Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 311 of 352
Found at i:101534197 original size:21 final size:21
Alignment explanation
Indices: 101534168--101534209 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
101534158 AAACCTGGTA
101534168 AAAGCTATCAATACTTTTTGT
1 AAAGCTATCAATACTTTTTGT
*
101534189 AAAGGTATCAATACTTTTTGT
1 AAAGCTATCAATACTTTTTGT
101534210 GTAATTTGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (21 bp):
AAAGCTATCAATACTTTTTGT
Found at i:101543762 original size:34 final size:34
Alignment explanation
Indices: 101543723--101543787 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
101543713 AACTCCTCAA
*
101543723 CATAATCAATTCAAAATCTTTTTACTTGATTAAG
1 CATAATCAATTCAAAATCTTTTTACATGATTAAG
* *
101543757 CATAATCCATTCGAAATCTTTTTACATGATT
1 CATAATCAATTCAAAATCTTTTTACATGATT
101543788 CGATGGAGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.35, C:0.17, G:0.06, T:0.42
Consensus pattern (34 bp):
CATAATCAATTCAAAATCTTTTTACATGATTAAG
Found at i:101545699 original size:9 final size:8
Alignment explanation
Indices: 101545684--101545708 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
101545674 GAGGCCTTTT
101545684 GAAAAAAA
1 GAAAAAAA
101545692 GAAAAAAA
1 GAAAAAAA
101545700 GAAAAAAA
1 GAAAAAAA
101545708 G
1 G
101545709 GGCATGAATG
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:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:101553355 original size:20 final size:20
Alignment explanation
Indices: 101553288--101553355 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
101553278 ATTGTGTATA
*
101553288 TATTATTATTACATTTATTT
1 TATTATTACTACATTTATTT
** *
101553308 TATTCCTACTATATTTATTTT
1 TATTATTACTACATTTA-TTT
* * *
101553329 TAATATTAGTACATATATTT
1 TATTATTACTACATTTATTT
101553349 TATTATT
1 TATTATT
101553356 CTTGCATGCA
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
20 22 0.61
21 14 0.39
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.60
Consensus pattern (20 bp):
TATTATTACTACATTTATTT
Found at i:101565696 original size:73 final size:74
Alignment explanation
Indices: 101565600--101565763 Score: 215
Period size: 73 Copynumber: 2.2 Consensus size: 74
101565590 TGATGTTTTT
* * *
101565600 ATTTCTGTTT-TCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAAACGCTGA
1 ATTTCTGTTTGTC-A-AAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGAAACGCTAA
101565664 GG-TAATTTCA
64 GGATAATTTCA
* * **
101565674 TTTTTTGTTTGTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGGCACGCTAAGG
1 ATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGAAACGCTAAGG
101565739 TATAATTTCA
66 -ATAATTTCA
*
101565749 ATTTCTGTTTTTCAA
1 ATTTCTGTTTGTCAA
101565764 TTTCTGCTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
73 46 0.60
74 9 0.12
75 22 0.29
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (74 bp):
ATTTCTGTTTGTCAAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGAAACGCTAAGG
ATAATTTCA
Found at i:101565763 original size:14 final size:14
Alignment explanation
Indices: 101565744--101565777 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
101565734 TAAGGTATAA
*
101565744 TTTCAATTTCTGTT
1 TTTCAATTTCTGCT
101565758 TTTCAATTTCTGCT
1 TTTCAATTTCTGCT
101565772 TTTCAA
1 TTTCAA
101565778 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTGCT
Found at i:101565864 original size:89 final size:89
Alignment explanation
Indices: 101565687--101566099 Score: 526
Period size: 91 Copynumber: 4.6 Consensus size: 89
101565677 TTTGTTTGTC
* * * *
101565687 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGGCACGCTAAGGTATAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAT--TTTCAATT
* *
101565752 TCTGTTTTTCAATTTCTGCTTTTC-AA
64 TCTGTTTTTTAATTTCT-ATTTTCAAA
101565778 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
101565843 TGTTTTTTAATTTAC-ATTTTTC-AA
66 TGTTTTTTAATTT-CTA-TTTTCAAA
* * * * * *
101565867 AAAAATCAACTCATATTACGATAGGTGAGTTGAGCCTTAGGACACGCTGAGATATTTTTAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
101565932 TGTTTTTTTAATTTATATTTTTCAAA
66 TG-TTTTTTAATTTCTA-TTTTCAAA
* * *
101565958 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGGCACGCTGAGGAATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* *
101566023 TATTTTTCAAATTTCTATTTTCAAA
66 TGTTTTT-TAATTTCTATTTTCAAA
* * * * *
101566048 AAAAATCAATTCATACTGCGATAGGTGAGTTGAGCCTCAAGACACACTGAGG
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
101566100 AAATTCCAAA
Statistics
Matches: 284, Mismatches: 32, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
89 90 0.32
90 77 0.27
91 117 0.41
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (89 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTTAATTTCTATTTTCAAA
Found at i:101565989 original size:180 final size:176
Alignment explanation
Indices: 101565687--101566341 Score: 651
Period size: 180 Copynumber: 3.7 Consensus size: 176
101565677 TTTGTTTGTC
* * * *
101565687 AAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCAGGGCACGCTAAGGTATAATTTCAATT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGA-G-ATATTTTCAATT
* * ** *
101565752 TCTGTTTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
64 TCTGTTTTTTAATTTATATTTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA
* *
101565817 GGACACGCTGAGGTATTTTCAATTTCTGTTTTTTAATTTACATTTTTC-AA
127 GGACACGCTGAGGAATTTTCAATTTCTGTTTTTAAATTT-CATTTTTCAAA
* * * *
101565867 AAAAATCAACTCATATTACGATAGGTGAGTTGAGCCTTAGGACACGCTGAGATATTTTTAATTTT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAATTTC
101565932 TGTTTTTTTAATTTATATTTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA
66 TG-TTTTTTAATTTATATTTTTC---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCA
* *
101565997 GGGCACGCTGAGGAATTTTCAATTTCTATTTTTCAAATTTC-TATTTTCAAA
127 GGACACGCTGAGGAATTTTCAATTTCTGTTTTT-AAATTTCAT-TTTTCAAA
* * * * * * *
101566048 AAAAATCAATTCATACTGCGATAGGTGAGTTGAGCCTCAAGACACACTGAG-GA-----AA-TTC
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAATTTC
** * * * *
101566106 ------CAAATTT-TGTTTGTCAAAAATCAACTCATATTGCGATAAGTGAGTTGAGCCTCAGGGC
66 TGTTTTTTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGAC
* * * *
101566164 ACGCTAAGGAATTTTCAATTTTTGTTTTTCAATTTCTACTTTTCAAAAGA
131 ACGCTGAGGAATTTTCAATTTCTGTTTTTAAATTTC-ATTTTTC--AA-A
* * * * *
101566214 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATC-GGCTCACATGCTGAGGTATTTTCAGT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGATATTTTCAAT
*
101566278 TTCTGTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
63 TTCTG-TTTTTT-AATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
101566342 TGGCTTACAT
Statistics
Matches: 396, Mismatches: 50, Indels: 54
0.79 0.10 0.11
Matches are distributed among these distances:
162 6 0.02
163 73 0.18
165 3 0.01
166 41 0.10
167 5 0.01
168 8 0.02
169 1 0.00
174 3 0.01
175 5 0.01
178 13 0.03
179 18 0.05
180 122 0.31
181 52 0.13
183 5 0.01
184 41 0.10
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (176 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAATTTC
TGTTTTTTAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGAC
ACGCTGAGGAATTTTCAATTTCTGTTTTTAAATTTCATTTTTCAAA
Found at i:101566031 original size:14 final size:15
Alignment explanation
Indices: 101566012--101566047 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
101566002 CGCTGAGGAA
101566012 TTTTC-AATTTCTAT
1 TTTTCAAATTTCTAT
101566026 TTTTCAAATTTCTA-
1 TTTTCAAATTTCTAT
101566040 TTTTCAAA
1 TTTTCAAA
101566048 AAAAATCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.28, C:0.14, G:0.00, T:0.58
Consensus pattern (15 bp):
TTTTCAAATTTCTAT
Found at i:101566152 original size:73 final size:73
Alignment explanation
Indices: 101566048--101566195 Score: 197
Period size: 73 Copynumber: 2.0 Consensus size: 73
101566038 TATTTTCAAA
* * *
101566048 AAAAATCAATTCATACTGCGATAGGTGAGTTGAGCCTCAAGACACACTGAGGAAATTCCAAATTT
1 AAAAATCAACTCATACTGCGATAAGTGAGTTGAGCCTCAAGACACACTAAGGAAATTCCAAATTT
101566113 TGTTTGTC
66 TGTTTGTC
* * * * * * *
101566121 AAAAATCAACTCATATTGCGATAAGTGAGTTGAGCCTCAGGGCACGCTAAGGAATTTTCAATTTT
1 AAAAATCAACTCATACTGCGATAAGTGAGTTGAGCCTCAAGACACACTAAGGAAATTCCAAATTT
*
101566186 TGTTTTTC
66 TGTTTGTC
101566194 AA
1 AA
101566196 TTTCTACTTT
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
73 64 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (73 bp):
AAAAATCAACTCATACTGCGATAAGTGAGTTGAGCCTCAAGACACACTAAGGAAATTCCAAATTT
TGTTTGTC
Found at i:101566327 original size:91 final size:90
Alignment explanation
Indices: 101566119--101566377 Score: 292
Period size: 91 Copynumber: 2.8 Consensus size: 90
101566109 ATTTTGTTTG
* * * * *
101566119 TCAAAAATCAACTCATATTGCGATAAGTGAGTTGAGCCTCAGG-GCAC--GCTAAGGAATTTTCA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTTCA
* *
101566181 ATTTT-TGTTTTTCAATTTCTACTTT
65 ATTTTGTTTTTTTCAATTTATACTTT
*
101566206 TCAAAAGAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGCTCACATGCTGAGGTAT
1 TC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTAT
* *
101566271 TTTCAGTTTCTGTTTTTTTCAATTTATATTTT
60 TTTCAATTT-TGTTTTTTTCAATTTATACTTT
* * *
101566303 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTTACATGCTGAGCTATTTTCAA
1 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
101566368 TTTATGTTTT
66 TTT-TGTTTT
101566378 AACGTCTGTT
