Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167871.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_14, 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: 22631831
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 114000 characters in sequence are not A, C, G, or T
File 51 of 125
Found at i:10205007 original size:87 final size:87
Alignment explanation
Indices: 10204854--10205047 Score: 235
Period size: 87 Copynumber: 2.2 Consensus size: 87
10204844 ATGATTTTTC
* * * ** * * *
10204854 AGACCTCCAGGCATGATTTCGATTCGCGGTGTTATCCCGATTGATTCATTATTCTCAACTTACGG
1 AGACCTCCGGGCATGATTTCAATTCACGACGTTATACCGATCGAATCATTATTCTCAACTTACGG
**
10204919 TGTTGTCCCCTTCGATTCTATA
66 TGTTGTCCCAATCGATTCTATA
* * ** *
10204941 AGACCTCCGGGCATAATTTCAATTCACGACGTTATACTGATCGAATCATTATTCTTGACTTGCGG
1 AGACCTCCGGGCATGATTTCAATTCACGACGTTATACCGATCGAATCATTATTCTCAACTTACGG
* *
10205006 TGTTGTCCCAATCGATTTTGTA
66 TGTTGTCCCAATCGATTCTATA
10205028 AGACCTCCGGGCATGATTTC
1 AGACCTCCGGGCATGATTTC
10205048 TATAAGACCT
Statistics
Matches: 89, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
87 89 1.00
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (87 bp):
AGACCTCCGGGCATGATTTCAATTCACGACGTTATACCGATCGAATCATTATTCTCAACTTACGG
TGTTGTCCCAATCGATTCTATA
Found at i:10205030 original size:196 final size:196
Alignment explanation
Indices: 10204649--10205084 Score: 489
Period size: 196 Copynumber: 2.2 Consensus size: 196
10204639 TTAAGGATCT
* * * ** *
10204649 TGATTTCTAAGACCTCCAGGCATGATTTTGATTCGCGATGTTATCCCAATCGATTTTTTAATTTT
1 TGATTTTTAAGACCTCCAGGCATGATTTCGATTCGCGGTGTTATCCCAATCGATTCATTAATTTC
* * * * * * ** **
10204714 GATTTACGGTGTTATCCCAGTCGATTCTGTAAGACCTTCGGGCATGATTTCGATTTGCGGTGTTA
66 AACTTACGGTGTTATCCCAGTCGATTCTATAAGACCTCCGGGCATAATTTCAATTCACGACGTTA
* * * * * * *
10204779 TCCCGATCGATTCTTTAATTTGGACTTGTGGTGTTATCCCAGTCGATTCTGTAAGACTTTCGGAC
131 TACCGATCGAATCATTAATTTGGACTTGCGGTGTTATCCCAATCGATTCTGTAAGACCTCCGGAC
10204844 A
196 A
* * *
10204845 TGATTTTTCAGACCTCCAGGCATGATTTCGATTCGCGGTGTTATCCCGATTGATTCATT-ATTCT
1 TGATTTTTAAGACCTCCAGGCATGATTTCGATTCGCGGTGTTATCCCAATCGATTCATTAATT-T
* **
10204909 CAACTTACGGTGTTGTCCCCTTCGATTCTATAAGACCTCCGGGCATAATTTCAATTCACGACGTT
65 CAACTTACGGTGTTATCCCAGTCGATTCTATAAGACCTCCGGGCATAATTTCAATTCACGACGTT
* * * *
10204974 ATACTGATCGAATCATT-ATTCTTGACTTGCGGTGTTGTCCCAATCGATTTTGTAAGACCTCCGG
130 ATACCGATCGAATCATTAATT-TGGACTTGCGGTGTTATCCCAATCGATTCTGTAAGACCTCCGG
*
10205038 GCA
194 ACA
* * *
10205041 TGATTTCTATAAGACCTTCAGGCATGATTTCAATTCGTGGTGTT
1 TGATTT-T-TAAGACCTCCAGGCATGATTTCGATTCGCGGTGTT
10205085 GTCTTAATTG
Statistics
Matches: 198, Mismatches: 38, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
195 6 0.03
196 160 0.81
197 1 0.01
198 31 0.16
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (196 bp):
TGATTTTTAAGACCTCCAGGCATGATTTCGATTCGCGGTGTTATCCCAATCGATTCATTAATTTC
AACTTACGGTGTTATCCCAGTCGATTCTATAAGACCTCCGGGCATAATTTCAATTCACGACGTTA
TACCGATCGAATCATTAATTTGGACTTGCGGTGTTATCCCAATCGATTCTGTAAGACCTCCGGAC
A
Found at i:10205054 original size:24 final size:24
Alignment explanation
Indices: 10205026--10205071 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10205016 ATCGATTTTG
*
10205026 TAAGACCTCCGGGCATGATTTCTA
1 TAAGACCTCCAGGCATGATTTCTA
*
10205050 TAAGACCTTCAGGCATGATTTC
1 TAAGACCTCCAGGCATGATTTC
10205072 AATTCGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (24 bp):
TAAGACCTCCAGGCATGATTTCTA
Found at i:10205417 original size:18 final size:18
Alignment explanation
Indices: 10205381--10205414 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10205371 TACATTTTTA
10205381 TAATCTAAAAAAATTAAT
1 TAATCTAAAAAAATTAAT
10205399 TAAT-TAAAAAAATTAA
1 TAATCTAAAAAAATTAA
10205415 ATTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATCTAAAAAAATTAAT
Found at i:10206896 original size:31 final size:30
Alignment explanation
Indices: 10206824--10206981 Score: 124
Period size: 31 Copynumber: 5.0 Consensus size: 30
10206814 ATCCTAGGTT
*
10206824 TCTAAAACTCCTAAAATCCAAAATCCCCTTAAAA
1 TCTAAAA-TCTTAAAATCC-AAA-CCCC-TAAAA
*
10206858 TCCAAAATCTTAAAATCCGAAACCCCTAAAA
1 TCTAAAATCTTAAAATCC-AAACCCCTAAAA
10206889 TCTAAAATCCTCT-AAATCCAAACCCCTAAAA
1 TCTAAAAT-CT-TAAAATCCAAACCCCTAAAA
* * ** *
10206920 TTCGATACCCCTAAAATCCAAACCCC-AAAA
1 -TCTAAAATCTTAAAATCCAAACCCCTAAAA
* *
10206950 TC-CAAATCTCTAAAATCCAAAATCCCTAAAA
1 TCTAAAATCT-TAAAATCC-AAACCCCTAAAA
10206981 T
1 T
10206982 TCAAACCCTT
Statistics
Matches: 102, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
28 2 0.02
29 10 0.10
30 11 0.11
31 43 0.42
32 16 0.16
33 14 0.14
34 6 0.06
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.22
Consensus pattern (30 bp):
TCTAAAATCTTAAAATCCAAACCCCTAAAA
Found at i:10206930 original size:47 final size:49
Alignment explanation
Indices: 10206828--10206986 Score: 159
Period size: 45 Copynumber: 3.4 Consensus size: 49
10206818 TAGGTTTCTA
* * *
10206828 AAACTCCTAAAATCCAAAATCCCCTTAAAATCCAAAATCTTAAAATCCG
1 AAACCCCTAAAATCCAAAATCCCCTTAAAATCCAAAACCCTAAAATCCG
* * * *
10206877 AAACCCCTAAAATCTAAAATCCTC-T-AAATCCAAACCCCTAAAATTCG
1 AAACCCCTAAAATCCAAAATCCCCTTAAAATCCAAAACCCTAAAATCCG
* * * *
10206924 ATACCCCTAAAATCC-AAA-CCCC--AAAATCCAAATCTCTAAAATCCA
1 AAACCCCTAAAATCCAAAATCCCCTTAAAATCCAAAACCCTAAAATCCG
* *
10206969 AAATCCCTAAAATTCAAA
1 AAACCCCTAAAATCCAAA
10206987 CCCTTAAATC
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
45 33 0.36
46 5 0.05
47 31 0.34
48 1 0.01
49 21 0.23
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (49 bp):
AAACCCCTAAAATCCAAAATCCCCTTAAAATCCAAAACCCTAAAATCCG
Found at i:10206964 original size:15 final size:15
Alignment explanation
Indices: 10206833--10206996 Score: 120
Period size: 16 Copynumber: 10.6 Consensus size: 15
10206823 TTCTAAAACT
10206833 CCTAAAATCCAAAATCC
1 CCTAAAATCC-AAAT-C
10206850 CCTTAAAATCCAAAAT-
1 CC-TAAAATCC-AAATC
* *
10206866 CTTAAAATCCGAAACC
1 CCTAAAATCC-AAATC
*
10206882 CCTAAAATCTAAAATC
1 CCTAAAATC-CAAATC
*
10206898 CTCT-AAATCCAAACC
1 C-CTAAAATCCAAATC
* * *
10206913 CCTAAAATTCGATACC
1 CCTAAAA-TCCAAATC
10206929 CCTAAAATCCAAA-C
1 CCTAAAATCCAAATC
*
10206943 CCCAAAATCCAAATC
1 CCTAAAATCCAAATC
*
10206958 TCTAAAATCCAAAATC
1 CCTAAAATCC-AAATC
*
10206974 CCTAAAATTCAAA-C
1 CCTAAAATCCAAATC
*
10206988 CCTTAAATC
1 CCTAAAATC
10206997 AAAACCCCAA
Statistics
Matches: 120, Mismatches: 19, Indels: 19
0.76 0.12 0.12
Matches are distributed among these distances:
14 23 0.19
15 35 0.29
16 45 0.38
17 4 0.03
18 13 0.11
ACGTcount: A:0.46, C:0.32, G:0.01, T:0.21
Consensus pattern (15 bp):
CCTAAAATCCAAATC
Found at i:10207019 original size:14 final size:15
Alignment explanation
Indices: 10206997--10207029 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10206987 CCCTTAAATC
10206997 AAAACCCCAAACCAT
1 AAAACCCCAAACCAT
*
10207012 AAAA-CCCAAACCCT
1 AAAACCCCAAACCAT
10207026 AAAA
1 AAAA
10207030 TCTCAAAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.58, C:0.36, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAACCCCAAACCAT
Found at i:10207051 original size:14 final size:14
Alignment explanation
Indices: 10207005--10207058 Score: 54
Period size: 14 Copynumber: 3.7 Consensus size: 14
10206995 TCAAAACCCC
* * *
10207005 AAACCATAAAACCC
1 AAACCCTAAAATCA
10207019 AAACCCTAAAATCTCA
1 AAACCCTAAAA--TCA
*
10207035 AAACTCTAAAATCA
1 AAACCCTAAAATCA
10207049 AAACCCTAAA
1 AAACCCTAAA
10207059 CCTTCTATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
14 22 0.67
16 11 0.33
ACGTcount: A:0.56, C:0.30, G:0.00, T:0.15
Consensus pattern (14 bp):
AAACCCTAAAATCA
Found at i:10208691 original size:38 final size:38
Alignment explanation
Indices: 10208640--10208716 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
10208630 CTTTAATTTG
* *
10208640 TATGAATGGCTCTCTGGGTTGGGAAATTGTTCTATCTT
1 TATGAATGGCTCTCTGGATTGAGAAATTGTTCTATCTT
10208678 TATGAATGGCTCTCTGGATTGAGAAATTGTTCTATCTT
1 TATGAATGGCTCTCTGGATTGAGAAATTGTTCTATCTT
10208716 T
1 T
10208717 TAGAACATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.43
Consensus pattern (38 bp):
TATGAATGGCTCTCTGGATTGAGAAATTGTTCTATCTT
Found at i:10209292 original size:14 final size:15
Alignment explanation
Indices: 10209273--10209301 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10209263 TCGATTCGAT
10209273 TTGA-TTTTTTAAAA
1 TTGATTTTTTTAAAA
10209287 TTGATTTTTTTAAAA
1 TTGATTTTTTTAAAA
10209302 AATATTAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (15 bp):
TTGATTTTTTTAAAA
Found at i:10209448 original size:18 final size:18
Alignment explanation
Indices: 10209427--10209466 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
10209417 TTTAATTAAT
10209427 TATTTAATTTTATATTTA
1 TATTTAATTTTATATTTA
*
10209445 TATTTAGTTTTATATTTA
1 TATTTAATTTTATATTTA
10209463 TATT
1 TATT
10209467 AAAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TATTTAATTTTATATTTA
Found at i:10214402 original size:22 final size:22
Alignment explanation
Indices: 10214362--10214404 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10214352 AGTCTTGGAT
*
10214362 TAATAAAAAGAAAATATAAAAA
1 TAATAAAAAGAAAAAATAAAAA
10214384 TAATAAAAA-AATAAAATAAAA
1 TAATAAAAAGAA-AAAATAAAA
10214405 GACAGAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (22 bp):
TAATAAAAAGAAAAAATAAAAA
Found at i:10228663 original size:121 final size:120
Alignment explanation
Indices: 10228445--10228666 Score: 288
Period size: 121 Copynumber: 1.8 Consensus size: 120
10228435 AATAAAACAA
* * *
10228445 AAAGTCTTACCAACATATTGGAAGTCAATTTGTTTTTAAAATAAAGTTTTACCAATAGATTGAAG
1 AAAGCCTTACCAACATATTGGAAGTCAATTTGTTTTCAAAATAAAGTTTTACCAACAGATTGAAG
* **
10228510 AACTTTATTAATTTTTTTATAAAAAACAAATTTTAAAAGAAAAATAATTTTCAAT
66 AACTCTATTAATTTTTAAATAAAAAACAAATTTTAAAAGAAAAATAATTTTCAAT
* * *
