0.00
74 15 0.03
75 58 0.11
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (69 bp):
CAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATCTTTT
CAGC
Found at i:110269 original size:172 final size:172
Alignment explanation
Indices: 109970--110312 Score: 578
Period size: 172 Copynumber: 2.0 Consensus size: 172
109960 CTTTTGAGTG
* * *
109970 AAAGCCTAATGTTTTCTTATATAAATCTCAGAACGGTGCTTAATCAGAAGCCGATAAATCTTTTC
1 AAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATCTTTTC
* * * *
110035 AGCCAAAGTCTAATATTTTCTTATATAAATCCCAGAACGATGGTCAATTAGAAGCCGAGAAATCT
66 AGCCAAAGCCTAATATTTTCTTATATAAATCCCAGAACGATGCTCAATCAGAAGCAGAGAAATCT
*
110100 TTTCAGCCAAAGCCTAATGTTTTCTTATATAAATCTCAGAAC
131 TTTCAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAAC
*
110142 AAAGCCTAATGTTTTCTTATATAAATCCCAGAATGGTGCTCAATCAGAAGCCGAGAAATCTTTTC
1 AAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATCTTTTC
* *
110207 AGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCAGAGAAATCT
66 AGCCAAAGCCTAATATTTTCTTATATAAATCCCAGAACGATGCTCAATCAGAAGCAGAGAAATCT
*
110272 TTTTAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
131 TTTCAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
110313 TGGTGCTGAA
Statistics
Matches: 159, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
172 159 1.00
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (172 bp):
AAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCCGAGAAATCTTTTC
AGCCAAAGCCTAATATTTTCTTATATAAATCCCAGAACGATGCTCAATCAGAAGCAGAGAAATCT
TTTCAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAAC
Found at i:110336 original size:241 final size:241
Alignment explanation
Indices: 109900--110382 Score: 768
Period size: 241 Copynumber: 2.0 Consensus size: 241
109890 AATTTTGAGT
* * *
109900 CAAAGTCTAATGGTTTCTTATATAAATTCCAGAATGATGCTCACTCAGAAGCCGAGAAATCTTTT
1 CAAAGCCTAATGGTTTCTTATATAAATCCCAGAATGATGCTCAATCAGAAGCCGAGAAATCTTTT
* ** * * * *
109965 GAGTGAAAGCCTAATGTTTTCTTATATAAATCTCAGAACGGTGCTTAATCAGAAGCCGATAAATC
66 CAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCAGAGAAATC
* * *
110030 TTTTCAGCCAAAGTCTAATATTTTCTTATATAAATCCCAGAACGATGGTCAATTAGAAGCCGAGA
131 TTTTCAGCCAAAGCCTAATATTTTCTTATATAAATCCCAGAACGATGCTCAATCAGAAGCCGAGA
*
110095 AATCTTTTCAGCCAAAGCCTAATGTTTTCTTATATAAATCTCAGAA
196 AATCTTTTCAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
* *
110141 CAAAGCCTAATGTTTTCTTATATAAATCCCAGAATGGTGCTCAATCAGAAGCCGAGAAATCTTTT
1 CAAAGCCTAATGGTTTCTTATATAAATCCCAGAATGATGCTCAATCAGAAGCCGAGAAATCTTTT
110206 CAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCAGAGAAATC
66 CAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCAGAGAAATC
* * * * *
110271 TTTTTAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAATGGTGCTGAATCAGAAGCCGAGA
131 TTTTCAGCCAAAGCCTAATATTTTCTTATATAAATCCCAGAACGATGCTCAATCAGAAGCCGAGA
*
110336 AATCTTTTCATCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
196 AATCTTTTCAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
110382 C
1 C
110383 GGTGCTCAAT
Statistics
Matches: 220, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
241 220 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (241 bp):
CAAAGCCTAATGGTTTCTTATATAAATCCCAGAATGATGCTCAATCAGAAGCCGAGAAATCTTTT
CAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAACGGTGCTCAATCAGAAGCAGAGAAATC
TTTTCAGCCAAAGCCTAATATTTTCTTATATAAATCCCAGAACGATGCTCAATCAGAAGCCGAGA
AATCTTTTCAGCCAAAGCCTAATGTTTTCTTATATAAATCCCAGAA
Done.