Statistics
Matches: 145, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
87 2 0.01
91 67 0.46
92 2 0.01
93 38 0.26
95 16 0.11
96 1 0.01
97 19 0.13
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (90 bp):
TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAA
TTTTGTTTTTTTCAATTTATACTTT
Found at i:101570451 original size:39 final size:39
Alignment explanation
Indices: 101570360--101570508 Score: 210
Period size: 39 Copynumber: 3.8 Consensus size: 39
101570350 ATTCCACTCC
* * * *
101570360 CCCCATGCTACTTTGTTTTATTATTAATCAAAACCAC-T
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTACTT
* *
101570398 CCCCATGCTATTTTGTTTTATTGTTAATTAAAACTACTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTACTT
*
101570437 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTT
1 CCCCATACTATTTTGTTTTATTATTAATTAAAACTACTT
* *
101570476 CCTCATACCATTTTGTTTTATTATTAATTAAAA
1 CCCCATACTATTTTGTTTTATTATTAATTAAAA
101570509 TCATACTTTA
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
38 33 0.32
39 69 0.68
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.46
Consensus pattern (39 bp):
CCCCATACTATTTTGTTTTATTATTAATTAAAACTACTT
Found at i:101570458 original size:77 final size:78
Alignment explanation
Indices: 101570360--101570508 Score: 210
Period size: 77 Copynumber: 1.9 Consensus size: 78
101570350 ATTCCACTCC
* * * *
101570360 CCCCATGCTACTTTGTTTTATTATTAATCAAAACCAC-TCCCCATGCTATTTTGTTTTATTGTTA
1 CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTGTTTTATTATTA
101570424 ATTAAAACTACTT
66 ATTAAAACTACTT
* * * * *
101570437 CCCCATACTATTTTGTTTTATTGTTAATTAAAACTACTTCCTCATACCATTTTGTTTTATTATTA
1 CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTGTTTTATTATTA
101570502 ATTAAAA
66 ATTAAAA
101570509 TCATACTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
77 32 0.52
78 30 0.48
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.46
Consensus pattern (78 bp):
CCCCATACTACTTTGTTTTATTATTAATCAAAACCACTTCCCCATACCATTTTGTTTTATTATTA
ATTAAAACTACTT
Found at i:101571633 original size:26 final size:25
Alignment explanation
Indices: 101571600--101571670 Score: 67
Period size: 24 Copynumber: 2.8 Consensus size: 25
101571590 AGTTATATTT
101571600 TTTTATATACTATTCTATGTACATA
1 TTTTATATACTATTCTATGTACATA
*
101571625 TTTTCATAT-C-A-TCTTATGTATATA
1 TTTT-ATATACTATTC-TATGTACATA
* *
101571649 TTCTTAAATACTATTATATGTA
1 TT-TTATATACTATTCTATGTA
101571671 TATGTATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
23 2 0.05
24 15 0.41
25 8 0.22
26 11 0.30
27 1 0.03
ACGTcount: A:0.32, C:0.11, G:0.04, T:0.52
Consensus pattern (25 bp):
TTTTATATACTATTCTATGTACATA
Found at i:101577281 original size:40 final size:40
Alignment explanation
Indices: 101577202--101577458 Score: 333
Period size: 40 Copynumber: 6.5 Consensus size: 40
101577192 CGGATGATAA
* *
101577202 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
101577242 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
101577282 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
101577322 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
101577362 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
101577402 CCGGGCTAAGACCCGAGGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
101577442 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
101577459 ATACTTGGGT
Statistics
Matches: 187, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 16 0.09
40 166 0.89
41 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:101577340 original size:80 final size:80
Alignment explanation
Indices: 101577202--101577458 Score: 412
Period size: 80 Copynumber: 3.2 Consensus size: 80
101577192 CGGATGATAA
* *
101577202 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
101577267 TGCTAGTGATTATAT
66 TGCTAGTGATTATAT
101577282 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
101577347 TGCTAGTGATTATAT
66 TGCTAGTGATTATAT
* * * *
101577362 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAGGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
*
101577427 TGCGAGTTG-TTATAT
66 TGCTAG-TGATTATAT
101577442 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
101577459 ATACTTGGGT
Statistics
Matches: 168, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
78 1 0.01
79 13 0.08
80 152 0.90
81 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
TGCTAGTGATTATAT
Found at i:101579852 original size:30 final size:30
Alignment explanation
Indices: 101579816--101579874 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
101579806 CCTTAGAAAA
101579816 CTCGATCTTGAA-TTCCTTAAATCTTGAAGG
1 CTCGATCTT-AAGTTCCTTAAATCTTGAAGG
*
101579846 CTCGATCTTAAGTTCTTTAAATCTTGAAG
1 CTCGATCTTAAGTTCCTTAAATCTTGAAG
101579875 CAATATGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (30 bp):
CTCGATCTTAAGTTCCTTAAATCTTGAAGG
Found at i:101587211 original size:21 final size:21
Alignment explanation
Indices: 101587172--101587211 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
101587162 ACAAAATATC
*
101587172 TAACTTAAACCGATGATTTAG
1 TAACTTAAACCGATAATTTAG
101587193 TAACTTAAACACGA-AATTT
1 TAACTTAAAC-CGATAATTT
101587212 TGCATCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (21 bp):
TAACTTAAACCGATAATTTAG
Found at i:101599047 original size:156 final size:156
Alignment explanation
Indices: 101598765--101599231 Score: 832
Period size: 156 Copynumber: 3.0 Consensus size: 156
101598755 GAAGCAATAA
*
101598765 CTGAAAACTACTTGGAAATATTTGACCTACC---TTATCACATGAAGCAGTTCGAGAAAGAGAAT
1 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTTATCACATGAAGCAGTTCGAGAAAGAGAAT
*
101598827 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAATCTAAG
66 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
*
101598892 TTTACCTTTTCTTTTAAAGCATAAAG
131 TTTACCTTTTCTTTTAAAGCAGAAAG
101598918 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTTATCACATGAAGCAGTTCGAGAAAGAGAAT
1 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTTATCACATGAAGCAGTTCGAGAAAGAGAAT
* *
101598983 TGTCAGGGACCGATTCTTCTGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
66 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
101599048 TTTACCTTTTCTTTTAAAGCAGAAAG
131 TTTACCTTTTCTTTTAAAGCAGAAAG
*
101599074 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTCATCACATGAAGCAGTTCGAGAAAGAGAAT
1 CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTTATCACATGAAGCAGTTCGAGAAAGAGAAT
* *
101599139 TATCAGGGACCGATTCTTCCGTATCATTTGGAGTACTTTTAATCTGTCAGATAACCCAAACTAAG
66 TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
*
101599204 TTTATCTTTTCTTTTAAAGCAGAAAG
131 TTTACCTTTTCTTTTAAAGCAGAAAG
101599230 CT
1 CT
101599232 ACTAAGAGAA
Statistics
Matches: 300, Mismatches: 11, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
153 30 0.10
156 270 0.90
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (156 bp):
CTGAAAGCTACTTGGAAATATTTGACCTACCTTGTTATCACATGAAGCAGTTCGAGAAAGAGAAT
TATCAGGGACCGATTCTTCCGTATCCTTTGGACTACTTTTAATCTGTCAGATAACCCAAACTAAG
TTTACCTTTTCTTTTAAAGCAGAAAG
Found at i:101612150 original size:21 final size:21
Alignment explanation
Indices: 101612090--101612150 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
101612080 GCTAAACAGG
*
101612090 AACCCATAAGGGTTGAACGAA
1 AACCCATAAGGGTTGAACAAA
* * * * *
101612111 AGCTCGTAAGAGCTGAACAAA
1 AACCCATAAGGGTTGAACAAA
*
101612132 AACCCATAAGGGTTAAACA
1 AACCCATAAGGGTTGAACA
101612151 GAAGCTCAAT
Statistics
Matches: 28, Mismatches: 12, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.20, G:0.21, T:0.15
Consensus pattern (21 bp):
AACCCATAAGGGTTGAACAAA
Found at i:101612167 original size:42 final size:41
Alignment explanation
Indices: 101612063--101612169 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 41
101612053 CCGAAGGCTG
* * ** *
101612063 AACAGAAGCACATAAATGCTAAACAGGAACCCATAAGGGTTG
1 AACAGAAGCTCATAAA-GCTGAACAAAAACCCATAAGGGTTA
*
101612105 AAC-GAAAGCTCGTAAGAGCTGAACAAAAACCCATAAGGGTTA
1 AACAG-AAGCTCATAA-AGCTGAACAAAAACCCATAAGGGTTA
101612147 AACAGAAGCTCAATAAAGCTGAA
1 AACAGAAGCTC-ATAAAGCTGAA
101612170 TGGAAACCTA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.02
42 48 0.89
43 5 0.09
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.14
Consensus pattern (41 bp):
AACAGAAGCTCATAAAGCTGAACAAAAACCCATAAGGGTTA
Found at i:101614937 original size:38 final size:37
Alignment explanation
Indices: 101614895--101614969 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
101614885 TTAAAAAATG
101614895 AAAATA-TGAATGTGATAAT-AAAATATTTTTTATATGTT
1 AAAATACTGAATGT-A-AATAAAAATA-TTTTTATATGTT
*
101614933 AAAATACTTAATGTAAATAAAAATATTTTTATATGTT
1 AAAATACTGAATGTAAATAAAAATATTTTTATATGTT
101614970 TTTGATTAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
37 15 0.44
38 13 0.38
39 6 0.18
ACGTcount: A:0.47, C:0.01, G:0.08, T:0.44
Consensus pattern (37 bp):
AAAATACTGAATGTAAATAAAAATATTTTTATATGTT
Found at i:101617391 original size:14 final size:14
Alignment explanation
Indices: 101617368--101617401 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
101617358 TACAATATCC
101617368 AAATAATAACAATA
1 AAATAATAACAATA
*
101617382 AAATAGTAACAATA
1 AAATAATAACAATA
*
101617396 TAATAA
1 AAATAA
101617402 CTAAATGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (14 bp):
AAATAATAACAATA
Found at i:101618653 original size:20 final size:22