10228565 AAAGCCTTGCCAACATATTGGAAAG-CAATTTGGTTTTCAAAATAATGTTTTACCAACATATTAG
1 AAAGCCTTACCAACATATTGG-AAGTCAATTT-GTTTTCAAAATAAAGTTTTACCAACAGATT-G
**
10228629 AA-AAC-CTATTAATTTTTAAATATAAAAATTAATTTTAA
63 AAGAACTCTATTAATTTTTAAATA-AAAAACAAATTTTAA
10228667 GAATAATTTT
Statistics
Matches: 87, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
120 39 0.45
121 45 0.52
122 3 0.03
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (120 bp):
AAAGCCTTACCAACATATTGGAAGTCAATTTGTTTTCAAAATAAAGTTTTACCAACAGATTGAAG
AACTCTATTAATTTTTAAATAAAAAACAAATTTTAAAAGAAAAATAATTTTCAAT
Found at i:10230234 original size:14 final size:15
Alignment explanation
Indices: 10230209--10230237 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10230199 AAAAAAAAAA
10230209 ATTTTCACTTTCTTT
1 ATTTTCACTTTCTTT
10230224 ATTTT-ACTTTCTTT
1 ATTTTCACTTTCTTT
10230238 TCTTTTCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTCACTTTCTTT
Found at i:10231452 original size:216 final size:216
Alignment explanation
Indices: 10231078--10231508 Score: 844
Period size: 216 Copynumber: 2.0 Consensus size: 216
10231068 GGGTAAGATC
10231078 TTGTCTAAGAAGGGGTGAATATAGAGGCTATGAAAGGGGTTCTACATAAGGTATGGAAGCTAATT
1 TTGTCTAAGAAGGGGTGAATATAGAGGCTATGAAAGGGGTTCTACATAAGGTATGGAAGCTAATT
10231143 AAAGGATTGCACATAAAGGAGATTGGGAATAAAACGTTTCTCTTTAAGTTGGAAGATATGTTGGA
66 AAAGGATTGCACATAAAGGAGATTGGGAATAAAACGTTTCTCTTTAAGTTGGAAGATATGTTGGA
*
10231208 GAAGAATAGAGTGCTAATGACAGCCATGGTCGTTCAATAAGGCGTTAATTACTAGTACTCAGGGA
131 GAAGAATAGAGTGCTAATGACAGCCATGGTCGTTCAATAAAGCGTTAATTACTAGTACTCAGGGA
10231273 TTTCGAGGGTTCAGATCCACA
196 TTTCGAGGGTTCAGATCCACA
*
10231294 TTGTCTAAGAAGGGGTGAATATAGAGGCTATGAAAGGGGTTCTACATAAGGTGTGGAAGCTAATT
1 TTGTCTAAGAAGGGGTGAATATAGAGGCTATGAAAGGGGTTCTACATAAGGTATGGAAGCTAATT
10231359 AAAGGATTGCACATAAAGGAGATTGGGAATAAAACGTTTCTCTTTAAGTTGGAAGATATGTTGGA
66 AAAGGATTGCACATAAAGGAGATTGGGAATAAAACGTTTCTCTTTAAGTTGGAAGATATGTTGGA
10231424 GAAGAATAGAGTGCTAATGACAGCCATGGTCGTTCAATAAAGCGTTAATTACTAGTACTCAGGGA
131 GAAGAATAGAGTGCTAATGACAGCCATGGTCGTTCAATAAAGCGTTAATTACTAGTACTCAGGGA
10231489 TTTCGAGGGTTCAGATCCAC
196 TTTCGAGGGTTCAGATCCAC
10231509 CTGAGTTTAT
Statistics
Matches: 213, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
216 213 1.00
ACGTcount: A:0.34, C:0.12, G:0.27, T:0.27
Consensus pattern (216 bp):
TTGTCTAAGAAGGGGTGAATATAGAGGCTATGAAAGGGGTTCTACATAAGGTATGGAAGCTAATT
AAAGGATTGCACATAAAGGAGATTGGGAATAAAACGTTTCTCTTTAAGTTGGAAGATATGTTGGA
GAAGAATAGAGTGCTAATGACAGCCATGGTCGTTCAATAAAGCGTTAATTACTAGTACTCAGGGA
TTTCGAGGGTTCAGATCCACA
Found at i:10235359 original size:17 final size:17
Alignment explanation
Indices: 10235337--10235369 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10235327 CTTAAGTTTT
10235337 TATAA-TATATTGTTTAA
1 TATAATTATA-TGTTTAA
10235354 TATAATTATATGTTTA
1 TATAATTATATGTTTA
10235370 TATGTCATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TATAATTATATGTTTAA
Found at i:10236014 original size:21 final size:21
Alignment explanation
Indices: 10235990--10236043 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
10235980 ATAATTGAGT
*
10235990 AGCAACAACAA-ATACTTGATG
1 AGCAACAACAACAT-CTTAATG
* *
10236011 AGCAAGAGCAACATCTTAATG
1 AGCAACAACAACATCTTAATG
*
10236032 AGCAATAACAAC
1 AGCAACAACAAC
10236044 GACTCACAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 25 0.93
22 2 0.07
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (21 bp):
AGCAACAACAACATCTTAATG
Found at i:10239513 original size:15 final size:17
Alignment explanation
Indices: 10239490--10239521 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10239480 AATTTTTTGT
10239490 TTAAGAGTATTT-TACA
1 TTAAGAGTATTTCTACA
10239506 TTAA-AGTATTTCTACA
1 TTAAGAGTATTTCTACA
10239522 GGGTCGTCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (17 bp):
TTAAGAGTATTTCTACA
Found at i:10250321 original size:21 final size:20
Alignment explanation
Indices: 10250295--10250337 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
10250285 ATAATTTAAT
10250295 AATAAAATAATTAATTATATA
1 AATAAAATAATTAATTAT-TA
*
10250316 AATAAAATACTTAATTATTA
1 AATAAAATAATTAATTATTA
10250336 AA
1 AA
10250338 GTAACTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AATAAAATAATTAATTATTA
Found at i:10251334 original size:2 final size:2
Alignment explanation
Indices: 10251327--10251355 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10251317 AGAGTTGTTT
10251327 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10251356 GATCCACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10251675 original size:25 final size:25
Alignment explanation
Indices: 10251606--10251676 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
10251596 TTGACATAAC
*
10251606 TATTAAAA-TATAAAAAATTATTTAT
1 TATTAAAATTAT-TAAAATTATTTAT
* *
10251631 AATTAAAATCTATTGAAATTATTTAT
1 TATTAAAAT-TATTAAAATTATTTAT
10251657 TATTAAAATTATTAAAATTA
1 TATTAAAATTATTAAAATTA
10251677 AAAAATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 17 0.44
26 19 0.49
27 3 0.08
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (25 bp):
TATTAAAATTATTAAAATTATTTAT
Found at i:10251715 original size:18 final size:18
Alignment explanation
Indices: 10251650--10251733 Score: 54
Period size: 18 Copynumber: 4.9 Consensus size: 18
10251640 CTATTGAAAT
*
10251650 TATTTATTATTAAAAT--
1 TATTTAATATTAAAATAA
*
10251666 TA-TTAAAATTAAAA-AA
1 TATTTAATATTAAAATAA
* **
10251682 TAATT-ATATTTTAATAA
1 TATTTAATATTAAAATAA
*
10251699 TATTTAATATTAAAATAT
1 TATTTAATATTAAAATAA
*
10251717 TATATTAAGA-TAAAATA
1 TAT-TTAATATTAAAATA
10251734 TTTAAAACAA
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
15 10 0.19
16 10 0.19
17 8 0.15
18 19 0.37
19 5 0.10
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (18 bp):
TATTTAATATTAAAATAA
Found at i:10251982 original size:29 final size:28
Alignment explanation
Indices: 10251930--10251986 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
10251920 AAAAATTATT
* *
10251930 TAATTATATTTATTATGAAAATAATAATA
1 TAATTATATTAATAATGAAAATAA-AATA
10251959 TAATTATATTAATAAT-AAATATAAAATA
1 TAATTATATTAATAATGAAA-ATAAAATA
10251987 AATATTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.28
29 18 0.72
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (28 bp):
TAATTATATTAATAATGAAAATAAAATA
Found at i:10252628 original size:22 final size:20
Alignment explanation
Indices: 10252602--10252644 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
10252592 ATCTTATTTC
*
10252602 TTGTTAATTAATAAGTATTTTT
1 TTGTTAACTAATAA--ATTTTT
*
10252624 TTGTTGACTAATAAATTTTT
1 TTGTTAACTAATAAATTTTT
10252644 T
1 T
10252645 ACTCAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.58
Consensus pattern (20 bp):
TTGTTAACTAATAAATTTTT
Found at i:10253422 original size:14 final size:15
Alignment explanation
Indices: 10253395--10253423 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10253385 TTTGAATACA
10253395 TATTTTATAATTATT
1 TATTTTATAATTATT
10253410 TATTTTA-AATTATT
1 TATTTTATAATTATT
10253424 AGATATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTTATAATTATT
Found at i:10254604 original size:29 final size:29
Alignment explanation
Indices: 10254549--10254604 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
10254539 AATCTCTGAA
* * *
10254549 TTTATTTTTAAAAAATTTCAAATTTAATC
1 TTTATTATTAAAAAATATAAAATTTAATC
10254578 TTTATTATT-AAAAATATAAAATATTAA
1 TTTATTATTAAAAAATATAAAAT-TTAA
10254605 ATCATGAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (29 bp):
TTTATTATTAAAAAATATAAAATTTAATC
Found at i:10255991 original size:4 final size:4
Alignment explanation
Indices: 10255977--10256033 Score: 55
Period size: 4 Copynumber: 14.5 Consensus size: 4
10255967 TTTATCATTA
* * * *
10255977 TTAT CTAT TTAT TTAT TTAT TT-T TCAT TTAT TT-T ACTAT TTAT ATAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT TTAT TTAT
10256024 TTAT TTAT TT
1 TTAT TTAT TT
10256034 GTAAATATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
3 3 0.07
4 38 0.90
5 1 0.02
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (4 bp):
TTAT
Found at i:10256019 original size:31 final size:30
Alignment explanation
Indices: 10255964--10256029 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
10255954 GTTATCTTTG
*
10255964 TATTTTATCATTATTATCTATTTATTTATT
1 TATTTTATCATTATTATCTATTTATATATT
*
10255994 TATTTT-TCATTTATTTTACTATTTATATATT
1 TATTTTATCA-TTATTAT-CTATTTATATATT
10256025 TATTT
1 TATTT
10256030 ATTTGTAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 3 0.09
30 12 0.38
31 17 0.53
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (30 bp):
TATTTTATCATTATTATCTATTTATATATT
Found at i:10256191 original size:57 final size:57
Alignment explanation
Indices: 10256077--10256224 Score: 174
Period size: 57 Copynumber: 2.6 Consensus size: 57
10256067 AAACATTTTT
* * *
10256077 TAAAAAAAGAATCTTACTAATATATTGGAATATTCAAATTTTTTTAAATAATGTTTAA
1 TAAAAAAAGAATCTTACTAATATATTGAAAGATTCAAATTTTTATAAAT-ATGTTTAA
*
10256135 -ATAAAAAGAATCTTACTAATATATTGAAAGATTCAAATTTTTAATAAAT-TGTTTTAA
1 TAAAAAAAGAATCTTACTAATATATTGAAAGATTCAAATTTTT-ATAAATATG-TTTAA
* * * *
10256192 TAAAACAAAAAACCTTACCAATATATTAAAAGA
1 TAAAA-AAAGAATCTTACTAATATATTGAAAGA
10256225 CAATTTGATT
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
56 2 0.03
57 44 0.57
58 8 0.10
59 23 0.30
ACGTcount: A:0.50, C:0.07, G:0.06, T:0.36
Consensus pattern (57 bp):
TAAAAAAAGAATCTTACTAATATATTGAAAGATTCAAATTTTTATAAATATGTTTAA
Found at i:10257163 original size:24 final size:24
Alignment explanation
Indices: 10257129--10257192 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
10257119 AGTTAAAAAT
* **
10257129 AATGAAGATCTTTAAGGAGTTTTA
1 AATGAAAATCTTTAAAAAGTTTTA
*
10257153 AATGAGAATCTTTAAAAAGTTTTA
1 AATGAAAATCTTTAAAAAGTTTTA