Alignment explanation
Indices: 101618620--101618659 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
101618610 TGGTCTTCCG
*
101618620 CTTGCTTTCTATCT-TACATCA
1 CTTGCTTTCAATCTCTACATCA
101618641 CTTG-TTTCAATCTCTACAT
1 CTTGCTTTCAATCTCTACAT
101618660 GAAAAACATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.20, C:0.28, G:0.05, T:0.47
Consensus pattern (22 bp):
CTTGCTTTCAATCTCTACATCA
Found at i:101619986 original size:53 final size:53
Alignment explanation
Indices: 101619905--101620055 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
101619895 CTTACACGGT
* *
101619905 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
101619960 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
101620013 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
101620056 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:101623832 original size:9 final size:9
Alignment explanation
Indices: 101623818--101623849 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
101623808 ATCAAAGGAT
101623818 GATGATTCG
1 GATGATTCG
101623827 GATGATTCG
1 GATGATTCG
*
101623836 GATGGTTCG
1 GATGATTCG
101623845 GATGA
1 GATGA
101623850 AGATTATGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.22, C:0.09, G:0.38, T:0.31
Consensus pattern (9 bp):
GATGATTCG
Found at i:101624107 original size:24 final size:24
Alignment explanation
Indices: 101624080--101624125 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
101624070 ATTGTATCGG
*
101624080 ATGAAGAGGAGGAAGATGAAGATT
1 ATGAAGAGGAGGAAGAAGAAGATT
* *
101624104 ATGAGGTGGAGGAAGAAGAAGA
1 ATGAAGAGGAGGAAGAAGAAGA
101624126 AGATGACGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.41, T:0.13
Consensus pattern (24 bp):
ATGAAGAGGAGGAAGAAGAAGATT
Found at i:101649230 original size:15 final size:16
Alignment explanation
Indices: 101649212--101649242 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
101649202 AATAAACAAT
101649212 TTAAATTTA-AATTTA
1 TTAAATTTATAATTTA
101649227 TTAAATTTATAATTTA
1 TTAAATTTATAATTTA
101649243 AAGTCTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAATTTATAATTTA
Found at i:101649785 original size:19 final size:20
Alignment explanation
Indices: 101649751--101649795 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
101649741 CAAAAAATTT
*
101649751 AAAAATCAAAGTAATTT-TCA
1 AAAAATCAAAGAAATTTAT-A
101649771 AAAAATCAAA-AAATTTATA
1 AAAAATCAAAGAAATTTATA
101649790 AAAAAT
1 AAAAAT
101649796 TCAGAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAATCAAAGAAATTTATA
Found at i:101649793 original size:20 final size:20
Alignment explanation
Indices: 101649751--101649794 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
101649741 CAAAAAATTT
* *
101649751 AAAAATCAAAGTAATTTTCA
1 AAAAATCAAAGAAATTTTAA
101649771 AAAAATCAAA-AAATTTATAA
1 AAAAATCAAAGAAATTT-TAA
101649791 AAAA
1 AAAA
101649795 TTCAGAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.66, C:0.07, G:0.02, T:0.25
Consensus pattern (20 bp):
AAAAATCAAAGAAATTTTAA
Found at i:101649834 original size:20 final size:21
Alignment explanation
Indices: 101649811--101649851 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
101649801 AATTATATTT
101649811 TTTTAAAAAAAAT-TAAAAAA
1 TTTTAAAAAAAATATAAAAAA
* *
101649831 TTTTAAAGAATATATAAAAAA
1 TTTTAAAAAAAATATAAAAAA
101649852 AAGTTTACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
TTTTAAAAAAAATATAAAAAA
Found at i:101658654 original size:18 final size:18
Alignment explanation
Indices: 101658631--101658666 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
101658621 TGAAATCACT
*
101658631 TGCAAAAGCAATACTAAA
1 TGCAAAAGCAAGACTAAA
*
101658649 TGCAAAAGTAAGACTAAA
1 TGCAAAAGCAAGACTAAA
101658667 AAAATGCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.14, G:0.14, T:0.17
Consensus pattern (18 bp):
TGCAAAAGCAAGACTAAA
Found at i:101662779 original size:21 final size:21
Alignment explanation
Indices: 101662749--101662788 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
101662739 CCTAAGCGCA
*
101662749 ATTGGGTCATTGCGAGATGAC
1 ATTGGGTCATTACGAGATGAC
*
101662770 ATTGGTTCATTACGAGATG
1 ATTGGGTCATTACGAGATG
101662789 TAATGCTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.30, T:0.33
Consensus pattern (21 bp):
ATTGGGTCATTACGAGATGAC
Found at i:101669225 original size:35 final size:35
Alignment explanation
Indices: 101669185--101669308 Score: 90
Period size: 40 Copynumber: 3.4 Consensus size: 35
101669175 TGAATGTTAG
*
101669185 CCCAGCTCTAGTTGGATAAACCAACAATGTTTGCA
1 CCCAGCGCTAGTTGGATAAACCAACAATGTTTGCA
* * * * ** *
101669220 CCCAGCGCTAGTCGGGTTAGCTGACGATATTGAATGTG-A
1 CCCAGCGCTAGTTGGATAAACCAAC-A-A-TG--TTTGCA
* *
101669259 GCCCAGCTCTAGTTGGATAAACCAA-AATCTTTGCA
1 -CCCAGCGCTAGTTGGATAAACCAACAATGTTTGCA
101669294 CCCAGCGCTAGTTGG
1 CCCAGCGCTAGTTGG
101669309 GTTAGTCGAT
Statistics
Matches: 64, Mismatches: 18, Indels: 15
0.66 0.19 0.15
Matches are distributed among these distances:
34 17 0.27
35 19 0.30
36 2 0.03
37 2 0.03
38 3 0.05
39 1 0.02
40 20 0.31
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (35 bp):
CCCAGCGCTAGTTGGATAAACCAACAATGTTTGCA
Found at i:101669262 original size:75 final size:74
Alignment explanation
Indices: 101669138--101669386 Score: 338
Period size: 75 Copynumber: 3.3 Consensus size: 74
101669128 TCGCAGAGGA
* * * * *
101669138 GTTTGCGCCCAGCACTAGTCGAGTTAGCCGACGATATTGAATGTTAGCCCAGCTCTAGTTGGATA
1 GTTTGCACCCAGCGCTAGTCGGGTTAGCTGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATA
101669203 AACCAACAAT
66 AACCAA-AAT
101669213 GTTTGCACCCAGCGCTAGTCGGGTTAGCTGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATA
1 GTTTGCACCCAGCGCTAGTCGGGTTAGCTGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATA
101669278 AACCAAAAT
66 AACCAAAAT
* * * *
101669287 CTTTGCACCCAGCGCTAGTTGGGTTAG-TCGATGATATTGAATGTGAGCCCAACTCTAGTTGGAT
1 GTTTGCACCCAGCGCTAGTCGGGTTAGCT-GACGATATTGAATGTGAGCCCAGCTCTAGTTGGAT
**
101669351 AAACCAATGGT
65 AAACCAA-AAT
* *
101669362 GTTTGCGCCCAGTGCTAGTCAGGGT
1 GTTTGCACCCAGCGCTAGTC-GGGT
101669387 ATTTCGACGA
Statistics
Matches: 156, Mismatches: 15, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
73 1 0.01
74 68 0.44
75 83 0.53
76 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (74 bp):
GTTTGCACCCAGCGCTAGTCGGGTTAGCTGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATA
AACCAAAAT
Found at i:101669331 original size:74 final size:74
Alignment explanation
Indices: 101669139--101669357 Score: 332
Period size: 74 Copynumber: 2.9 Consensus size: 74
101669129 CGCAGAGGAG
* * * *
101669139 TTTGCGCCCAGCACTAGTCGAGTTAGCCGACGATATTGAATGTTAGCCCAGCTCTAGTTGGATAA
1 TTTGCACCCAGCGCTAGTCGGGTTAG-CGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATAA
*
101669204 ACCAACAATG
65 ACCAACAATC
101669214 TTTGCACCCAGCGCTAGTCGGGTTAGCTGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATAA
1 TTTGCACCCAGCGCTAGTCGGGTTAGC-GACGATATTGAATGTGAGCCCAGCTCTAGTTGGATAA
101669279 ACCAA-AATC
65 ACCAACAATC
* * *
101669288 TTTGCACCCAGCGCTAGTTGGGTTAGTCGATGATATTGAATGTGAGCCCAACTCTAGTTGGATAA
1 TTTGCACCCAGCGCTAGTCGGGTTAG-CGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATAA
101669353 ACCAA
65 ACCAA
101669358 TGGTGTTTGC
Statistics
Matches: 134, Mismatches: 8, Indels: 5
0.91 0.05 0.03
Matches are distributed among these distances:
74 69 0.51
75 65 0.49
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.26
Consensus pattern (74 bp):
TTTGCACCCAGCGCTAGTCGGGTTAGCGACGATATTGAATGTGAGCCCAGCTCTAGTTGGATAAA
CCAACAATC
Found at i:101673565 original size:2 final size:2
Alignment explanation
Indices: 101673558--101673583 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
101673548 CTATTGTTCT
101673558 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
101673584 AAGGATTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:101680377 original size:16 final size:16
Alignment explanation
Indices: 101680358--101680400 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
101680348 TAAAAATAAT
101680358 TTAAAATATAAATTTA
1 TTAAAATATAAATTTA
*
101680374 TTAATATATAAAAATTTA
1 TTAA-A-ATATAAATTTA
*
101680392 TTAATATAT
1 TTAAAATAT
101680401 GTAAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
16 7 0.32
17 1 0.05
18 14 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATAAATTTA
Found at i:101680527 original size:20 final size:19
Alignment explanation
Indices: 101680483--101680519 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
101680473 TCCAAACACT
101680483 AGAAAAGTAAATCATTTTC
1 AGAAAAGTAAATCATTTTC
*
101680502 AAAAAAGTAAATCATTTT
1 AGAAAAGTAAATCATTTT
101680520 TCGGAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (19 bp):
AGAAAAGTAAATCATTTTC
Found at i:101682564 original size:55 final size:53
Alignment explanation
Indices: 101682477--101682630 Score: 186
Period size: 55 Copynumber: 2.9 Consensus size: 53
101682467 ATAAAAATAT
* *
101682477 CAGTATTT-AAAAAAAGTTGGTTCTGGTCTGTCAATGGCCAGCACCAGAGTAC
1 CAGTATTTAAAAAAAAATTGGTGCTGGTCTGTCAATGGCCAGCACCAGAGTAC
* * * *
101682529 GAGTTTTTTAAAAAAAAATTTGGTGCTGGTCTGTCAATGGTCGGCACCAGAGTAC
1 CAG-TATTTAAAAAAAAA-TTGGTGCTGGTCTGTCAATGGCCAGCACCAGAGTAC
* * *
101682584 CAGTATTTAAAAAAAAATTAGAGCTGG-CTTGTTAATGGCCAGCACCA
1 CAGTATTTAAAAAAAAATTGGTGCTGGTC-TGTCAATGGCCAGCACCA
101682631 AACTTAGTAT
Statistics
Matches: 85, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
52 3 0.04
53 27 0.32
54 20 0.24
55 35 0.41
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (53 bp):
CAGTATTTAAAAAAAAATTGGTGCTGGTCTGTCAATGGCCAGCACCAGAGTAC
Found at i:101685959 original size:25 final size:25
Alignment explanation
Indices: 101685918--101685978 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
101685908 CCATTTTTTT
*
101685918 TTCATTTTAATTTAATTTCATTTCAA
1 TTCA-TTTCATTTAATTTCATTTCAA
**
101685944 TT-ATTTCATTTCAATTTTTTTTCAA
1 TTCATTTCATTT-AATTTCATTTCAA
101685969 TTCATTTCAT
1 TTCATTTCAT
101685979 ATTATTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 7 0.23
25 14 0.47
26 9 0.30
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (25 bp):
TTCATTTCATTTAATTTCATTTCAA
Found at i:101685972 original size:16 final size:16
Alignment explanation
Indices: 101685912--101685972 Score: 63
Period size: 16 Copynumber: 3.9 Consensus size: 16
101685902 TTTCAACCAT
* *
101685912 TTTTTTTTCATTTTAA
1 TTTTATTTCATTTCAA
*
101685928 TTTAATTTCATTTCAA
1 TTTTATTTCATTTCAA
101685944 --TTATTTCATTTCAA
1 TTTTATTTCATTTCAA
* *
101685958 TTTTTTTTCAATTCA
1 TTTTATTTCATTTCA
101685973 TTTCATATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
14 13 0.35
16 24 0.65
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTATTTCATTTCAA
Found at i:101686002 original size:22 final size:24
Alignment explanation
Indices: 101685938--101686079 Score: 134
Period size: 24 Copynumber: 5.8 Consensus size: 24
101685928 TTTAATTTCA
101685938 TTTCAATT-ATTTCAT-TTCAATTTTT
1 TTTCAATTCATTTCATATT--A-TTTT
101685963 TTTCAATTCATTTCATATTATTTT
1 TTTCAATTCATTTCATATTATTTT
* *
101685987 TTTC-ATT-TTTTTATATTATTTTT
1 TTTCAATTCATTTCATATTA-TTTT
101686010 TTTCAATTCATTTCATATTATTTT
1 TTTCAATTCATTTCATATTATTTT
*
101686034 TCTCATATT-ATTTTTTCATATTATTATT
1 TTTCA-ATTCA---TTTCATATTATT-TT
101686062 TTT-AATTCATTTCATATT
1 TTTCAATTCATTTCATATT
101686080 TTATCAAATT
Statistics
Matches: 100, Mismatches: 6, Indels: 23
0.78 0.05 0.18
Matches are distributed among these distances:
22 9 0.09
23 11 0.11
24 29 0.29
25 21 0.21
26 10 0.10
27 16 0.16
28 4 0.04
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTCAATTCATTTCATATTATTTT
Found at i:101686008 original size:47 final size:51
Alignment explanation
Indices: 101685957--101686079 Score: 184
Period size: 47 Copynumber: 2.5 Consensus size: 51
101685947 TTTCATTTCA
*
101685957 ATTTTTTTTCAATTCATTTCATATTATTTTTTTC-A-T-TTTTTT-ATATT
1 ATTTTTTTTCAATTCATTTCATATTATTTTTCTCAATTATTTTTTCATATT
101686004 ATTTTTTTTCAATTCATTTCATATTATTTTTCTCATATTATTTTTTCATATT
1 ATTTTTTTTCAATTCATTTCATATTATTTTTCTCA-ATTATTTTTTCATATT
*
101686056 ATTATTTTT-AATTCATTTCATATT
1 ATTTTTTTTCAATTCATTTCATATT
101686080 TTATCAAATT
Statistics
Matches: 69, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
47 33 0.48
49 1 0.01
50 1 0.01
51 21 0.30
52 13 0.19
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.67
Consensus pattern (51 bp):
ATTTTTTTTCAATTCATTTCATATTATTTTTCTCAATTATTTTTTCATATT
Found at i:101686009 original size:13 final size:13
Alignment explanation
Indices: 101685973--101686063 Score: 72
Period size: 14 Copynumber: 7.2 Consensus size: 13
101685963 TTTCAATTCA
101685973 TTTCATATTATTTT
1 TTTCATATTA-TTT
101685987 TTTCAT-TT-TTT
1 TTTCATATTATTT
*
101685998 TAT-ATTATT-TTT
1 TTTCA-TATTATTT
101686010 TTTCA-ATTCA---
1 TTTCATATT-ATTT
101686020 TTTCATATTATTT
1 TTTCATATTATTT
101686033 TTCTCATATTATTT
1 TT-TCATATTATTT
101686047 TTTCATATTATTAT
1 TTTCATATTATT-T
101686061 TTT
1 TTT
101686064 TAATTCATTT
Statistics
Matches: 64, Mismatches: 2, Indels: 22
0.73 0.02 0.25
Matches are distributed among these distances:
10 7 0.11
11 12 0.19
12 7 0.11
13 15 0.23
14 23 0.36
ACGTcount: A:0.22, C:0.09, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTCATATTATTT
Found at i:101686304 original size:44 final size:40
Alignment explanation
Indices: 101686249--101686331 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 40
101686239 AAAAAATCTG
101686249 ATTTAAAAAATTTTAT-TTTCATTTTAGTATTTCTTTTCATTTAA
1 ATTTAAAAAATTTTATATTT-A-TTTA--ATTT-TTTTCATTTAA
*
101686293 ATTTATAAAATTTTATATTTATTTAATTTTTTTCATTTA
1 ATTTAAAAAATTTTATATTTATTTAATTTTTTTCATTTA
101686332 TTCCTTTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
40 10 0.27
41 4 0.11
43 4 0.11
44 16 0.43
45 3 0.08
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (40 bp):
ATTTAAAAAATTTTATATTTATTTAATTTTTTTCATTTAA
Found at i:101686561 original size:15 final size:16
Alignment explanation
Indices: 101686538--101686593 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
101686528 CTTGTTAAGG
*
101686538 TTTCTTTTCTTTTT-T
1 TTTCATTTCTTTTTAT
101686553 TTTCATTTCTTTTTAT
1 TTTCATTTCTTTTTAT
* *
101686569 TTGCATTTCATTTTAAT
1 TTTCATTTC-TTTTTAT
101686586 TTT-ATTTC
1 TTTCATTTC
101686594 ATTCCAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 13 0.37
16 14 0.40
17 8 0.23
ACGTcount: A:0.12, C:0.12, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTCATTTCTTTTTAT
Found at i:101686580 original size:5 final size:5
Alignment explanation
Indices: 101686553--101686636 Score: 60
Period size: 5 Copynumber: 15.6 Consensus size: 5
101686543 TTTCTTTTTT
* * * * *
101686553 TTTCA TTTCT TTTTA TTTGCA TTTCA TTTTAA TTTTA TTTCA TTCCAA
1 TTTCA TTTCA TTTCA TTT-CA TTTCA -TTTCA TTTCA TTTCA TTTC-A
*
101686601 TTTCA TTTCCA TTCCCA TTTCCA TTTCA TTTCA TTT
1 TTTCA TTT-CA TT-TCA TTT-CA TTTCA TTTCA TTT
101686637 AAATTATATT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
5 37 0.60
6 25 0.40
ACGTcount: A:0.19, C:0.20, G:0.01, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:101686630 original size:17 final size:16
Alignment explanation
Indices: 101686567--101686630 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 16
101686557 ATTTCTTTTT
**
101686567 ATTTGCATTTCATTTTA
1 ATTT-CATTTCATTCCA
*
101686584 ATTTTATTTCATTCCA
1 ATTTCATTTCATTCCA
*
101686600 ATTTCATTTCCATTCCC
1 ATTTCATTT-CATTCCA
101686617 ATTTCCATTTCATT
1 ATTT-CATTTCATT
101686631 TCATTTAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
16 17 0.43
17 18 0.45
18 5 0.12
ACGTcount: A:0.22, C:0.22, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTCATTTCATTCCA
Found at i:101686661 original size:22 final size:21
Alignment explanation
Indices: 101686629--101686715 Score: 90
Period size: 21 Copynumber: 4.1 Consensus size: 21
101686619 TTCCATTTCA
101686629 TTTC-ATTTAAATTATATTTTT
1 TTTCAATTTAAATT-TATTTTT
101686650 TTTCAATTTAAATTTATTTTT
1 TTTCAATTTAAATTTATTTTT
*
101686671 TTCTCAA-TT-CATTTATATTATT
1 TT-TCAATTTAAATTTAT-TT-TT
* *
101686693 TTTAAATTTAAATTTAATTTT
1 TTTCAATTTAAATTTATTTTT
101686714 TT
1 TT
101686716 CCTCATTTCA
Statistics
Matches: 56, Mismatches: 4, Indels: 12
0.78 0.06 0.17
Matches are distributed among these distances:
20 6 0.11
21 24 0.43
22 21 0.38
23 5 0.09
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTCAATTTAAATTTATTTTT
Found at i:101686701 original size:43 final size:44
Alignment explanation
Indices: 101686640--101686729 Score: 137
Period size: 43 Copynumber: 2.1 Consensus size: 44
101686630 TTCATTTAAA
* * *
101686640 TTATATTTTTTTTCAATTTAAATTT-ATTTTTTTCTCAATTCAT
1 TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCAATTCAT
*
101686683 TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCATTTCAT
1 TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCAATTCAT
101686727 TTA
1 TTA
101686730 AATTTCCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 23 0.55
44 19 0.45
ACGTcount: A:0.28, C:0.09, G:0.00, T:0.63
Consensus pattern (44 bp):
TTATATTATTTTTAAATTTAAATTTAATTTTTTCCTCAATTCAT
Found at i:101686754 original size:48 final size:46
Alignment explanation
Indices: 101686626--101686759 Score: 139
Period size: 48 Copynumber: 2.9 Consensus size: 46
101686616 CATTTCCATT
* *
101686626 TCATTTCATTTAAATTATATTTTTTTTCAATTTAAATTT-ATTTTTTTC
1 TCATTTCATTTAAA-T-T-TTATTTTTCAATTTAAATTTAATTTTTTCC
* * *
101686674 TCAATTCATTT--ATATTATTTTTAAATTTAAATTTAATTTTTTCC
1 TCATTTCATTTAAATTTTATTTTTCAATTTAAATTTAATTTTTTCC
**
101686718 TCATTTCATTTAAATTTCCTATTTTTCAATGCAAATTTAATT
1 TCATTTCATTTAAATTT--TATTTTTCAATTTAAATTTAATT
101686760 GTCATTTCTT
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
43 18 0.25
44 18 0.25
45 1 0.01
46 4 0.06
48 30 0.42
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (46 bp):
TCATTTCATTTAAATTTTATTTTTCAATTTAAATTTAATTTTTTCC
Found at i:101686874 original size:77 final size:77
Alignment explanation
Indices: 101686789--101686966 Score: 209
Period size: 77 Copynumber: 2.3 Consensus size: 77
101686779 ATATCTTTCC
* *
101686789 ATTTAATTTTTTT-TCTTATTCTATTTAAATTAA-AAGTTTTCCTCATTTCATTTAAATTTATCT
1 ATTTAATTTTTTTCTCAT-TTC-ATTTAAATGAATAAGTTTTCCTCATTTCATTTAAATTTATCT
101686852 TTCTTTCAAATTTA
64 TTCTTTCAAATTTA
* *** *
101686866 ATTTAATTTTTTTCTCATTTCATTTCAATGAATTTTTTTTCCTCTTTTCATTTAAATTTATCTTT
1 ATTTAATTTTTTTCTCATTTCATTTAAATGAATAAGTTTTCCTCATTTCATTTAAATTTATCTTT
* *
101686931 CTTTCAATTTTC
66 CTTTCAAATTTA
* *
101686943 ATTTAAATTTTGTAC-CATTTCATT
1 ATTT-AATTTTTTTCTCATTTCATT
101686967 CCAAACAAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
76 9 0.10
77 67 0.77
78 11 0.13
ACGTcount: A:0.25, C:0.13, G:0.02, T:0.60
Consensus pattern (77 bp):
ATTTAATTTTTTTCTCATTTCATTTAAATGAATAAGTTTTCCTCATTTCATTTAAATTTATCTTT
CTTTCAAATTTA