10257177 AATGAAAATCTTTAAA
1 AATGAAAATCTTTAAA
10257193 TGAGAATCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (24 bp):
AATGAAAATCTTTAAAAAGTTTTA
Found at i:10257168 original size:14 final size:14
Alignment explanation
Indices: 10257149--10257217 Score: 65
Period size: 14 Copynumber: 5.2 Consensus size: 14
10257139 TTTAAGGAGT
10257149 TTTAAATGAGAATC
1 TTTAAATGAGAATC
*
10257163 TTTAAA--A-AGT-
1 TTTAAATGAGAATC
*
10257173 TTTAAATGAAAATC
1 TTTAAATGAGAATC
10257187 TTTAAATGAGAATC
1 TTTAAATGAGAATC
***
10257201 TAGGAATGAGAATC
1 TTTAAATGAGAATC
10257215 TTT
1 TTT
10257218 GTCTTTTGGT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
10 6 0.14
11 2 0.05
12 2 0.05
13 2 0.05
14 31 0.72
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.36
Consensus pattern (14 bp):
TTTAAATGAGAATC
Found at i:10257945 original size:17 final size:17
Alignment explanation
Indices: 10257925--10257958 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10257915 TGAATTTTTG
10257925 GAATCTTTACGAATCTT
1 GAATCTTTACGAATCTT
*
10257942 GAATCTTTATGAATCTT
1 GAATCTTTACGAATCTT
10257959 TACAATTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (17 bp):
GAATCTTTACGAATCTT
Found at i:10258020 original size:17 final size:17
Alignment explanation
Indices: 10257998--10258030 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10257988 AAATCTTAGA
*
10257998 ATCTTTGTGGATCTTTT
1 ATCTTTGTGAATCTTTT
10258015 ATCTTTGTGAATCTTT
1 ATCTTTGTGAATCTTT
10258031 ACAATTATGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
ATCTTTGTGAATCTTTT
Found at i:10258141 original size:37 final size:36
Alignment explanation
Indices: 10258053--10258166 Score: 131
Period size: 36 Copynumber: 3.1 Consensus size: 36
10258043 TTTTGAAATT
* * *
10258053 TTTTATGAATCTTAAAACTTTTGCAAAACTTGTAATC
1 TTTTGTGAATCTTGAAACTTTTGCAAACCTTG-AATC
* *
10258090 -TTTGTGAATTTTGAAACTTTTGCAAATCCTAGAATC
1 TTTTGTGAATCTTGAAACTTTTGCAAA-CCTTGAATC
*
10258126 TTTTGTGAATCTTGAAATTTTTTGCAAACCTTTGAATC
1 TTTTGTGAATCTTGAAA-CTTTTGCAAACC-TTGAATC
10258164 TTT
1 TTT
10258167 GCAAATATTG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
36 27 0.42
37 20 0.31
38 18 0.28
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (36 bp):
TTTTGTGAATCTTGAAACTTTTGCAAACCTTGAATC
Found at i:10258178 original size:37 final size:35
Alignment explanation
Indices: 10258058--10258178 Score: 116
Period size: 37 Copynumber: 3.3 Consensus size: 35
10258048 AAATTTTTTA
* * *
10258058 TGAATCTTAAAACTTTTGCAAAACTTGTAATCTTTG
1 TGAATATTGAAACTTTTGCAAACCTTG-AATCTTTG
* *
10258094 TGAATTTTGAAACTTTTGCAAATCCTAGAATCTTTTG
1 TGAATATTGAAACTTTTGCAAA-CCTTGAATC-TTTG
* *
10258131 TGAATCTTGAAATTTTTTGCAAACCTTTGAATCTTTG
1 TGAATATTGAAA-CTTTTGCAAACC-TTGAATCTTTG
**
10258168 CAAATATTGAA
1 TGAATATTGAA
10258179 TCTTGTGAAT
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
36 24 0.34
37 32 0.45
38 15 0.21
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.42
Consensus pattern (35 bp):
TGAATATTGAAACTTTTGCAAACCTTGAATCTTTG
Found at i:10263872 original size:101 final size:101
Alignment explanation
Indices: 10263697--10263909 Score: 372
Period size: 101 Copynumber: 2.1 Consensus size: 101
10263687 GCTACTAAAA
* * *
10263697 ATTTAAGTTTTCGCAGAAGAGCTTAAGCTGACAATGGTTCAATTAAGTAGCATCATATTTTAATA
1 ATTTAAGTTTTCGCAAAAAAGCTTAAGCTAACAATGGTTCAATTAAGTAGCATCATATTTTAATA
10263762 TTAAGCTTTGAATTTTATTTATTTATTTTTGGTATT
66 TTAAGCTTTGAATTTTATTTATTTATTTTTGGTATT
*
10263798 ATTTAAGTTTTCGCAAAAAAGCTTAAGCTAACAATGGTTCAATTGAGTAGCATCATATTTTAATA
1 ATTTAAGTTTTCGCAAAAAAGCTTAAGCTAACAATGGTTCAATTAAGTAGCATCATATTTTAATA
10263863 TTAAGCTTTGAATTTTATTTATTTATTTTTGGTATT
66 TTAAGCTTTGAATTTTATTTATTTATTTTTGGTATT
*
10263899 ATATTTAGTTT
1 AT-TTAAGTTT
10263910 AAAGTTATTA
Statistics
Matches: 106, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
101 99 0.93
102 7 0.07
ACGTcount: A:0.31, C:0.08, G:0.14, T:0.46
Consensus pattern (101 bp):
ATTTAAGTTTTCGCAAAAAAGCTTAAGCTAACAATGGTTCAATTAAGTAGCATCATATTTTAATA
TTAAGCTTTGAATTTTATTTATTTATTTTTGGTATT
Found at i:10264500 original size:22 final size:23
Alignment explanation
Indices: 10264457--10264500 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
10264447 TCTATTTATT
*
10264457 TATTTCATTTATTTTACTATATA
1 TATTTCATTTATTTTACAATATA
10264480 TATTT-ATTTATTTGTA-AATAT
1 TATTTCATTTATTT-TACAATAT
10264501 TTAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTTCATTTATTTTACAATATA
Found at i:10264655 original size:58 final size:58
Alignment explanation
Indices: 10264532--10264666 Score: 177
Period size: 58 Copynumber: 2.3 Consensus size: 58
10264522 TTTTTTAAAG
*
10264532 AATCTTACCAACATATTGAAATATTTAAATTTTTTTAAATAAATGCTTAAATAAAAAAA
1 AATCTTACCAACATATTGAAAAATTTAAA-TTTTTTAAATAAATGCTTAAATAAAAAAA
* * *
10264591 AATCTTACCAATATATT-AAAAATTTAAA-TTTTT-AATAAATTGTTTTAATAAAACAAA
1 AATCTTACCAACATATTGAAAAATTTAAATTTTTTAAATAAA-TGCTTAAATAAAA-AAA
10264648 AAGTCTTACCAACATATTG
1 AA-TCTTACCAACATATTG
10264667 GAGTCAATTT
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
55 6 0.09
56 16 0.24
57 5 0.07
58 24 0.36
59 16 0.24
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.38
Consensus pattern (58 bp):
AATCTTACCAACATATTGAAAAATTTAAATTTTTTAAATAAATGCTTAAATAAAAAAA
Found at i:10264817 original size:14 final size:14
Alignment explanation
Indices: 10264798--10264831 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
10264788 AAGGCAATTT
10264798 GGTTTTCAAAATAA
1 GGTTTTCAAAATAA
10264812 GGTTTTCAAAATAA
1 GGTTTTCAAAATAA
*
10264826 TGTTTT
1 GGTTTT
10264832 ACCAACATAT
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:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (14 bp):
GGTTTTCAAAATAA
Found at i:10270053 original size:27 final size:27
Alignment explanation
Indices: 10270015--10270069 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
10270005 GACCTCAAGG
10270015 TATGAATGCTTTCTTTTATAAAAAATT
1 TATGAATGCTTTCTTTTATAAAAAATT
10270042 TATGAATGCTTTCTTTTATAAAAAATT
1 TATGAATGCTTTCTTTTATAAAAAATT
10270069 T
1 T
10270070 TGGCATGTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.49
Consensus pattern (27 bp):
TATGAATGCTTTCTTTTATAAAAAATT
Found at i:10272057 original size:141 final size:141
Alignment explanation
Indices: 10271803--10272087 Score: 570
Period size: 141 Copynumber: 2.0 Consensus size: 141
10271793 CTTTCACCAG
10271803 TCACCAAAAATCATACGACCTTCATCACCCCACACACCATTTACACAGTCACCACCGAAAGACCA
1 TCACCAAAAATCATACGACCTTCATCACCCCACACACCATTTACACAGTCACCACCGAAAGACCA
10271868 AGCTAACTGACCCGAGCCTAACCAGACCCATCTAGCCTAACCAGAGGGCACTCAATCAAAGAAAA
66 AGCTAACTGACCCGAGCCTAACCAGACCCATCTAGCCTAACCAGAGGGCACTCAATCAAAGAAAA
10271933 AAATCACCTCA
131 AAATCACCTCA
10271944 TCACCAAAAATCATACGACCTTCATCACCCCACACACCATTTACACAGTCACCACCGAAAGACCA
1 TCACCAAAAATCATACGACCTTCATCACCCCACACACCATTTACACAGTCACCACCGAAAGACCA
10272009 AGCTAACTGACCCGAGCCTAACCAGACCCATCTAGCCTAACCAGAGGGCACTCAATCAAAGAAAA
66 AGCTAACTGACCCGAGCCTAACCAGACCCATCTAGCCTAACCAGAGGGCACTCAATCAAAGAAAA
10272074 AAATCACCTCA
131 AAATCACCTCA
10272085 TCA
1 TCA
10272088 TCCCACTGCC
Statistics
Matches: 144, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 144 1.00
ACGTcount: A:0.39, C:0.36, G:0.11, T:0.14
Consensus pattern (141 bp):
TCACCAAAAATCATACGACCTTCATCACCCCACACACCATTTACACAGTCACCACCGAAAGACCA
AGCTAACTGACCCGAGCCTAACCAGACCCATCTAGCCTAACCAGAGGGCACTCAATCAAAGAAAA
AAATCACCTCA
Found at i:10281111 original size:18 final size:18
Alignment explanation
Indices: 10281069--10281112 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
10281059 CATGTTTCAC
10281069 ATCATTTTCTTCATTCTT
1 ATCATTTTCTTCATTCTT
* *
10281087 CTCATTTTCTT-ATTTTT
1 ATCATTTTCTTCATTCTT
*
10281104 ATCAATTTC
1 ATCATTTTC
10281113 CTATTTACTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.61
Consensus pattern (18 bp):
ATCATTTTCTTCATTCTT
Found at i:10281673 original size:45 final size:44
Alignment explanation
Indices: 10281603--10281690 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
10281593 CTTACTTTGA
* *
10281603 TTATATATATTAAATTATATTTTAATTAATTAATTAATTTTATAT
1 TTATATATATT-AATTATATATTAATTAATTAATTAATATTATAT
*
10281648 TTATATATATT-ATTATATAAATTAATTAATTATTTAATATTAT
1 TTATATATATTAATTATAT--ATTAATTAATTAATTAATATTAT
10281691 GAAAAAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 7 0.18
45 31 0.82
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (44 bp):
TTATATATATTAATTATATATTAATTAATTAATTAATATTATAT
Found at i:10282274 original size:13 final size:12
Alignment explanation
Indices: 10282239--10282267 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10282229 TTTTATATAT
10282239 TATTAATTTTTA
1 TATTAATTTTTA
10282251 TATTAATTTTT-
1 TATTAATTTTTA
10282262 TATTAA
1 TATTAA
10282268 AATTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATTAATTTTTA
Found at i:10296807 original size:10 final size:10
Alignment explanation
Indices: 10296787--10296820 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10296777 AAAGTTATAG
10296787 TTTTTTAATTA
1 TTTTTT-ATTA
10296798 TTTTTTATTA
1 TTTTTTATTA
*
10296808 CTTTTTATTA
1 TTTTTTATTA
10296818 TTT
1 TTT
10296821 ATTTTTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 15 0.71
11 6 0.29
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:10297491 original size:202 final size:202
Alignment explanation
Indices: 10297181--10297626 Score: 558
Period size: 202 Copynumber: 2.2 Consensus size: 202
10297171 TTACACTTAG
* * *
10297181 AGATTTCGTAAAGCATCACTACTCGAAATACTTTAGAATCTCGTCACAAGATAAAATTTTTTTTC
1 AGATTTTGTAAAGCATCAATACTCGAAATACTTTAGAATCTTGTCACAAGATAAAATTTTTTTTC
* *
10297246 TCTTATTTATTATTAAAAATTAACAAATTAATTAATTTTTATTTTTATTTTATAGCAAAAATTTC
66 TCTCATTTATTATT-AAAATTAACAAAATAATTAATTTTTATTTTTATTTTATAGCAAAAATTTC
* ** * * * * *