Found at i:101686981 original size:77 final size:78
Alignment explanation
Indices: 101686825--101687001 Score: 241
Period size: 77 Copynumber: 2.3 Consensus size: 78
101686815 AAATTAAAAG
* *
101686825 TTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTTTTCTCATTTCATT
1 TTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTGTACTCATTTCATT
* ** *
101686890 TC-AATGAATTTT
66 CCAAACAAAATTT
* * *
101686902 TTTTCCTCTTTTCATTTAAATTTATCTTTCTTTCAATTTTCATTTAAATTTTGTAC-CATTTCAT
1 TTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTT-AATTTTGTACTCATTTCAT
101686966 TCCAAACAAAATTT
65 TCCAAACAAAATTT
*
101686980 TTTTTCTCATTTCATTTAAATT
1 TTTTCCTCATTTCATTTAAATT
101687002 ATCAACCTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
77 52 0.60
78 35 0.40
ACGTcount: A:0.25, C:0.16, G:0.01, T:0.58
Consensus pattern (78 bp):
TTTTCCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTGTACTCATTTCATT
CCAAACAAAATTT
Found at i:101699449 original size:14 final size:13
Alignment explanation
Indices: 101699423--101699448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101699413 AAGAGGAGTT
101699423 TTTTTAAATAAAA
1 TTTTTAAATAAAA
101699436 TTTTTAAATAAAA
1 TTTTTAAATAAAA
101699449 AAATTATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTTTAAATAAAA
Found at i:101705770 original size:48 final size:46
Alignment explanation
Indices: 101705707--101705844 Score: 125
Period size: 48 Copynumber: 2.8 Consensus size: 46
101705697 AAACAATTTA
* * **
101705707 AAATAAATAATAGTTTGAAATGAATAATTTATAAAAGTCATTCAAAAT
1 AAATAAATAAAAGTTTAAAATGAATAATTTATAAAAAAC-TT-AAAAT
* *
101705755 AAATAAATAAAAGTTTCAAAA-AAATAATATATAAAAAACTTAAAAT
1 AAATAAATAAAAGTTT-AAAATGAATAATTTATAAAAAACTTAAAAT
*
101705801 AAATAATAATAAAACAGTTTAAAATGAACAATATATATAAAAAA
1 AAAT-A-AAT-AAA-AGTTTAAAATGAATAAT-T-TATAAAAAA
101705845 ACATATAAAA
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
46 9 0.12
47 3 0.04
48 32 0.44
49 10 0.14
50 10 0.14
52 9 0.12
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.28
Consensus pattern (46 bp):
AAATAAATAAAAGTTTAAAATGAATAATTTATAAAAAACTTAAAAT
Found at i:101705791 original size:25 final size:24
Alignment explanation
Indices: 101705750--101705842 Score: 73
Period size: 25 Copynumber: 3.7 Consensus size: 24
101705740 AAAGTCATTC
*
101705750 AAAATAA-ATAAATAAAAGTTTCAAA
1 AAAATAATATATA-AAAAGTTT-AAA
**
101705775 AAAATAATATATAAAAAACTTAAA
1 AAAATAATATATAAAAAGTTTAAA
101705799 ATAAATAATA-ATAAAACAGTTTAAA
1 A-AAATAATATATAAAA-AGTTTAAA
* *
101705824 ATGAACAATATATATAAAA
1 A-AAATAATATATA-AAAA
101705843 AAACATATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
24 10 0.18
25 35 0.62
26 8 0.14
27 3 0.05
ACGTcount: A:0.67, C:0.04, G:0.03, T:0.26
Consensus pattern (24 bp):
AAAATAATATATAAAAAGTTTAAA
Found at i:101705799 original size:21 final size:22
Alignment explanation
Indices: 101705775--101705815 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
101705765 AAGTTTCAAA
101705775 AAAAT-AATATATAA-AAAACTT
1 AAAATAAATA-ATAATAAAACTT
101705796 AAAATAAATAATAATAAAAC
1 AAAATAAATAATAATAAAAC
101705816 AGTTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAATAAATAATAATAAAACTT
Found at i:101705874 original size:24 final size:25
Alignment explanation
Indices: 101705838--101705884 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
101705828 ACAATATATA
101705838 TAAAAAAACATATA-AAACAATTTTT
1 TAAAAAAACATATATAAA-AATTTTT
*
101705863 TAAAAATA-ATATATAAAAATTT
1 TAAAAAAACATATATAAAAATTT
101705885 AAAAGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (25 bp):
TAAAAAAACATATATAAAAATTTTT
Found at i:101705896 original size:22 final size:23
Alignment explanation
Indices: 101705861--101705923 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
101705851 AAAACAATTT
101705861 TTTAAAAATAATATATA-AA-AA
1 TTTAAAAATAATATATATAATAA
*
101705882 TTTAAAAGATAATATATATAATAG
1 TTTAAAA-ATAATATATATAATAA
101705906 TTTAAAAA-AATAATATAT
1 TTTAAAAATAAT-ATATAT
101705924 GAAAGAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 7 0.19
22 13 0.35
23 9 0.24
24 8 0.22
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (23 bp):
TTTAAAAATAATATATATAATAA
Found at i:101705898 original size:24 final size:25
Alignment explanation
Indices: 101705871--101705953 Score: 68
Period size: 25 Copynumber: 3.4 Consensus size: 25
101705861 TTTAAAAATA
101705871 ATAT-ATAAAAATTTAAAAGATAAT
1 ATATCATAAAAATTTAAAAGATAAT
* * *
101705895 ATAT-ATAATAGTTTAAAAAAATAAT
1 ATATCATAAAAATTT-AAAAGATAAT
* *
101705920 ATATGA-AAGAAACTTAAAAGA-AAT
1 ATATCATAA-AAATTTAAAAGATAAT
101705944 A-ATCATAAAA
1 ATATCATAAAA
101705954 GAGCCCTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
23 5 0.11
24 18 0.38
25 20 0.43
26 4 0.09
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (25 bp):
ATATCATAAAAATTTAAAAGATAAT
Found at i:101707125 original size:17 final size:17
Alignment explanation
Indices: 101707079--101707116 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
101707069 GTTTTGTTTG
101707079 TTGGG-CTAGGGTTAAT
1 TTGGGCCTAGGGTTAAT
101707095 TTGGGCCTAGGGTTAAT
1 TTGGGCCTAGGGTTAAT
101707112 TTGGG
1 TTGGG
101707117 TTTAGGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.16, C:0.08, G:0.39, T:0.37
Consensus pattern (17 bp):
TTGGGCCTAGGGTTAAT
Found at i:101708346 original size:29 final size:30
Alignment explanation
Indices: 101708314--101708389 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 30
101708304 ATTTATTTTG
101708314 TTAT-TCTAATACTATTATTAT-TTATCTAT
1 TTATATCTAATACTATTATTATATT-TCTAT
**
101708343 TTATAT-TTCTACTATTATTATATTTCTAT
1 TTATATCTAATACTATTATTATATTTCTAT
*
101708372 TTATATACTAATATTATT
1 TTATAT-CTAATACTATT
101708390 TTCATTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 28 0.74
30 3 0.08
31 7 0.18
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (30 bp):
TTATATCTAATACTATTATTATATTTCTAT
Found at i:101717485 original size:18 final size:18
Alignment explanation
Indices: 101717462--101717499 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
101717452 AATATATATT
101717462 AACCCAAGTACCCAACCC
1 AACCCAAGTACCCAACCC
*
101717480 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
101717498 AA
1 AA
101717500 TCATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.47, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:101717492 original size:13 final size:13
Alignment explanation
Indices: 101717476--101717500 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101717466 CAAGTACCCA
101717476 ACCCAACCCAATT
1 ACCCAACCCAATT
101717489 ACCCAACCCAAT
1 ACCCAACCCAAT
101717501 CATAAAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:101717602 original size:9 final size:9
Alignment explanation
Indices: 101717584--101717659 Score: 93
Period size: 9 Copynumber: 8.6 Consensus size: 9
101717574 TTTATACAAA
101717584 TAATTCGGT
1 TAATTCGGT
*
101717593 TAATTTGGT
1 TAATTCGGT
* *
101717602 TAATTTGGG
1 TAATTCGGT
101717611 T-ATTCAGG-
1 TAATTC-GGT
101717619 TAATTCGGT
1 TAATTCGGT
101717628 TAATTCGGT
1 TAATTCGGT
*
101717637 TAATTCGAT
1 TAATTCGGT
101717646 TAATTCGGT
1 TAATTCGGT
101717655 TAATT
1 TAATT
101717660 TTATACTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
8 6 0.10
9 53 0.90
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:101723228 original size:36 final size:36
Alignment explanation
Indices: 101723181--101723260 Score: 144
Period size: 36 Copynumber: 2.2 Consensus size: 36
101723171 CAACCAATAT
*
101723181 ATCAAG-ATTAAAGAAGAGGACTATGATGGCCATAG
1 ATCAAGCATTAAAGAAGAGGACTATGACGGCCATAG
101723216 ATCAAGCATTAAAGAAGAGGACTATGACGGCCATAG
1 ATCAAGCATTAAAGAAGAGGACTATGACGGCCATAG
101723252 ATCAAGCAT
1 ATCAAGCAT
101723261 AAGTATTCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
35 6 0.14
36 37 0.86
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (36 bp):
ATCAAGCATTAAAGAAGAGGACTATGACGGCCATAG
Found at i:101725830 original size:15 final size:16
Alignment explanation
Indices: 101725800--101725833 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
101725790 AACGGGCCTC
101725800 ATTTTTTGTTAAAATTT
1 ATTTTTTGTT-AAATTT
101725817 ATTTTTTGTT-AATTT
1 ATTTTTTGTTAAATTT
101725832 AT
1 AT
101725834 ATTATCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
ATTTTTTGTTAAATTT
Found at i:101727640 original size:10 final size:9
Alignment explanation
Indices: 101727624--101727649 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
101727614 GTGTTCCTCA
101727624 ATTTTTTTG
1 ATTTTTTTG
101727633 ATTTTTTTG
1 ATTTTTTTG
101727642 ATTTTTTT
1 ATTTTTTT
101727650 CTCTCAGTAG
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:0.12, C:0.00, G:0.08, T:0.81
Consensus pattern (9 bp):
ATTTTTTTG
Found at i:101729528 original size:31 final size:33
Alignment explanation
Indices: 101729493--101729562 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 33
101729483 TCGCATTTTG
* * *
101729493 TTTATTTTATTAAA-GAAATAGTAAAT-TAATT
1 TTTATTATATTAAATGAAAAAATAAATGTAATT
*
101729524 TTTA-TATATTAAATTAAAAAATAAATGTAATT
1 TTTATTATATTAAATGAAAAAATAAATGTAATT
101729556 TTTATTA
1 TTTATTA
101729563 AAATTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 8 0.25
31 13 0.41
32 9 0.28
33 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (33 bp):
TTTATTATATTAAATGAAAAAATAAATGTAATT
Found at i:101729534 original size:30 final size:32