10297311 TTTTATTGTATTGAAATTTTTTTATATATACTATAATATGTTGGTAGTATTAAAAAAATTTTTTT
130 TTTTATTGTATTAAAACCTTTTTATATATACTACAATACGTTGATAATATTAAAAAAA--TATTT
*
10297376 TCTCACCTAA
193 TCTCACATAA
* **
10297386 AGATTTTGTAAAGTATCAATACTCGAAATACTTTAGAATCTTGTCACTGGATAAAA-TTTTTTTC
1 AGATTTTGTAAAGCATCAATACTCGAAATACTTTAGAATCTTGTCACAAGATAAAATTTTTTTTC
* *** * * *
10297450 TCTCATTTTTTATT-TTTTTAACAAAATAGTTAATTTTTATTTTTATTTTATAGCAAAATTTTTT
66 TCTCATTTATTATTAAAATTAACAAAATAATTAATTTTTATTTTTATTTTATAGCAAAAATTTCT
* *
10297514 TTTATTGTATTAAAACCTTTTTATATATACTCCAATACGTTGATAATATTTAAAAAATATTTTCT
131 TTTATTGTATTAAAACCTTTTTATATATACTACAATACGTTGATAATATTAAAAAAATATTTTCT
*
10297579 CACATTA
196 CACATAA
** *
10297586 AGATTTTGT-AAGCAT-TGTCACTCGAAATACTTTTGAATCTT
1 AGATTTTGTAAAGCATCAAT-ACTCGAAATACTTTAGAATCTT
10297627 ATTCTCAGAT
Statistics
Matches: 209, Mismatches: 31, Indels: 8
0.84 0.12 0.03
Matches are distributed among these distances:
198 1 0.00
199 26 0.12
200 21 0.10
202 91 0.44
204 20 0.10
205 50 0.24
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (202 bp):
AGATTTTGTAAAGCATCAATACTCGAAATACTTTAGAATCTTGTCACAAGATAAAATTTTTTTTC
TCTCATTTATTATTAAAATTAACAAAATAATTAATTTTTATTTTTATTTTATAGCAAAAATTTCT
TTTATTGTATTAAAACCTTTTTATATATACTACAATACGTTGATAATATTAAAAAAATATTTTCT
CACATAA
Found at i:10298937 original size:15 final size:15
Alignment explanation
Indices: 10298919--10298952 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10298909 TTTTTTTTTG
10298919 ATTTTTT-TATTAATT
1 ATTTTTTGTATT-ATT
10298934 ATTTTTTGTATTATT
1 ATTTTTTGTATTATT
10298949 ATTT
1 ATTT
10298953 GATTAATACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (15 bp):
ATTTTTTGTATTATT
Found at i:10299409 original size:84 final size:84
Alignment explanation
Indices: 10299296--10299488 Score: 251
Period size: 84 Copynumber: 2.3 Consensus size: 84
10299286 AAATAGATTC
* * * * **
10299296 AGCTCAAAAGACTTACGAATCATGCCCAAAGGACTTAGAAATTATGTCCGGAGGTATTACAAATA
1 AGCTAAAAAAACTTACGAATCTTGCCCAAAAGACTTAGAAATTACATCCGGAGGTATTACAAATA
* *
10299361 TCAAAACTATAACAAATTT
66 TCAAAACAAAAACAAATTT
* * * * * *
10299380 AGCTAAAAAAACTTATGAATCTTGCCCAAAAGATTTAGAGATTACATTCGGAGGTCTTATAAATA
1 AGCTAAAAAAACTTACGAATCTTGCCCAAAAGACTTAGAAATTACATCCGGAGGTATTACAAATA
*
10299445 TCAAAACAAAAACAAGTTT
66 TCAAAACAAAAACAAATTT
10299464 AGCTAAAAAAACTTACGAATCTTGC
1 AGCTAAAAAAACTTACGAATCTTGC
10299489 ACAGAGATTA
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
84 93 1.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (84 bp):
AGCTAAAAAAACTTACGAATCTTGCCCAAAAGACTTAGAAATTACATCCGGAGGTATTACAAATA
TCAAAACAAAAACAAATTT
Found at i:10299635 original size:21 final size:22
Alignment explanation
Indices: 10299590--10299643 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
10299580 TTACCCAGAG
*
10299590 GTTTTATAAATTATGTCCGGAA
1 GTTTTAGAAATTATGTCCGGAA
* *
10299612 GTTTTAGAGATTATGTTC-GAA
1 GTTTTAGAAATTATGTCCGGAA
*
10299633 GTTTTACAAAT
1 GTTTTAGAAAT
10299644 GTCAATATCT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (22 bp):
GTTTTAGAAATTATGTCCGGAA
Found at i:10299739 original size:125 final size:126
Alignment explanation
Indices: 10299491--10299742 Score: 337
Period size: 125 Copynumber: 2.0 Consensus size: 126
10299481 AATCTTGCAC
* * * * * * * *
10299491 AGAGATTACGTTTGGAGATTTTACAAATTTCAATATTTTTTATTGCTCCTTATCTCAGAGGCATT
1 AGAGATTACGTTCGAAGATTTTACAAATGTCAATATCTTTGAGTGCTCCTCATATCAGAGGCATT
* * * *
10299556 AAAACTTTGAAAACTTAAAATATTTTACCCAGAGGTTTTATAAATTATGTCCGGAAGTTTT
66 AAAACTTTGAAAACTTAAAATATTTTACCCAAAGATTTTACAAATTATGTCCGAAAGTTTT
* *
10299617 AGAGATTATGTTCGAAG-TTTTACAAATGTCAATATCTTTGAGTGCTCCTCGTATCAGAGGCATT
1 AGAGATTACGTTCGAAGATTTTACAAATGTCAATATCTTTGAGTGCTCCTCATATCAGAGGCATT
* *
10299681 AGAACTTTGAAAACTTAAAATATTTTACCCAAAGATTTTACAGATTATG-CTCGAAAGTTTT
66 AAAACTTTGAAAACTTAAAATATTTTACCCAAAGATTTTACAAATTATGTC-CGAAAGTTTT
10299742 A
1 A
10299743 AAAATCTTTC
Statistics
Matches: 109, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
124 1 0.01
125 94 0.86
126 14 0.13
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (126 bp):
AGAGATTACGTTCGAAGATTTTACAAATGTCAATATCTTTGAGTGCTCCTCATATCAGAGGCATT
AAAACTTTGAAAACTTAAAATATTTTACCCAAAGATTTTACAAATTATGTCCGAAAGTTTT
Found at i:10299882 original size:96 final size:96
Alignment explanation
Indices: 10299650--10299900 Score: 247
Period size: 96 Copynumber: 2.6 Consensus size: 96
10299640 AAATGTCAAT
* * * * *
10299650 ATCTTTGAGTGCTCCTCGTATCAGAGGCATT-AGAACTTTGAAAACTTAAAATATTTTACCCAAA
1 ATCTTTCAATGCTCCTCATATCAGAGACATTGA-AACTTTGAAAACTTAAAATATTTTACACAAA
* * *
10299714 GATTTTACAGATTATGCTCGAAAGTTTTAAAA
65 GATCTTACAGATTATGCTCAAAAATTTTAAAA
* ** * * * * *
10299746 ATCTTTCAATGCTTCTTGTATTAGAGGCATTGAAATTTTGAAAACTTAAAATATTTTGCACAGAG
1 ATCTTTCAATGCTCCTCATATCAGAGACATTGAAACTTTGAAAACTTAAAATATTTTACACAAAG
* *
10299811 GTCTTATAGATTATGC-CTAAAAATTTTAAAA
66 ATCTTACAGATTATGCTC-AAAAATTTTAAAA
* * * * *
10299842 ATCTTTGAATGCTCCTCATATCGGTGACGTTGAGACTTTGAAAA-TTAAAAATATTTTAC
1 ATCTTTCAATGCTCCTCATATCAGAGACATTGAAACTTTGAAAACTT-AAAATATTTTAC
10299901 TTGAAGGTCT
Statistics
Matches: 126, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
95 3 0.02
96 122 0.97
97 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (96 bp):
ATCTTTCAATGCTCCTCATATCAGAGACATTGAAACTTTGAAAACTTAAAATATTTTACACAAAG
ATCTTACAGATTATGCTCAAAAATTTTAAAA
Found at i:10300201 original size:23 final size:23
Alignment explanation
Indices: 10300175--10300236 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
10300165 GGTTTCGGTA
10300175 CCAACTAGAT-TGGGCTTAAAGTG
1 CCAACTA-ATCTGGGCTTAAAGTG
* *
10300198 CCAACTAATCTAGACTTAAAGTG
1 CCAACTAATCTGGGCTTAAAGTG
10300221 CCAACTAATCTGGGCT
1 CCAACTAATCTGGGCT
10300237 AGTAGTACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 2 0.06
23 32 0.94
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (23 bp):
CCAACTAATCTGGGCTTAAAGTG
Found at i:10306126 original size:17 final size:16
Alignment explanation
Indices: 10306106--10306137 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
10306096 ACAGTAGGGT
10306106 TTTTTTATTTTTTTTGG
1 TTTTTT-TTTTTTTTGG
10306123 TTTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTG
10306138 CTTGGCAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (16 bp):
TTTTTTTTTTTTTTGG
Found at i:10306142 original size:20 final size:18
Alignment explanation
Indices: 10306103--10306136 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10306093 TTGACAGTAG
10306103 GGTTTTTTTATTTTTTTT
1 GGTTTTTTTATTTTTTTT
10306121 GGTTTTTTT-TTTTTTT
1 GGTTTTTTTATTTTTTT
10306137 GCTTGGCAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.03, C:0.00, G:0.12, T:0.85
Consensus pattern (18 bp):
GGTTTTTTTATTTTTTTT
Found at i:10306618 original size:23 final size:23
Alignment explanation
Indices: 10306588--10306635 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
10306578 GTTTTTTTGC
* *
10306588 TTATTTTTTTATTTTTTTAATTAA
1 TTATTTTTGTA-TTATTTAATTAA
10306612 TTATTTTTGTATTATTTAATTAA
1 TTATTTTTGTATTATTTAATTAA
10306635 T
1 T
10306636 ACTTTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (23 bp):
TTATTTTTGTATTATTTAATTAA
Found at i:10308327 original size:31 final size:31
Alignment explanation
Indices: 10308289--10308348 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
10308279 AACAACCCGC
10308289 TACAAATTATAGTACCAAGTTTCAATTTAAT
1 TACAAATTATAGTACCAAGTTTCAATTTAAT
**
10308320 TACAAATTATAGTGGCAAGTTTCAATTTA
1 TACAAATTATAGTACCAAGTTTCAATTTA
10308349 GTGGAATCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (31 bp):
TACAAATTATAGTACCAAGTTTCAATTTAAT
Found at i:10311150 original size:12 final size:12
Alignment explanation
Indices: 10311135--10311159 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10311125 TAAAATAATT
10311135 TCCTTTTCATAA
1 TCCTTTTCATAA
10311147 TCCTTTTCATAA
1 TCCTTTTCATAA
10311159 T
1 T
10311160 TAATTAGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (12 bp):
TCCTTTTCATAA
Found at i:10312590 original size:24 final size:22
Alignment explanation
Indices: 10312560--10312615 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
10312550 AATTTTAAAT
*
10312560 ATAATACAATAATATGATACAAAA
1 ATAATACAATAAAATGATAC--AA
*
10312584 ATAATACGAA-AAAATTATACAA
1 ATAATAC-AATAAAATGATACAA
10312606 ATAATACAAT
1 ATAATACAAT
10312616 TCAAAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
21 2 0.07
22 9 0.32
24 15 0.54
25 2 0.07
ACGTcount: A:0.62, C:0.09, G:0.04, T:0.25
Consensus pattern (22 bp):
ATAATACAATAAAATGATACAA
Found at i:10317548 original size:64 final size:64
Alignment explanation
Indices: 10317429--10317553 Score: 169
Period size: 64 Copynumber: 2.0 Consensus size: 64
10317419 TTAAAATCCC
* ** ** * *
10317429 ATAATTAAGCACAAAACATTTATATGTAAGTATCCATGTAGCAATAGTAATTGGTATAGAACTA
1 ATAATTAAGCACAAAACATTTAGATGTAAGTATCCACATAAAAATAATAACTGGTATAGAACTA
* *
10317493 ATAATTACGCACACAACATTTAGATGTAAGTATCCACATAAAAATAATAACTGGTATAGAA
1 ATAATTAAGCACAAAACATTTAGATGTAAGTATCCACATAAAAATAATAACTGGTATAGAA
10317554 ATTGTAAGTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.29
Consensus pattern (64 bp):
ATAATTAAGCACAAAACATTTAGATGTAAGTATCCACATAAAAATAATAACTGGTATAGAACTA
Found at i:10320213 original size:3 final size:3
Alignment explanation
Indices: 10320205--10320237 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
10320195 ATAACATATA
10320205 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
10320238 AATCAATTGA
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:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:10321122 original size:22 final size:23
Alignment explanation
Indices: 10321094--10321136 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
10321084 TTGGATTTAG
*
10321094 TTTTCAT-AAAAATTTAAGTTAA