Alignment explanation
Indices: 101729500--101729560 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 32
101729490 TTGTTTATTT
* *
101729500 TATTAAA-GAAATAGTAAAT-TAATTTTTATA
1 TATTAAATGAAAAAATAAATGTAATTTTTATA
*
101729530 TATTAAATTAAAAAATAAATGTAATTTTTAT
1 TATTAAATGAAAAAATAAATGTAATTTTTAT
101729561 TAAAATTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 7 0.27
31 9 0.35
32 10 0.38
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (32 bp):
TATTAAATGAAAAAATAAATGTAATTTTTATA
Found at i:101730938 original size:16 final size:16
Alignment explanation
Indices: 101730917--101730949 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
101730907 CAAATATTAT
101730917 TAATAT-TTTTTACAAA
1 TAATATATTTTTA-AAA
101730933 TAATATATTTTTAAAA
1 TAATATATTTTTAAAA
101730949 T
1 T
101730950 TTATTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (16 bp):
TAATATATTTTTAAAA
Found at i:101731634 original size:11 final size:11
Alignment explanation
Indices: 101731618--101731658 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
101731608 TTATTAATTT
*
101731618 AAAATTTTAAA
1 AAAATTTAAAA
101731629 AAAATTTAAAA
1 AAAATTTAAAA
*
101731640 AAAATTAAAATA
1 AAAATTTAAA-A
101731652 AAAATTT
1 AAAATTT
101731659 TTTCATTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
11 19 0.73
12 7 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATTTAAAA
Found at i:101735774 original size:14 final size:14
Alignment explanation
Indices: 101735755--101735781 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
101735745 TAGCATTACG
101735755 ATTTTTATTTTTTA
1 ATTTTTATTTTTTA
101735769 ATTTTTATTTTTT
1 ATTTTTATTTTTT
101735782 TATATCATAT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
ATTTTTATTTTTTA
Found at i:101743971 original size:40 final size:40
Alignment explanation
Indices: 101743916--101744016 Score: 184
Period size: 40 Copynumber: 2.5 Consensus size: 40
101743906 TAGAACAAAT
*
101743916 ACAAGTAGCGTAAGTTCCAATACCCCCCGACCACCCTGAG
1 ACAAGTAGCGTAAGTTCCAATACCCCCCGACCACCCTAAG
*
101743956 ACAAGTAGCGTAAGTTCCAATACCCCCCGACCGCCCTAAG
1 ACAAGTAGCGTAAGTTCCAATACCCCCCGACCACCCTAAG
101743996 ACAAGTAGCGTAAGTTCCAAT
1 ACAAGTAGCGTAAGTTCCAAT
101744017 TATCAACACA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.17
Consensus pattern (40 bp):
ACAAGTAGCGTAAGTTCCAATACCCCCCGACCACCCTAAG
Found at i:101745552 original size:17 final size:18
Alignment explanation
Indices: 101745507--101745543 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
101745497 CTAAATTAAT
101745507 TAAT-ATAAAATCTAAAA
1 TAATAATAAAATCTAAAA
101745524 TAATAATAAAAT-TAAAA
1 TAATAATAAAATCTAAAA
101745541 TAA
1 TAA
101745544 ACTTAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
TAATAATAAAATCTAAAA
Found at i:101746320 original size:6 final size:7
Alignment explanation
Indices: 101746303--101746328 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
101746293 ACTTGAGCCT
101746303 TTTTTCA
1 TTTTTCA
101746310 TTTTTCA
1 TTTTTCA
101746317 TTTTTCA
1 TTTTTCA
101746324 TTTTT
1 TTTTT
101746329 TCATGCACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:101749091 original size:107 final size:108
Alignment explanation
Indices: 101748925--101749137 Score: 376
Period size: 107 Copynumber: 2.0 Consensus size: 108
101748915 CTTTGGGCAA
*
101748925 CATCCAAAATCTTCGAAGCATAGTAGATAACATGAGGCTCTTTCCCTATTCTTTGGCCAAGAACA
1 CATCCAAAATCTTCGAAGCATAGTAGATAACATGAGGCTCTTTCCCTATTCTTTAGCCAAGAACA
101748990 GCTCTC-ACACTTTGGTCACTCGCATCACACATGATTTCGAAAG
66 GCTC-CGACACTTTGGTCACTCGCATCACACATGATTTCGAAAG
* *
101749033 CATCCAAAGTCTTCGAAGCATAGT-GATAACATGAGGCTCTTTCTCTATTCTTTAGCCAAGAACA
1 CATCCAAAATCTTCGAAGCATAGTAGATAACATGAGGCTCTTTCCCTATTCTTTAGCCAAGAACA
101749097 GCTCCGACACTTTGGTCACTCGCATCACACATGATTTCGAA
66 GCTCCGACACTTTGGTCACTCGCATCACACATGATTTCGAA
101749138 TGGGAAGTTC
Statistics
Matches: 101, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
106 1 0.01
107 77 0.76
108 23 0.23
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (108 bp):
CATCCAAAATCTTCGAAGCATAGTAGATAACATGAGGCTCTTTCCCTATTCTTTAGCCAAGAACA
GCTCCGACACTTTGGTCACTCGCATCACACATGATTTCGAAAG
Found at i:101754048 original size:18 final size:16
Alignment explanation
Indices: 101754021--101754072 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 16
101754011 CTAAATTAAT
101754021 TAATATAAAATCTAAAA
1 TAATATAAAAT-TAAAA
101754038 TAATAATAAAATTAAAAA
1 TAAT-ATAAAATT-AAAA
*
101754056 TAA-ATAAACTTAAAA
1 TAATATAAAATTAAAA
101754071 TA
1 TA
101754073 TGATTTTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
15 6 0.19
16 7 0.22
17 5 0.16
18 14 0.44
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (16 bp):
TAATATAAAATTAAAA
Found at i:101757792 original size:28 final size:26
Alignment explanation
Indices: 101757741--101757792 Score: 61
Period size: 28 Copynumber: 1.9 Consensus size: 26
101757731 TGTTGAACTT
*
101757741 AAATTTATATTATTTATTCTTAAAGA
1 AAATTTATATTATTTATTATTAAAGA
101757767 AAATTTATCCATTATTT-TTATATAAA
1 AAATTTAT--ATTATTTATTAT-TAAA
101757793 TATATTGGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
26 8 0.36
27 3 0.14
28 11 0.50
ACGTcount: A:0.42, C:0.06, G:0.02, T:0.50
Consensus pattern (26 bp):
AAATTTATATTATTTATTATTAAAGA
Found at i:101758472 original size:27 final size:27
Alignment explanation
Indices: 101758429--101758490 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
101758419 TCTTAGTTTA
**
101758429 TAATTTTTTATGGTTTTT-ATAAAATT
1 TAATTTTTTATAATTTTTAATAAAATT
101758455 TAATATTTTTATAATTTTTAATAAAATT
1 TAAT-TTTTTATAATTTTTAATAAAATT
101758483 TAATTTTT
1 TAATTTTT
101758491 ATATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 4 0.12
27 16 0.50
28 12 0.38
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (27 bp):
TAATTTTTTATAATTTTTAATAAAATT
Found at i:101758474 original size:18 final size:18
Alignment explanation
Indices: 101758425--101758477 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
101758415 ATTATCTTAG
* *
101758425 TTTATAATTTTTTATGGTT
1 TTTATAATTTTTAAT-ATT
**
101758444 TTTATAAAATTTAATATT
1 TTTATAATTTTTAATATT
101758462 TTTATAATTTTTAATA
1 TTTATAATTTTTAATA
101758478 AAATTTAATT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTATAATTTTTAATATT
Found at i:101758498 original size:19 final size:17
Alignment explanation
Indices: 101758466--101758505 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 17
101758456 AATATTTTTA
101758466 TAATTTTTAATAAAATT
1 TAATTTTTAATAAAATT
101758483 TAATTTTTATATTAAAATT
1 TAATTTTTA-A-TAAAATT
101758502 TAAT
1 TAAT
101758506 GATTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 1 0.05
19 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TAATTTTTAATAAAATT
Found at i:101758711 original size:5 final size:6
Alignment explanation
Indices: 101758696--101758720 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
101758686 GAATGTAAAT
101758696 AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG A
101758721 GAAGGGGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:101759563 original size:27 final size:27
Alignment explanation
Indices: 101759526--101759585 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
101759516 AATTATTTCA
101759526 TGAG-TTAGTTTGGATCCGTGTTGTAT
1 TGAGTTTAGTTTGGATCCGTGTTGTAT
101759552 TGAGTTTAGTTTGGATCCGTGTTGTAT
1 TGAGTTTAGTTTGGATCCGTGTTGTAT
101759579 TGAGTTT
1 TGAGTTT
101759586 TATATGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 4 0.12
27 29 0.88
ACGTcount: A:0.15, C:0.07, G:0.30, T:0.48
Consensus pattern (27 bp):
TGAGTTTAGTTTGGATCCGTGTTGTAT
Found at i:101762630 original size:12 final size:12
Alignment explanation
Indices: 101762613--101762639 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
101762603 GGATGGGATT
101762613 CATATTGCAAAG
1 CATATTGCAAAG
101762625 CATATTGCAAAG
1 CATATTGCAAAG
101762637 CAT
1 CAT
101762640 GTGGCAAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.26
Consensus pattern (12 bp):
CATATTGCAAAG
Found at i:101763025 original size:21 final size:20
Alignment explanation
Indices: 101762983--101763027 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
101762973 AATTTCTTTG
101762983 TAAACAAAATAAAATAAAAA
1 TAAACAAAATAAAATAAAAA
*
101763003 TAAACAGAAA-AAATATTAAAA
1 TAAACA-AAATAAA-ATAAAAA
101763024 TAAA
1 TAAA
101763028 TTTGTCAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (20 bp):
TAAACAAAATAAAATAAAAA
Found at i:101767775 original size:20 final size:20
Alignment explanation
Indices: 101767750--101767799 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
101767740 TGGCTTAAAA
101767750 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
101767770 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
101767787 GTGGTAGTGGATT
1 TTGGTAGTGGATT
101767800 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:101772414 original size:20 final size:20
Alignment explanation
Indices: 101772389--101772438 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
101772379 TGGCTTAAAA
101772389 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
101772409 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
101772426 GTGGTAGTGGATT
1 TTGGTAGTGGATT
101772439 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:101777154 original size:13 final size:13
Alignment explanation