1 TTTTCATAAAAAAATTAAGTTAA
10321116 TTTTCATAAAAAAATTAAGTT
1 TTTTCATAAAAAAATTAAGTT
10321137 CTTTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.44
Consensus pattern (23 bp):
TTTTCATAAAAAAATTAAGTTAA
Found at i:10321143 original size:188 final size:187
Alignment explanation
Indices: 10320728--10321267 Score: 499
Period size: 192 Copynumber: 2.8 Consensus size: 187
10320718 TATAAAAGAC
* * *
10320728 ATAAAACAAAAAAATAAAATTTAAGTTCTTTTTTATTTTTTTCTTTTGTTTTAAATATTTTTACA
1 ATAAAAC-AAAAAATAACATTTAAGTTC---CTT-TTTTTTTCTTTTGTTTTATATATTTTTACA
* * * *
10320793 AAAAAAATTATACTCTATAATAAATTTAAAAAATCATACATTTGATCAATGATTGATAAAAAATA
61 AAAAAAATTATAATCAATAATAAA-TTAAAAAATCATACATTTGATAAATGATTAATAAAAAATA
***** * * *
10320858 AAACGCTCATAAAAT-TTAAGTTCTTTTTTAATTTTCACAAAATTAAATTTTCATAATTTTCATA
125 AAACGCTCATAAAATATT-A-TGAAAATTTAATGTTCACAAAATTAAATTTTCATAAATTTAATA
*
10320922 ATAAAACAAAAAATAACATTTAAGTTCC-TTTTTTTTCTTTTGGTTTATATATTTTTACAAAAAA
1 ATAAAACAAAAAATAACATTTAAGTTCCTTTTTTTTTCTTTTGTTTTATATATTTTTACAAAAAA
**
10320986 AATTATAATCCGTAATAAATTAAAAAATCATACATTTGATGAAATGATTAATAAAAAATAAAACG
66 AATTATAATCAATAATAAATTAAAAAATCATACATTTGAT-AAATGATTAATAAAAAATAAAACG
*** * *
10321051 CTCATAAAATATTATGAAAATTTAA-GTTCACTCTTGGATTTAGTTTTCATAAAAATTTAAGTTA
130 CTCATAAAATATTATGAAAATTTAATGTTCA--C-AAAATTAAATTTTCAT--AAATTTAA--TA
*** * * *
10321115 AT-TTTCATAAAA-AA-A-TTAAGTT-CTTTTTTATTTATTTTCTTTTCCATTAAATATTTTT--
1 ATAAAACAAAAAATAACATTTAAGTTCCTTTTTT-TTTCTTTTGTTTT--A-T--ATATTTTTAC
* *
10321173 -TAAAAAATTATAATCAATAATAAATTAAAAAATCATACATTTGATCAAATGACTAATAAAAAAT
60 AAAAAAAATTATAATCAATAATAAATTAAAAAATCATACATTTGAT-AAATGATTAATAAAAAAT
* *
10321237 AAAATGCTCATAAAATATTATGTAAATTTAA
124 AAAACGCTCATAAAATATTATGAAAATTTAA
10321268 CAAAAAATAT
Statistics
Matches: 294, Mismatches: 36, Indels: 34
0.81 0.10 0.09
Matches are distributed among these distances:
186 4 0.01
187 27 0.09
188 84 0.29
189 26 0.09
190 11 0.04
191 8 0.03
192 95 0.32
193 24 0.08
194 7 0.02
195 8 0.03
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (187 bp):
ATAAAACAAAAAATAACATTTAAGTTCCTTTTTTTTTCTTTTGTTTTATATATTTTTACAAAAAA
AATTATAATCAATAATAAATTAAAAAATCATACATTTGATAAATGATTAATAAAAAATAAAACGC
TCATAAAATATTATGAAAATTTAATGTTCACAAAATTAAATTTTCATAAATTTAATA
Found at i:10321543 original size:2 final size:2
Alignment explanation
Indices: 10321536--10321574 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
10321526 TTCTCAGTTT
* *
10321536 TA TA TA TA TA GA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10321575 TACTTTTTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:10321675 original size:20 final size:19
Alignment explanation
Indices: 10321646--10321692 Score: 71
Period size: 18 Copynumber: 2.5 Consensus size: 19
10321636 AATATTTTTC
10321646 TAAAAATTTTTT-A-TATT
1 TAAAAATTTTTTAATTATT
10321663 TAATAAATTTTTTAATTATT
1 TAA-AAATTTTTTAATTATT
10321683 TAAAAATTTT
1 TAAAAATTTT
10321693 AATATGGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 3 0.11
18 9 0.33
19 8 0.30
20 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TAAAAATTTTTTAATTATT
Found at i:10323632 original size:9 final size:9
Alignment explanation
Indices: 10323614--10323666 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
10323604 AGTCATTTGC
*
10323614 TTTTATTTT
1 TTTTCTTTT
*
10323623 TTTT-TCTT
1 TTTTCTTTT
*
10323631 TTTTCATTT
1 TTTTCTTTT
*
10323640 TTTTCTCTT
1 TTTTCTTTT
10323649 TTTTCTATTT
1 TTTTCT-TTT
10323659 TTTTCTTT
1 TTTTCTTT
10323667 CAAATAATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 7 0.19
9 21 0.58
10 8 0.22
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTCTTTT
Found at i:10323641 original size:18 final size:18
Alignment explanation
Indices: 10323614--10323666 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
10323604 AGTCATTTGC
10323614 TTTT-ATTTTTTTTTCTT
1 TTTTCATTTTTTTTTCTT
*
10323631 TTTTCATTTTTTTCTCTT
1 TTTTCATTTTTTTTTCTT
*
10323649 TTTTC-TATTTTTTTCTT
1 TTTTCATTTTTTTTTCTT
10323666 T
1 T
10323667 CAAATAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.06, C:0.11, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTCATTTTTTTTTCTT
Found at i:10323899 original size:17 final size:17
Alignment explanation
Indices: 10323877--10323922 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
10323867 TAAATATATG
10323877 TTTTATTATTAATTTA-A
1 TTTTA-TATTAATTTATA
*
10323894 TTTTATATTTATTTATA
1 TTTTATATTAATTTATA
*
10323911 TATTATATTAAT
1 TTTTATATTAAT
10323923 AAAATTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTATATTAATTTATA
Found at i:10324444 original size:21 final size:22
Alignment explanation
Indices: 10324402--10324453 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
10324392 TCCGAAATTA
10324402 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
10324424 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
10324445 ATAAAATAT
1 ATAAAATAT
10324454 ATAAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 13 0.43
22 17 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:10325113 original size:20 final size:21
Alignment explanation
Indices: 10325090--10325130 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10325080 CATTAAAAAG
*
10325090 AAAAA-TTCTATAAAAAAATT
1 AAAAATTTCTAAAAAAAAATT
10325110 AAAAATTTCTAAAAAAAAATT
1 AAAAATTTCTAAAAAAAAATT
10325131 GAATAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAAATTTCTAAAAAAAAATT
Found at i:10325150 original size:15 final size:14
Alignment explanation
Indices: 10325121--10325147 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10325111 AAAATTTCTA
10325121 AAAAAAAATTGAAT
1 AAAAAAAATTGAAT
10325135 AAAAAAAATTGAA
1 AAAAAAAATTGAA
10325148 ATATTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (14 bp):
AAAAAAAATTGAAT
Found at i:10325580 original size:23 final size:24
Alignment explanation
Indices: 10325537--10325581 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
10325527 TATAAAAAAA
*
10325537 TATATTTTATTATTAATTTAATTT
1 TATATTTTATTATTAAATTAATTT
10325561 TATA-TTTA-TATGTAAATTAAT
1 TATATTTTATTAT-TAAATTAAT
10325582 AAAGTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 3 0.16
23 12 0.63
24 4 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TATATTTTATTATTAAATTAATTT
Found at i:10326161 original size:17 final size:16
Alignment explanation
Indices: 10326138--10326182 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
10326128 ATAAAAATCA
10326138 TTTTATTTTTTATTTT
1 TTTTATTTTTTATTTT
**
10326154 TCTTTATTTTTCCTTTT
1 T-TTTATTTTTTATTTT
10326171 TTTTATTTTTTA
1 TTTTATTTTTTA
10326183 GATATTTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTATTTTTTATTTT
Found at i:10326577 original size:20 final size:19
Alignment explanation
Indices: 10326554--10326613 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 19
10326544 TTTGAATATC
10326554 TAAAACTCTTTTTTATATTT
1 TAAAACT-TTTTTTATATTT
* *
10326574 TAAAATTATTTTTTCTGATTTT
1 TAAAACT-TTTTTTAT-A-TTT
10326596 TAAAACTTTTTTTATATT
1 TAAAACTTTTTTTATATT
10326614 AAAAATCATG
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
19 2 0.06
20 14 0.42
21 8 0.24
22 9 0.27
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (19 bp):
TAAAACTTTTTTTATATTT
Found at i:10326586 original size:21 final size:19
Alignment explanation
Indices: 10326562--10326613 Score: 52
Period size: 22 Copynumber: 2.6 Consensus size: 19
10326552 TCTAAAACTC
10326562 TTTTTTATATTTTAAAATTAT
1 TTTTTTATATTTTAAAA--AT
*
10326583 TTTTTCTGAT-TTTTAAAACT
1 TTTTT-T-ATATTTTAAAAAT
10326603 TTTTTTATATT
1 TTTTTTATATT
10326614 AAAAATCATG
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
18 2 0.07
19 3 0.11
20 6 0.22
21 5 0.19
22 9 0.33
23 2 0.07
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTATATTTTAAAAAT
Found at i:10326587 original size:22 final size:21
Alignment explanation
Indices: 10326554--10326608 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
10326544 TTTGAATATC
*
10326554 TAAAACTCTTTTT-T-ATATTT
1 TAAAACTTTTTTTCTGAT-TTT
*
10326574 TAAAATTATTTTTTCTGATTTT
1 TAAAACT-TTTTTTCTGATTTT
10326596 TAAAACTTTTTTT
1 TAAAACTTTTTTT
10326609 ATATTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.21
21 11 0.38
22 10 0.34
23 2 0.07
ACGTcount: A:0.29, C:0.07, G:0.02, T:0.62
Consensus pattern (21 bp):
TAAAACTTTTTTTCTGATTTT
Found at i:10336024 original size:357 final size:356
Alignment explanation
Indices: 10335364--10336163 Score: 1136
Period size: 357 Copynumber: 2.2 Consensus size: 356
10335354 AACATATCAC
* * * * * *
10335364 CACATAAATTTTAACACGGTTATTAAAGACGTATATCTAAGAAAGATGCCTTTAAAAATTTCTAT
1 CACACAAATTTTAACATGATTATTGAAG-CGTATATCCAAGAAAGATGCCTTTAATAATTTCTAT
* * * *
10335429 AACAGTTTGTAGATAATTAGTGAAGGTGGTTCCAGATAACAATGCCTTCAATAATTTTCTTAAAA
65 CACAGTTTGTAGATAATTAGTAAAGGTGATTCCAGATAACAACGCCTTCAATAATTTTCTTAAAA
**
10335494 AAAATTTTTCGAATTATTAAAGGCGTCTTTTATTATGAAACACCTTCAACATACCATTATGGTTA
130 AAAATTTTTCGAATTATTAAAGGCGTCTTTTATTATGAAACACCTTCAACATACCACAATGGTTA
* * *
10335559 TGGAAGGTATTTATTCGAAAAGGTGCATTCAATATACCTTTAAACTTAGTAATCTATTACTAAAG
195 TGGAAGGCATTTATTCGAAAAGGTACATTCAATATACCTTTAAACTTAGTAATCCATTACTAAAG
* *
10335624 ACGTTTGTTAATAACAGACGCCTTTAAAATTTTCTCACTAAAAATTTTGAGAATCAGTAAAGGCA
260 ACGTTTATTAATAACAGACGCCTTAAAAATTTTCTCACTAAAAATTTTGAGAATCAGTAAAGGCA
*
10335689 TATTTTA-CTGTAAAATATATTTTATATACCGT
325 TATTCTAGC-GTAAAATATATTTTATATACCGT
*
10335721 CACACAAATTTTAACATGATTATTGAATGCGTATATCCAAAAAAGATGCCTTTAATAATTTCTAT
1 CACACAAATTTTAACATGATTATTGAA-GCGTATATCCAAGAAAGATGCCTTTAATAATTTCTAT
* * * * *
10335786 CACAGTTTGTATATAATTAGTAAAGGTGATTGCAGATAACAACGCCTTTAATAATTTTTTTTAAA
65 CACAGTTTGTAGATAATTAGTAAAGGTGATTCCAGATAACAACGCCTTCAATAATTTTCTTAAAA
*** * * * ** *
10335851 ATTTTTTTTTGGATTATTAAAGGCGTCTTTTATTATGACATGCCTTCAATATACCACAATGGTTA
130 AAAATTTTTCGAATTATTAAAGGCGTCTTTTATTATGAAACACCTTCAACATACCACAATGGTTA
* * * *
10335916 TGGAAGGCGTTTATTCGAAAAGGTACTTTCAATATACCTTTAAACTTAGTAATCCATTATTGAAG
195 TGGAAGGCATTTATTCGAAAAGGTACATTCAATATACCTTTAAACTTAGTAATCCATTACTAAAG
* * * *
10335981 GCGTTTATTAATAACAGACGCCTTCAAAAATTTT-TCACTAAAAATTTTGAGAATTATTAAAGGT
260 ACGTTTATTAATAACAGACGCCTT-AAAAATTTTCTCACTAAAAATTTTGAGAATCAGTAAAGGC
* * *
10336045 GTATTCTAGCGTAAAATGTCTTTTATATACCGT
324 ATATTCTAGCGTAAAATATATTTTATATACCGT
*
10336078 CACACAAATTCTAACATGATTATTGTAAGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTAT
1 CACACAAATTTTAACATGATTATTG-AAGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTAT
10336143 CACAGTTTGTAGATAATTAGT
65 CACAGTTTGTAGATAATTAGT
10336164 GAAGATAATT
Statistics
Matches: 392, Mismatches: 47, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
357 380 0.97
358 12 0.03
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (356 bp):
CACACAAATTTTAACATGATTATTGAAGCGTATATCCAAGAAAGATGCCTTTAATAATTTCTATC
ACAGTTTGTAGATAATTAGTAAAGGTGATTCCAGATAACAACGCCTTCAATAATTTTCTTAAAAA
AAATTTTTCGAATTATTAAAGGCGTCTTTTATTATGAAACACCTTCAACATACCACAATGGTTAT
GGAAGGCATTTATTCGAAAAGGTACATTCAATATACCTTTAAACTTAGTAATCCATTACTAAAGA
CGTTTATTAATAACAGACGCCTTAAAAATTTTCTCACTAAAAATTTTGAGAATCAGTAAAGGCAT
ATTCTAGCGTAAAATATATTTTATATACCGT
Found at i:10343451 original size:109 final size:109
Alignment explanation
Indices: 10343330--10343546 Score: 434
Period size: 109 Copynumber: 2.0 Consensus size: 109
10343320 CAAAGATTAG
10343330 AAAACAAAAAAATTTTGAAAAAATCTTTGATCCACCACCGAGTTTTATCCACATATTTCTGCTAT
1 AAAACAAAAAAATTTTGAAAAAATCTTTGATCCACCACCGAGTTTTATCCACATATTTCTGCTAT
10343395 TGGCTTCTTACAGCCTTTCTGATATTTGTGCTTCTCCATTAATT
66 TGGCTTCTTACAGCCTTTCTGATATTTGTGCTTCTCCATTAATT
10343439 AAAACAAAAAAATTTTGAAAAAATCTTTGATCCACCACCGAGTTTTATCCACATATTTCTGCTAT
1 AAAACAAAAAAATTTTGAAAAAATCTTTGATCCACCACCGAGTTTTATCCACATATTTCTGCTAT
10343504 TGGCTTCTTACAGCCTTTCTGATATTTGTGCTTCTCCATTAAT
66 TGGCTTCTTACAGCCTTTCTGATATTTGTGCTTCTCCATTAAT
10343547 GAAATTGGAA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.30, C:0.21, G:0.10, T:0.38
Consensus pattern (109 bp):
AAAACAAAAAAATTTTGAAAAAATCTTTGATCCACCACCGAGTTTTATCCACATATTTCTGCTAT
TGGCTTCTTACAGCCTTTCTGATATTTGTGCTTCTCCATTAATT
Found at i:10344651 original size:19 final size:19
Alignment explanation
Indices: 10344627--10344663 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10344617 AAGTTTTAAA
10344627 TTATATCATTTTTATATTT
1 TTATATCATTTTTATATTT
*
10344646 TTATATTATTTTTATATT
1 TTATATCATTTTTATATT
10344664 ACATTATCAT
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:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (19 bp):
TTATATCATTTTTATATTT
Found at i:10345185 original size:19 final size:16
Alignment explanation
Indices: 10345135--10345179 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
10345125 TTTTTTAAAT
*
10345135 ATAAATATAACATTAA
1 ATAAATATAAAATTAA
10345151 ATAAATATAAAATTAA
1 ATAAATATAAAATTAA
10345167 ATAAATAATAAAA
1 ATAAAT-ATAAAA
10345180 AATTAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
16 21 0.78
17 6 0.22
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAATATAAAATTAA
Found at i:10347605 original size:2 final size:2
Alignment explanation
Indices: 10347600--10347637 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10347590 CCCTAAACCC
10347600 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10347638 GATTTGATCA
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10356077 original size:44 final size:44
Alignment explanation
Indices: 10356014--10356097 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
10356004 AGGAAAAAGA
*
10356014 AAAGAAAAAGATGATTATGTCAAAGGTAAGAAAGTAGATACTAT
1 AAAGAAAAAGATGATTATGTCAAAGGGAAGAAAGTAGATACTAT
* *
10356058 AAAGAAAAATATGATTATGTTAAAGGGAAGAAAGTAGATA
1 AAAGAAAAAGATGATTATGTCAAAGGGAAGAAAGTAGATA
10356098 ATATCTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.54, C:0.02, G:0.21, T:0.23
Consensus pattern (44 bp):
AAAGAAAAAGATGATTATGTCAAAGGGAAGAAAGTAGATACTAT
Found at i:10356225 original size:14 final size:14
Alignment explanation
Indices: 10356208--10356235 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10356198 TTACACTTAT
10356208 TTAATTATTCATGA
1 TTAATTATTCATGA
10356222 TTAATTATTCATGA
1 TTAATTATTCATGA
10356236 ATTTAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TTAATTATTCATGA
Found at i:10356424 original size:16 final size:16
Alignment explanation
Indices: 10356383--10356425 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
10356373 CTTAAATTGA
** *
10356383 ATAAATTTAACTATTT
1 ATAAATTTATGTATTC
10356399 ATAAATTTATGTATTC
1 ATAAATTTATGTATTC
10356415 ATAAATTTATG
1 ATAAATTTATG
10356426 GTATCCATGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (16 bp):
ATAAATTTATGTATTC
Found at i:10360329 original size:20 final size:21
Alignment explanation
Indices: 10360287--10360338 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
10360277 TTCATTTCAA
*
10360287 ATGTGTAGAAATGAATGGAAG
1 ATGTGTAGAAATGAAGGGAAG
* *
10360308 ATGTGTA-AAATGCAGGGGAG
1 ATGTGTAGAAATGAAGGGAAG
10360328 ATGTGTAGAAA
1 ATGTGTAGAAA
10360339 ATCACTCGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.40, C:0.02, G:0.35, T:0.23
Consensus pattern (21 bp):
ATGTGTAGAAATGAAGGGAAG
Found at i:10363682 original size:75 final size:75
Alignment explanation
Indices: 10363559--10363781 Score: 360
Period size: 75 Copynumber: 3.0 Consensus size: 75
10363549 TCTATAGTGA
* * *
10363559 CAGAGTGTTGAGTTTCCTGACCAGTTG--GAGCAACATTCACCTTAAGAGGATGGGCATAAGCAT
1 CAGAGTGTTGAGTTTCATTACCA--TGAAGACCAACATTCACCTTAAGAGGATGGGCATAAGCAT
10363622 TATCTGGAACTG
64 TATCTGGAACTG
10363634 CAGAGTGTTGAGTTTCATTACCATGAAGACCAACATTCACCTTAAGAGGATGGGCATAAGCATTA
1 CAGAGTGTTGAGTTTCATTACCATGAAGACCAACATTCACCTTAAGAGGATGGGCATAAGCATTA
10363699 TCTGGAACTG
66 TCTGGAACTG
* * *
10363709 CAGAGTGTTGAGTTTCATTAACATGAAGACCAACATTCACCTTGAGAGGATGGGCATAAGCATTG
1 CAGAGTGTTGAGTTTCATTACCATGAAGACCAACATTCACCTTAAGAGGATGGGCATAAGCATTA
10363774 TCTGGAAC
66 TCTGGAAC
10363782 AGCAATCCCA
Statistics
Matches: 140, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
73 2 0.01
75 138 0.99
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (75 bp):
CAGAGTGTTGAGTTTCATTACCATGAAGACCAACATTCACCTTAAGAGGATGGGCATAAGCATTA
TCTGGAACTG
Found at i:10366450 original size:14 final size:14
Alignment explanation
Indices: 10366431--10366457 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10366421 ACACTTTAAA
10366431 AAATATTTATATTT
1 AAATATTTATATTT
10366445 AAATATTTATATT
1 AAATATTTATATT
10366458 ATTATACAAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
AAATATTTATATTT
Found at i:10368586 original size:105 final size:105
Alignment explanation
Indices: 10368392--10368686 Score: 513
Period size: 105 Copynumber: 2.8 Consensus size: 105
10368382 ATTTCAAAAC
* *
10368392 TTTTTAATTAGATAA-TTTTTGAAGACTATTGCATAAATCAATTAGCATAA-TTTTATATTATAT
1 TTTTTAATTAGATAATTTTTTAAAGATTATTGCATAAATCAATTAGCATAATTTTTATATTATAT
10368455 TATAATTTGAAGAAATTATCAAATATATTGATAGTAGAGT
66 TATAATTTGAAGAAATTATCAAATATATTGATAGTAGAGT
*
10368495 TTTTTAATTAGATAATTTTTTAAAGATTATTGCATAAATCAATTAGCATAATTTTTATATTTTAT
1 TTTTTAATTAGATAATTTTTTAAAGATTATTGCATAAATCAATTAGCATAATTTTTATATTATAT
* *
10368560 TATAATTTGAAGTAATTGTCAAATATATTGATAGTAGAGT
66 TATAATTTGAAGAAATTATCAAATATATTGATAGTAGAGT
*
10368600 TTTTTAATTAGATAATTTTTTAAAGATTATTGCATAAATCAATTAGCATAATTTTTATATTACAT
1 TTTTTAATTAGATAATTTTTTAAAGATTATTGCATAAATCAATTAGCATAATTTTTATATTATAT
*
10368665 TATCATTTGAAGAAATTATCAA
66 TATAATTTGAAGAAATTATCAA
10368687 GTGTATTAGT
Statistics
Matches: 180, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
103 15 0.08
104 33 0.18
105 132 0.73
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (105 bp):
TTTTTAATTAGATAATTTTTTAAAGATTATTGCATAAATCAATTAGCATAATTTTTATATTATAT
TATAATTTGAAGAAATTATCAAATATATTGATAGTAGAGT
Found at i:10369135 original size:20 final size:20
Alignment explanation
Indices: 10369112--10369152 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
10369102 TAAAAATGAT
10369112 ATATTA-AAATTAAAATTAAA
1 ATATTATAAA-TAAAATTAAA
*
10369132 ATATTATAAATAAATTTAAA
1 ATATTATAAATAAAATTAAA
10369152 A
1 A
10369153 AATCATACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
ATATTATAAATAAAATTAAA
Found at i:10369454 original size:14 final size:14
Alignment explanation
Indices: 10369429--10369474 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
10369419 TGTAAATTTT
10369429 TTAA-AAATATATA
1 TTAATAAATATATA
*
10369442 TTAATATATATAT-
1 TTAATAAATATATA
*
10369455 TTAAATAAAAATATA
1 TT-AATAAATATATA
10369470 TTAAT
1 TTAAT
10369475 TTTAATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 6 0.22
14 19 0.70
15 2 0.07
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAATAAATATATA
Found at i:10371529 original size:21 final size:21
Alignment explanation
Indices: 10371487--10371529 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10371477 CCATTTCGTA
* *
10371487 TATATATCTTATATATATTTT
1 TATATATCTTATAAATAATTT
10371508 TATATAT-TTAATAAATAATTT
1 TATATATCTT-ATAAATAATTT
10371529 T
1 T
10371530 TTAGTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATATCTTATAAATAATTT
Found at i:10371627 original size:23 final size:24
Alignment explanation
Indices: 10371580--10371627 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10371570 TTAATATATT
* * *
10371580 TTTATTAAAAAATATATTTATATA
1 TTTATAAAAAAATATATCTAAATA
10371604 TTTATAAAAAAAT-TATCTAAATA
1 TTTATAAAAAAATATATCTAAATA
10371627 T
1 T
10371628 ACAAAATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTATAAAAAAATATATCTAAATA
Found at i:10375366 original size:10 final size:10
Alignment explanation