Indices: 101777136--101777161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101777126 TATCCTTTCC
101777136 ATTTCCTTTGCTT
1 ATTTCCTTTGCTT
101777149 ATTTCCTTTGCTT
1 ATTTCCTTTGCTT
101777162 TTCAATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.23, G:0.08, T:0.62
Consensus pattern (13 bp):
ATTTCCTTTGCTT
Found at i:101779066 original size:72 final size:72
Alignment explanation
Indices: 101778967--101779116 Score: 237
Period size: 72 Copynumber: 2.1 Consensus size: 72
101778957 GCTCTAGCTT
* *
101778967 TATCAAGAGTTTCATATTTTATCCGGATAACTTTGTTCTATTTTTCTTCCTGTATGAAAAACCCA
1 TATC-AGAGCTTCATATTTTATCCGGATAACTTTGTTCTATTTTTCTTCATGTATGAAAAACCCA
*
101779032 ACAAATGG
65 AAAAATGG
* * *
101779040 TATCAGAGCTTCATATTTTATTCGGATAACTTTGTTCTGTTTTTCTTCATGTGTGAAAAACCCAA
1 TATCAGAGCTTCATATTTTATCCGGATAACTTTGTTCTATTTTTCTTCATGTATGAAAAACCCAA
101779105 AAAATGG
66 AAAATGG
101779112 TATCA
1 TATCA
101779117 AGAGTCTAAG
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
72 67 0.94
73 4 0.06
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (72 bp):
TATCAGAGCTTCATATTTTATCCGGATAACTTTGTTCTATTTTTCTTCATGTATGAAAAACCCAA
AAAATGG
Found at i:101781514 original size:15 final size:15
Alignment explanation
Indices: 101781494--101781522 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
101781484 CAGTAGTTTG
101781494 GAGCTAGTTGATGAA
1 GAGCTAGTTGATGAA
101781509 GAGCTAGTTGATGA
1 GAGCTAGTTGATGA
101781523 TATTTTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.07, G:0.34, T:0.28
Consensus pattern (15 bp):
GAGCTAGTTGATGAA
Found at i:101783519 original size:37 final size:37
Alignment explanation
Indices: 101783477--101783550 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
101783467 CTTCTGTTTG
101783477 TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
1 TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
101783514 TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
1 TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
101783551 CAAACTTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.51
Consensus pattern (37 bp):
TTTGGTTGTTTCTTGCAACTCTCATATCTTTGAATCT
Found at i:101794838 original size:27 final size:26
Alignment explanation
Indices: 101794801--101794886 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
101794791 AGCATGGCTG
* *
101794801 CCAGAATAGATATTATGACAGAGTCA
1 CCAGAATAGATATTATGGCAGAGCCA
*
101794827 CCAGATATAGATATTGTGGCAGAGCCA
1 CCAGA-ATAGATATTATGGCAGAGCCA
* *
101794854 CCAGAACAGATATTTATGGCATAGCCA
1 CCAGAATAGATA-TTATGGCAGAGCCA
101794881 CCAGAA
1 CCAGAA
101794887 CGCTTCCTCC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 11 0.21
27 41 0.79
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.21
Consensus pattern (26 bp):
CCAGAATAGATATTATGGCAGAGCCA
Found at i:101795979 original size:16 final size:16
Alignment explanation
Indices: 101795948--101795979 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
101795938 GGGTTCGGCT
101795948 ATGGAGAAAAGAAAAA
1 ATGGAGAAAAGAAAAA
101795964 ATGGAAGAAAAGAAAA
1 ATGG-AGAAAAGAAAA
101795980 GGTGAGAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (16 bp):
ATGGAGAAAAGAAAAA
Found at i:101798703 original size:39 final size:39
Alignment explanation
Indices: 101798658--101798856 Score: 335
Period size: 39 Copynumber: 5.1 Consensus size: 39
101798648 AAGCAAGACA
*
101798658 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
101798697 CTGGAAATGTATCCGGGCTAAAGTCCCGAAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
101798736 CTGGAAATGTATCCAGGCTAAAGACCCGCAAGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
101798775 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
101798814 CTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
101798853 CTGG
1 CTGG
101798857 TAATATAATT
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 149 1.00
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:101804421 original size:39 final size:39
Alignment explanation
Indices: 101804376--101804573 Score: 335
Period size: 39 Copynumber: 5.1 Consensus size: 39
101804366 AAGCAAGACA
*
101804376 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
101804415 CTGGAAATGTATCCGGGCTAAAGTCCCGAAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
101804454 CTGGAAATGTATCCAGGCTAAAGACCCGCA-GCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
101804492 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
101804531 CTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
101804570 CTGG
1 CTGG
101804574 TAATATAATT
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
38 36 0.24
39 113 0.76
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:101804513 original size:77 final size:77
Alignment explanation
Indices: 101804376--101804573 Score: 335
Period size: 77 Copynumber: 2.5 Consensus size: 77
101804366 AAGCAAGACA
101804376 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCC
1 CTGGAAATGTATCC-GGCTAAAGACCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCC
101804441 CGAAGGCTTCGTG
65 CGAAGGCTTCGTG
101804454 CTGGAAATGTATCCAGGCTAAAGACCCGCA-GCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCC
1 CTGGAAATGTATCC-GGCTAAAGACCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCC
*
101804518 CGCAGGCTTCGTG
65 CGAAGGCTTCGTG
* *
101804531 CTGGAAATGTATCCGAGCTAAAGTCCCGCAGGCTTTGTGCTGG
1 CTGGAAATGTATCCG-GCTAAAGACCCGCAGGCTTCGTGCTGG
101804574 TAATATAATT
Statistics
Matches: 114, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
76 1 0.01
77 73 0.64
78 40 0.35
ACGTcount: A:0.23, C:0.25, G:0.30, T:0.23
Consensus pattern (77 bp):
CTGGAAATGTATCCGGCTAAAGACCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCCC
GAAGGCTTCGTG
Found at i:101809075 original size:46 final size:46
Alignment explanation
Indices: 101809021--101809340 Score: 473
Period size: 46 Copynumber: 7.0 Consensus size: 46
101809011 GCTCTCTGAA
101809021 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
101809067 -TAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATAAT
1 AT-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
101809113 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATAGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
101809159 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
101809205 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** *
101809251 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
101809297 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
101809341 TCAAAGATAA
Statistics
Matches: 252, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 2 0.01
46 249 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:101817251 original size:11 final size:11
Alignment explanation
Indices: 101817235--101817285 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
101817225 TTCAAGTATA
101817235 ATTTTTTTAAT
1 ATTTTTTTAAT
101817246 ATTTTTTTAAT
1 ATTTTTTTAAT
***
101817257 -TTGTTGAAAAT
1 ATT-TTTTTAAT
101817268 ATTTATTTTAAT
1 ATTT-TTTTAAT
101817280 ATTTTT
1 ATTTTT
101817286 AATGTATTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
10 2 0.06
11 19 0.61
12 10 0.32
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (11 bp):
ATTTTTTTAAT
Found at i:101822335 original size:47 final size:47
Alignment explanation
Indices: 101822178--101822310 Score: 239
Period size: 47 Copynumber: 2.8 Consensus size: 47
101822168 CCGGGATAAG
* *
101822178 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
101822225 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
*
101822272 CATAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
1 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACA
101822311 GTAGTCGACA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 83 1.00
ACGTcount: A:0.39, C:0.22, G:0.14, T:0.26
Consensus pattern (47 bp):
CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
Found at i:101823107 original size:4 final size:4
Alignment explanation
Indices: 101823098--101823122 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
101823088 CCCTTTTCTA
101823098 TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC T
101823123 CACATTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:101830399 original size:41 final size:41
Alignment explanation
Indices: 101830333--101830570 Score: 372
Period size: 41 Copynumber: 5.8 Consensus size: 41
101830323 TTTATCGTTA
* * * * *
101830333 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAACGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
101830374 GTGA-A-ATTATTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
101830415 GTGACACATTTCAGGCTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
101830456 GTGACACATTTCGGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
101830497 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
101830538 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
101830571 AAGAGCCGGT
Statistics
Matches: 184, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 179 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:101830839 original size:33 final size:33
Alignment explanation
Indices: 101830784--101830880 Score: 106
Period size: 33 Copynumber: 2.8 Consensus size: 33
101830774 GATAGATATG
*
101830784 TATATATATATGT-TGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