Indices: 10375351--10375376 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
10375341 ATTTCTTAGC
10375351 TTATTTGACT
1 TTATTTGACT
10375361 TTATTTGACT
1 TTATTTGACT
10375371 TTATTT
1 TTATTT
10375377 CAACCTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (10 bp):
TTATTTGACT
Found at i:10375453 original size:2 final size:2
Alignment explanation
Indices: 10375446--10375487 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
10375436 ACCTTTTGTA
* * *
10375446 AT AT AT AT AT AT AT AT GT GT GT 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
10375488 TTACAAGCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10380597 original size:10 final size:10
Alignment explanation
Indices: 10380582--10380618 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
10380572 AAATTGGCAA
10380582 TTAGTTAAAG
1 TTAGTTAAAG
* *
10380592 TTAGTTACAT
1 TTAGTTAAAG
10380602 TTAGTTAAAG
1 TTAGTTAAAG
10380612 TTAGTTA
1 TTAGTTA
10380619 TTTTGGTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (10 bp):
TTAGTTAAAG
Found at i:10385526 original size:13 final size:13
Alignment explanation
Indices: 10385508--10385555 Score: 62
Period size: 13 Copynumber: 3.5 Consensus size: 13
10385498 ATGTTACGTG
10385508 TGATTTTCTAAAA
1 TGATTTTCTAAAA
10385521 TGA-TTTCTAAAAAAA
1 TGATTTTCT---AAAA
10385536 TGATTTTCTAAAA
1 TGATTTTCTAAAA
10385549 TGATTTT
1 TGATTTT
10385556 TCTTGGTATG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.16
13 14 0.45
15 7 0.23
16 5 0.16
ACGTcount: A:0.40, C:0.06, G:0.08, T:0.46
Consensus pattern (13 bp):
TGATTTTCTAAAA
Found at i:10385529 original size:12 final size:12
Alignment explanation
Indices: 10385512--10385554 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 12
10385502 TACGTGTGAT
10385512 TTTCTAAAATGA
1 TTTCTAAAATGA
10385524 TTTCTAAAAAAATGA
1 TTTCT---AAAATGA
10385539 TTTTCTAAAATGA
1 -TTTCTAAAATGA
10385552 TTT
1 TTT
10385555 TTCTTGGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
15 7 0.26
16 5 0.19
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (12 bp):
TTTCTAAAATGA
Found at i:10385537 original size:15 final size:16
Alignment explanation
Indices: 10385517--10385548 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10385507 GTGATTTTCT
10385517 AAAATGA-TTTCTAAA
1 AAAATGATTTTCTAAA
10385532 AAAATGATTTTCTAAA
1 AAAATGATTTTCTAAA
10385548 A
1 A
10385549 TGATTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.34
Consensus pattern (16 bp):
AAAATGATTTTCTAAA
Found at i:10386964 original size:3 final size:3
Alignment explanation
Indices: 10386956--10386994 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10386946 GTTTGTTCTA
10386956 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10386995 TTTAAAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10387221 original size:59 final size:58
Alignment explanation
Indices: 10387157--10387350 Score: 239
Period size: 59 Copynumber: 3.3 Consensus size: 58
10387147 AGTGTTGAAG
* * *
10387157 GTATCAATTTTTCTTAAAAATAAAAATTTTAAAATTGTTTTTTAAGAAAAAATTCAAAA
1 GTATCAATTTTTCTTGAAAATAAAAATTTTAAAAATATTTTTTAAGAAAAAATT-AAAA
* * * *
10387216 GTATCAATTTTTCTTGAAGAT-AAAATTTTCAAAAGATATTTTTTGAGAAAAATTTGAAA
1 GTATCAATTTTTCTTGAAAATAAAAATTTT-AAAA-ATATTTTTTAAGAAAAAATTAAAA
* * *
10387275 GTATCAATTTTTCTTGAAAATAAAAATTTCAAAAAATATTTTTGAA-AAAAAGTTAAAA
1 GTATCAATTTTTCTTGAAAATAAAAATTT-TAAAAATATTTTTTAAGAAAAAATTAAAA
*
10387333 GTATCAATTTTTCATGAA
1 GTATCAATTTTTCTTGAA
10387351 TAAAGGCATT
Statistics
Matches: 117, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
58 35 0.30
59 55 0.47
60 27 0.23
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (58 bp):
GTATCAATTTTTCTTGAAAATAAAAATTTTAAAAATATTTTTTAAGAAAAAATTAAAA
Found at i:10387227 original size:118 final size:115
Alignment explanation
Indices: 10387103--10387344 Score: 256
Period size: 118 Copynumber: 2.1 Consensus size: 115
10387093 TTAGAAAATA
* * * * *
10387103 AATTTTTT-AAAATATATATATTTCATAAGAAACGTTTTTAAG-GAAGTGTTGAAGGTATCAATT
1 AATTTTTTGAAAATA-AAAT-TTTCAAAAGAAA-GTTTTTAAGAAAAAT-TTGAAAGTATCAATT
* * * *
10387166 TTTCTTAAAAATAAAAATTT-TAAAATTGTTTTTTAAGAAAAAATTCAAAAGTATC
62 TTTCTTAAAAATAAAAATTTCAAAAAATATTTTTGAA-AAAAAATT-AAAAGTATC
* * * *
10387221 AATTTTTCTTGAAGATAAAATTTTCAAAAGATATTTTTTGAGAAAAATTTGAAAGTATCAATTTT
1 AA-TTTT-TTGAAAATAAAATTTTCAAAAGAAAGTTTTTAAGAAAAATTTGAAAGTATCAATTTT
* *
10387286 TCTTGAAAATAAAAATTTCAAAAAATATTTTTGAAAAAAAGTTAAAAGTATC
64 TCTTAAAAATAAAAATTTCAAAAAATATTTTTGAAAAAAAATTAAAAGTATC
10387338 AATTTTT
1 AATTTTT
10387345 CATGAATAAA
Statistics
Matches: 104, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
115 1 0.01
116 4 0.04
117 11 0.11
118 49 0.47
119 29 0.28
120 5 0.05
121 5 0.05
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (115 bp):
AATTTTTTGAAAATAAAATTTTCAAAAGAAAGTTTTTAAGAAAAATTTGAAAGTATCAATTTTTC
TTAAAAATAAAAATTTCAAAAAATATTTTTGAAAAAAAATTAAAAGTATC
Found at i:10387248 original size:34 final size:33
Alignment explanation
Indices: 10387200--10387308 Score: 110
Period size: 33 Copynumber: 3.5 Consensus size: 33
10387190 ATTGTTTTTT
*
10387200 AAGA-AAAAATTCAAAAGTATCAATTTTTCTTG
1 AAGATAAAATTTCAAAAGTATCAATTTTTCTTG
10387232 AAGATAAAATTTTCAAAAG-AT--A-TTTT-TTG
1 AAGATAAAA-TTTCAAAAGTATCAATTTTTCTTG
*
10387261 -AGA-AAAATTT-GAAAGTATCAATTTTTCTTG
1 AAGATAAAATTTCAAAAGTATCAATTTTTCTTG
*
10387291 AAAATAAAAATTTCAAAA
1 AAGAT-AAAATTTCAAAA
10387309 AATATTTTTG
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
25 4 0.06
26 5 0.08
27 4 0.06
28 4 0.06
29 7 0.11
30 7 0.11
31 3 0.05
32 4 0.06
33 13 0.21
34 11 0.18
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (33 bp):
AAGATAAAATTTCAAAAGTATCAATTTTTCTTG
Found at i:10388700 original size:21 final size:22
Alignment explanation
Indices: 10388653--10388694 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
10388643 TATATTAAAA
* *
10388653 AATTTTAATAAAATTATATATG
1 AATTTTAATAAAATTAAAAATG
10388675 AATTTTAA-AAAATTAAAAAT
1 AATTTTAATAAAATTAAAAAT
10388695 ATATTTCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (22 bp):
AATTTTAATAAAATTAAAAATG
Found at i:10389361 original size:14 final size:14
Alignment explanation
Indices: 10389342--10389369 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10389332 AAACACACCC
10389342 AAAATTTCCTCTTT
1 AAAATTTCCTCTTT
10389356 AAAATTTCCTCTTT
1 AAAATTTCCTCTTT
10389370 TTCTCAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (14 bp):
AAAATTTCCTCTTT
Found at i:10394158 original size:106 final size:104
Alignment explanation
Indices: 10393968--10394178 Score: 305
Period size: 106 Copynumber: 2.0 Consensus size: 104
10393958 GTGTTCTCTA
* * *
10393968 CAATTTAACTTTGTATTGTGTGCTGGAATAATGATCTTTCCCTTTTAGGTTATATAATATAATGA
1 CAATTTAACTTTGTATTATGTGCTAGAATAATGATCTTTCCCTTTTAGGTTATATAATATAATAA
* *
10394033 TTAGGTGCTTTGTTTAGAGCTAGTATGTTTTATTTTTAT
66 TTAGCTGCTTTGTTTAGAGCTAGTATGTTTTACTTTTAT
* * *
10394072 CAATTTAACTTTGTATTATGTGCTAGAATAATGATATTTTCCCTTTTTATGTTGTATAATATAAT
1 CAATTTAACTTTGTATTATGTGCTAGAATAATGAT-CTTTCCC-TTTTAGGTTATATAATATAAT
* * *
10394137 AATTAGCTGTTTTGTTTAGAGCTATTGTGTTTTACTTTTAT
64 AATTAGCTGCTTTGTTTAGAGCTAGTATGTTTTACTTTTAT
10394178 C
1 C
10394179 TGGTTTACCA
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
104 33 0.35
105 6 0.06
106 55 0.59
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.50
Consensus pattern (104 bp):
CAATTTAACTTTGTATTATGTGCTAGAATAATGATCTTTCCCTTTTAGGTTATATAATATAATAA
TTAGCTGCTTTGTTTAGAGCTAGTATGTTTTACTTTTAT
Found at i:10398065 original size:19 final size:20
Alignment explanation
Indices: 10398019--10398073 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
10398009 ATTATTGTTT
* *
10398019 TAAATTAATTAAAATTAATA
1 TAAATTTATTAAAATAAATA
**
10398039 TATTTTTATTAAAA-AAATA
1 TAAATTTATTAAAATAAATA
*
10398058 TAAATTTATTAGAATA
1 TAAATTTATTAAAATA
10398074 TACAAAATAC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
TAAATTTATTAAAATAAATA
Found at i:10403559 original size:3 final size:3
Alignment explanation
Indices: 10403553--10403620 Score: 50
Period size: 3 Copynumber: 22.0 Consensus size: 3
10403543 ACTTTTTTTA
* * *
10403553 TAT TAT TAAT TAT TAAT TAT TAT CTAT TAT TAT AAA T-T TAT TAT AAT
1 TAT TAT T-AT TAT T-AT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
*
10403600 ATAT TAT TTT TA- TAT TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT
10403621 ATTTATTACT
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
2 3 0.06
3 37 0.73
4 11 0.22
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:10403620 original size:14 final size:14
Alignment explanation
Indices: 10403547--10403626 Score: 56
Period size: 14 Copynumber: 5.5 Consensus size: 14
10403537 TAATATACTT
10403547 TTTTTATATTATTAA
1 TTTTTATATTATT-A
*
10403562 TTATTA-ATTATTA
1 TTTTTATATTATTA
* * *
10403575 TCTAT-TATTATAAA
1 TTTTTATATTAT-TA
10403589 TTTATTATAATATATTA
1 TTT-TTAT-AT-TATTA
10403606 TTTTTATATTATTA
1 TTTTTATATTATTA
*
10403620 TATTTAT
1 TTTTTAT
10403627 TACTTGAGGC
Statistics
Matches: 50, Mismatches: 9, Indels: 13
0.69 0.12 0.18
Matches are distributed among these distances:
13 8 0.16
14 20 0.40
15 8 0.16
16 5 0.10
17 6 0.12
18 3 0.06
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTTTATATTATTA
Found at i:10404925 original size:19 final size:18
Alignment explanation
Indices: 10404896--10404970 Score: 64
Period size: 19 Copynumber: 4.1 Consensus size: 18
10404886 ATAAGTTTTT
10404896 TTAAAATTATAATTATAA
1 TTAAAATTATAATTATAA
*
10404914 TTAAATATTATATTTAT-A
1 TTAAA-ATTATAATTATAA
* * *
10404932 TTTATATAATCAATTATTATA
1 TTAAAATTAT-AATTA-TA-A
10404953 TTAAAATTA-AATTATAA
1 TTAAAATTATAATTATAA
10404970 T
1 T
10404971 CATTAAAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
17 6 0.14
18 15 0.34
19 16 0.36
21 7 0.16
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAAAATTATAATTATAA
Found at i:10404991 original size:22 final size:20
Alignment explanation
Indices: 10404955--10405018 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 20
10404945 TTATTATATT
*
10404955 AAAATTAAATTATAATCATTAA
1 AAAATTAAATAATAA--ATTAA
*
10404977 AAAATTAACTAATAAATTAAA
1 AAAATTAAATAATAAATT-AA
10404998 ATATAATTAAATAATCAAATT
1 A-A-AATTAAATAAT-AAATT
10405019 TATGTGCAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
20 3 0.09
21 3 0.09
22 14 0.40
23 10 0.29
24 5 0.14
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTAAATAATAAATTAA
Found at i:10405835 original size:25 final size:24
Alignment explanation
Indices: 10405800--10405861 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
10405790 TGTCAAAGTT
* *
10405800 ATAAATAAAAATATATTATTTAATA
1 ATAAAAAAAAATAAATT-TTTAATA
*
10405825 A-AAAACAAAAAGAAAATTTTTAATA
1 ATAAAA-AAAAA-TAAATTTTTAATA
10405850 ATAAAAAAAAAT
1 ATAAAAAAAAAT
10405862 CATAGATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
24 3 0.10
25 19 0.63
26 8 0.27
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (24 bp):
ATAAAAAAAAATAAATTTTTAATA
Found at i:10408920 original size:20 final size:19
Alignment explanation
Indices: 10408875--10408922 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
10408865 GATGAGATTG
* *
10408875 AATTTAAATATTTTATTAT
1 AATTTAAAAATTATATTAT
*
10408894 ATTTTTAAAAATTATATTAAT
1 A-ATTTAAAAATTATATT-AT
10408915 AATTTAAA
1 AATTTAAA
10408923 TGATATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATTTAAAAATTATATTAT
Found at i:10409113 original size:2 final size:2
Alignment explanation
Indices: 10409106--10409139 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10409096 GATGTTACTC
10409106 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
10409140 CTCTTTCTCA
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:10410518 original size:18 final size:17
Alignment explanation
Indices: 10410484--10410517 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10410474 TATTTTTAAA
*
10410484 ATTAATAAAATTATTTT
1 ATTAATAAAAATATTTT
10410501 ATTAATAAAAATATTTT
1 ATTAATAAAAATATTTT
10410518 TTTTTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAATAAAAATATTTT
Found at i:10410546 original size:12 final size:11
Alignment explanation
Indices: 10410529--10410565 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
10410519 TTTTTAATTC
10410529 TAAAATATATTT
1 TAAAATAT-TTT
10410541 TAAAATATTTT
1 TAAAATATTTT
*
10410552 AAAAATATTTT
1 TAAAATATTTT
10410563 TAA
1 TAA
10410566 TATAATCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAAAATATTTT
Found at i:10410998 original size:6 final size:6
Alignment explanation
Indices: 10410987--10411016 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
10410977 ATTATTCCTG
*
10410987 CTCGAA CTCGAA CTCGAA CTCGGA CTCGAA
1 CTCGAA CTCGAA CTCGAA CTCGAA CTCGAA
10411017 ATATTTTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.30, C:0.33, G:0.20, T:0.17
Consensus pattern (6 bp):
CTCGAA
Found at i:10415913 original size:20 final size:20
Alignment explanation
Indices: 10415872--10415913 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
10415862 TGAGCTTGTC
* **
10415872 AAAAAAAAATTAGAAGCTAA
1 AAAAAAAAATAAGAAGAGAA
10415892 AAAAAAAAATAAGAAGAGAA
1 AAAAAAAAATAAGAAGAGAA
10415912 AA
1 AA
10415914 TTTGAGACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.76, C:0.02, G:0.12, T:0.10
Consensus pattern (20 bp):
AAAAAAAAATAAGAAGAGAA
Found at i:10425002 original size:48 final size:48
Alignment explanation
Indices: 10424941--10425477 Score: 489
Period size: 49 Copynumber: 11.0 Consensus size: 48
10424931 GTTTTGAGAA
* * *
10424941 AAGATGAGATTTTAAAGTTGTTGAGCTTTTACTGAGAGGAGCCTTTTTC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTC
* *
10424990 AAGATGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTCC
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTC
* * * *
10425037 AA-AAGAGATTTTAAAGTTATTGAGCCTCTG-TGAGAGGATCCCTTTTCC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGA-GCCTTTTTC
* * * *
10425085 AAAGA-AAATTTTAAAGTTGTTGAGTCTTTGCTGAGAGGAGCCCTTTTCC
1 -AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTTC
* * *
10425134 AA-ATGAGAGTTTAAAGTTGTTTAGCCTCTGCTGAGATGAGCCCTTTTT-
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTTC
* *
10425182 AATATGAATTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCCATTTTT-
1 AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCC-TTTTTC
* ** *
10425230 AAGATGAGATTTTAAAGTCGTTGAGCCTCTGCTGAGAGGA-TATTTTCC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTC
*
10425278 AA-ATGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCATTTTC
1 AAGATGA-A-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTC
* * * * * *
10425327 AAGATGAGATTTTAAAATTATTGAGTCTCTACTGAGATGAGCTTTTTTC
1 AAGATGA-ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTC
* * * * * ** *
10425376 AAGATGAGAATTTTTAAAAATTGTTAAGCCTTTACTGGGAGGAGTTTTTTTTT
1 AAGAT--GAA-TTTT-AAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCTTTTTC
* *
10425429 AAGATGAAAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAGTCTTTTT
1 AAGATG--AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTT
10425478 TAGATTTTAA
Statistics
Matches: 407, Mismatches: 58, Indels: 45
0.80 0.11 0.09
Matches are distributed among these distances:
46 11 0.03
47 42 0.10
48 133 0.33
49 139 0.34
50 14 0.03
51 29 0.07
52 26 0.06
53 13 0.03
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (48 bp):
AAGATGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTC
Found at i:10425135 original size:49 final size:49
Alignment explanation
Indices: 10424949--10425470 Score: 367
Period size: 48 Copynumber: 10.7 Consensus size: 49
10424939 AAAAGATGAG
* * * * *
10424949 ATTTTAAAGTTGTTGAGCTTTTACTGAGAGGAG-CCTTTTTC-AAGATGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAAGA-AA
* *
10424997 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG--CTTTTCCAAA-AGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAAGA-AA
* *
10425044 ATTTTAAAGTTATTGAGCCTCTG-TGAGAGGATCCCTTTTCCAAAGAAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAAGAAA
* * *
10425092 ATTTTAAAGTTGTTGAGTCTTTGCTGAGAGGAGCCCTTTTCCAAATG-AG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAA-GAAA
* * * *
10425141 AGTTTAAAGTTGTTTAGCCTCTGCTGAGATGAGCCCTTTT-TAATATG--A
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAA-A-GAAA
* * * *
10425189 ATTTTAAAGTTGTTGAGCTTCTGCTGAGAGGAGCCATTTT--TAAGATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAAGA--AA
* ** *
10425238 ATTTTAAAGTCGTTGAGCCTCTGCTGAGAGGA--TATTTTCCAAATGAGA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAA-GAAA
* * *
10425286 TTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCATTTT-C-AAGATGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAAGA--AA
* * * * * * *
10425335 ATTTTAAAATTATTGAGTCTCTACTGAGATGAG-CTTTTTTCAAGATGAGAA
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAA-A-GA-AA
* * * * * * *** **
10425386 TTTTTAAAAATTGTTAAGCCTTTACTGGGAGGAGTTTTTTTTTAAGATGAAA
1 ATTTT-AAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAA-A-GAAA
*
10425438 ATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAG
1 ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG
10425471 TCTTTTTTAG
Statistics
Matches: 384, Mismatches: 66, Indels: 45
0.78 0.13 0.09
Matches are distributed among these distances:
45 1 0.00
46 9 0.02
47 36 0.09
48 136 0.35
49 121 0.32
50 9 0.02
51 29 0.08
52 30 0.08
53 13 0.03
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (49 bp):
ATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAAGAAA
Found at i:10425192 original size:97 final size:97
Alignment explanation
Indices: 10424941--10425470 Score: 506
Period size: 97 Copynumber: 5.4 Consensus size: 97
10424931 GTTTTGAGAA
* * * * *
10424941 AAGATGAGATTTTAAAGTTGTTGAGCTTTTACTGAGAGGAG-CCTTTTTCAAGATGATTTTTAAA
1 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAA-ATGAATTTTAAA
10425005 GTTGTTGAGCCTCTGCTGAGAGGAG-C-TTTTCC
65 GTTGTTGAGCCTCTGCTGAGAGGAGCCATTTT-C
* * *
10425037 AA-AAGAGATTTTAAAGTTATTGAGCCTCTG-TGAGAGGATCCCTTTTCCAAA-GAAAATTTTAA
1 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAATG--AATTTTAA
* * *
10425099 AGTTGTTGAGTCTTTGCTGAGAGGAGCCCTTTTCC
64 AGTTGTTGAGCCTCTGCTGAGAGGAGCCATTTT-C
* * * *
10425134 AA-ATGAGAGTTTAAAGTTGTTTAGCCTCTGCTGAGATGAGCCCTTTT-TAATATGAATTTTAAA
1 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAA-ATGAATTTTAAA
* *
10425197 GTTGTTGAGCTTCTGCTGAGAGGAGCCATTTTT
65 GTTGTTGAGCCTCTGCTGAGAGGAGCCATTTTC
* **
10425230 AAGATGAGATTTTAAAGTCGTTGAGCCTCTGCTGAGAGGA--TATTTTCCAAATGAGATTTTTAA
1 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAATGA-A-TTTTAA
10425293 AGTTGTTGAGCCTCTGCTGAGAGGAGCCATTTTC
64 AGTTGTTGAGCCTCTGCTGAGAGGAGCCATTTTC
* * * * * * *
10425327 AAGATGAGATTTTAAAATTATTGAGTCTCTACTGAGATGAG-CTTTTTTCAAGATGAGAATTTTT
1 AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAA-AT--GAA-TTTT
* * * * * *** *
10425391 AAAAATTGTTAAGCCTTTACTGGGAGGAGTTTTTTTTT
62 -AAAGTTGTTGAGCCTCTGCTGAGAGGAG-CCATTTTC
* *
10425429 AAGATGAAAATTTTAAAGTTATTGAGCCTCTGCTGAGAGGAG
1 AAGATG-AGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG
10425471 TCTTTTTTAG
Statistics
Matches: 361, Mismatches: 54, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
93 1 0.00
94 9 0.02
95 71 0.20
96 8 0.02
97 176 0.49
98 22 0.06
99 3 0.01
100 6 0.02
101 25 0.07
102 10 0.03
103 30 0.08
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (97 bp):
AAGATGAGATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCCTTTTCCAAATGAATTTTAAAG
TTGTTGAGCCTCTGCTGAGAGGAGCCATTTTC
Done.