*
101830816 TATATTTATGTGTATGCATTCGGCATAGGTGAA
1 TATATATATGTGTATGCATTCGGCATAGGTGAA
* * *
101830849 AATAAGTGTATGTATCTATGCATTCGGCATAG
1 TAT-A-TATATG--TGTATGCATTCGGCATAG
101830881 ATGGGTATAG
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 11 0.20
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.31
ACGTcount: A:0.30, C:0.10, G:0.23, T:0.37
Consensus pattern (33 bp):
TATATATATGTGTATGCATTCGGCATAGGTGAA
Found at i:101838099 original size:32 final size:32
Alignment explanation
Indices: 101838050--101838110 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
101838040 TAGTGACATA
* *
101838050 ATTCAGACTTTACGTCTAGCAGGCTTAATATT
1 ATTCAGACTATAAGTCTAGCAGGCTTAATATT
101838082 ATTCAGACTATAAGTCTAGCAGGCTTAAT
1 ATTCAGACTATAAGTCTAGCAGGCTTAAT
101838111 GCCGGTGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (32 bp):
ATTCAGACTATAAGTCTAGCAGGCTTAATATT
Found at i:101838183 original size:40 final size:41
Alignment explanation
Indices: 101838083--101838229 Score: 228
Period size: 39 Copynumber: 3.6 Consensus size: 41
101838073 CTTAATATTA
*
101838083 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGA-TCAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
*
101838123 TACAG-CTATAAGTCTAGCAGGCTTAATG-CGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
101838162 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
1 TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
101838203 TTCAGGAGCTAATAAGTCTAGCAGGCT
1 TTCA-GA-CT-ATAAGTCTAGCAGGCT
101838230 AAGAGCCGGT
Statistics
Matches: 98, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
38 6 0.06
39 30 0.31
40 27 0.28
41 15 0.15
42 2 0.02
43 2 0.02
44 16 0.16
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.27
Consensus pattern (41 bp):
TTCAGACTATAAGTCTAGCAGGCTTAATGCCGGTGACACAT
Found at i:101838502 original size:33 final size:33
Alignment explanation
Indices: 101838446--101838543 Score: 108
Period size: 33 Copynumber: 2.9 Consensus size: 33
101838436 AGATATGTAT
*
101838446 ATATATATATATGT-TGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
*
101838478 ATATATTTATGTGTATGCATTCGGCATAGGTGA
1 ATATATATATGTGTATGCATTCGGCATAGGTGA
* * *
101838511 AAATAAGTGTATGTATCTATGCATTCGGCATAG
1 ATAT-A-TATATG--TGTATGCATTCGGCATAG
101838544 ATGGGTATAG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.21
33 21 0.38
34 1 0.02
35 5 0.09
37 17 0.30
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (33 bp):
ATATATATATGTGTATGCATTCGGCATAGGTGA
Found at i:101843748 original size:26 final size:25
Alignment explanation
Indices: 101843701--101843750 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
101843691 CTCGTTATAT
101843701 GGCTCTTTGGAGCTTCCCGATTAAA
1 GGCTCTTTGGAGCTTCCCGATTAAA
*
101843726 GGCTCTTTGTGAGCTTCCTGATTAA
1 GGCTCTTTG-GAGCTTCCCGATTAA
101843751 TGGTTCTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (25 bp):
GGCTCTTTGGAGCTTCCCGATTAAA
Found at i:101843924 original size:25 final size:25
Alignment explanation
Indices: 101843896--101843951 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
101843886 CTTCTCGCTT
*
101843896 TACAGCCTGGATAAGCTTCTCATTA
1 TACAGCCTGGATAAGCTTCCCATTA
101843921 TACAGCCTGGATAAGCTTCCCATTA
1 TACAGCCTGGATAAGCTTCCCATTA
*
101843946 TGCAGC
1 TACAGC
101843952 TCAGATGGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (25 bp):
TACAGCCTGGATAAGCTTCCCATTA
Found at i:101849063 original size:2 final size:2
Alignment explanation
Indices: 101849058--101849095 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
101849048 ATATGTATAA
101849058 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
101849096 GATTGTATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:101867242 original size:30 final size:30
Alignment explanation
Indices: 101867208--101867269 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
101867198 ACTTATTTTA
101867208 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
101867238 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
101867268 TT
1 TT
101867270 ACTTGTTAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.03, G:0.11, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:101871372 original size:58 final size:58
Alignment explanation
Indices: 101871282--101871403 Score: 235
Period size: 58 Copynumber: 2.1 Consensus size: 58
101871272 TGACGTTGTG
101871282 GAAATATGAGTCAAGGTGGAGATTTGTTGAGTATGACTCCTATTTCAGTCAAACTTGA
1 GAAATATGAGTCAAGGTGGAGATTTGTTGAGTATGACTCCTATTTCAGTCAAACTTGA
*
101871340 GAAATATTAGTCAAGGTGGAGATTTGTTGAGTATGACTCCTATTTCAGTCAAACTTGA
1 GAAATATGAGTCAAGGTGGAGATTTGTTGAGTATGACTCCTATTTCAGTCAAACTTGA
101871398 GAAATA
1 GAAATA
101871404 ATCTTTCAGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (58 bp):
GAAATATGAGTCAAGGTGGAGATTTGTTGAGTATGACTCCTATTTCAGTCAAACTTGA
Found at i:101874468 original size:24 final size:24
Alignment explanation
Indices: 101874441--101874495 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
101874431 TTATTTTAGA
* **
101874441 AAAAATTTAAATTTTTTAATTTTT
1 AAAAATATAAATTTTGGAATTTTT
101874465 AAAAATATAAATTTTGGAATTTTT
1 AAAAATATAAATTTTGGAATTTTT
*
101874489 ATAAATA
1 AAAAATA
101874496 ATTTGATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
AAAAATATAAATTTTGGAATTTTT
Found at i:101874470 original size:18 final size:19
Alignment explanation
Indices: 101874449--101874520 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 19
101874439 GAAAAAATTT
101874449 AAATT-TTTTAATTTTTAA
1 AAATTATTTTAATTTTTAA
*
101874467 AAATATAAATTTTGGAATTTTTAT
1 AAAT-T--ATTTT--AATTTTTAA
* *
101874491 AAA-TAATTTGATTTTTAA
1 AAATTATTTTAATTTTTAA
101874509 AAATTATTTTAA
1 AAATTATTTTAA
101874521 AATTCTGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 13
0.68 0.10 0.22
Matches are distributed among these distances:
18 14 0.34
19 7 0.17
20 4 0.10
22 5 0.12
24 11 0.27
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (19 bp):
AAATTATTTTAATTTTTAA
Found at i:101879986 original size:28 final size:28
Alignment explanation
Indices: 101879953--101880012 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
101879943 TTATTTTATT
101879953 GTTAATTTTACTACTATTTGTTTGCTAA
1 GTTAATTTTACTACTATTTGTTTGCTAA
101879981 GTTAATTTTACTACTATTTGTTTGCTAA
1 GTTAATTTTACTACTATTTGTTTGCTAA
101880009 GTTA
1 GTTA
101880013 CAACTATCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.25, C:0.10, G:0.12, T:0.53
Consensus pattern (28 bp):
GTTAATTTTACTACTATTTGTTTGCTAA
Found at i:101880953 original size:22 final size:21
Alignment explanation
Indices: 101880915--101880968 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
101880905 TGGTAATATT
*
101880915 AAAAA-TA-AAAAAATAACCA
1 AAAAATTATAAAAAATAACAA
* *
101880934 AAAAGTTAGTAAAAATTAACAA
1 AAAAATTA-TAAAAAATAACAA
101880956 AAAAATTATAAAA
1 AAAAATTATAAAA
101880969 GAAAACATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 4 0.14
20 2 0.07
21 5 0.18
22 17 0.61
ACGTcount: A:0.72, C:0.06, G:0.04, T:0.19
Consensus pattern (21 bp):
AAAAATTATAAAAAATAACAA
Found at i:101881157 original size:38 final size:34
Alignment explanation
Indices: 101881080--101881157 Score: 86
Period size: 38 Copynumber: 2.2 Consensus size: 34
101881070 ACCTACAGAT
*
101881080 TTATATATATAAATACAAGTTAATATAATATATG
1 TTATATATATAAATACAAGTTAAAATAATATATG
*
101881114 ATATATATTATTAAATATTCAAGTTAAAAT-ATATTATG
1 TTATATA-TA-TAAATA--CAAGTTAAAATAATA-TATG
101881152 TTATAT
1 TTATAT
101881158 TTACAAGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
34 6 0.17
35 2 0.06
36 6 0.17
37 3 0.08
38 19 0.53
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (34 bp):
TTATATATATAAATACAAGTTAAAATAATATATG
Found at i:101884185 original size:19 final size:19
Alignment explanation
Indices: 101884161--101884203 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
101884151 AAAATATCAT
* *
101884161 ATTAATTTTAATTAATTTG
1 ATTAATTTAAATTAATCTG
*
101884180 ATTAATTTAAATTTATCTG
1 ATTAATTTAAATTAATCTG
101884199 ATTAA
1 ATTAA
101884204 AATTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTAATTTAAATTAATCTG
Found at i:101894923 original size:68 final size:68
Alignment explanation
Indices: 101894775--101894930 Score: 165
Period size: 68 Copynumber: 2.2 Consensus size: 68
101894765 AGCCGATGTG
* * * **
101894775 TCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACATT
1 TCTCGTAGCTCTCTTGTCTACATGGTGTACGTCAC-TCGAATCACACATGCGACCTAGCTACACA
*
101894840 TATC
65 TATA
* *
101894844 TCTCACGTAGCTCTCTTGTCTACATGG-GATACGTC-C-CGTATCACACATGTGACCTAGCTACT
1 TCT--CGTAGCTCTCTTGTCTACATGGTG-TACGTCACTCGAATCACACATGCGACCTAGCTAC-
101894906 ACATAGTA
62 ACATA-TA
101894914 TCTCGTAGCTCTCTTGT
1 TCTCGTAGCTCTCTTGT
101894931 ACACATGATG
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
68 36 0.49
69 6 0.08
70 6 0.08
71 26 0.35
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.34
Consensus pattern (68 bp):
TCTCGTAGCTCTCTTGTCTACATGGTGTACGTCACTCGAATCACACATGCGACCTAGCTACACAT
ATA
Found at i:101896197 original size:7 final size:7
Alignment explanation
Indices: 101896179--101896207 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
101896169 ATCTATCAAA
101896179 TAAATA-
1 TAAATAT
101896185 TAAATAT
1 TAAATAT
101896192 TAAATAT
1 TAAATAT
101896199 TAAATAT
1 TAAATAT
101896206 TA
1 TA
101896208 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAAATAT
Done.