Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 69 of 216
Found at i:20660233 original size:25 final size:27
Alignment explanation
Indices: 20660205--20660263 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
20660195 TTCTAACCCT
*
20660205 AATTTTAACC-TAG-TAAAATTTTGAC
1 AATTTTAACCGCAGATAAAATTTTGAC
* *
20660230 AATTTTACCCGCCGATAAAATTTTGAC
1 AATTTTAACCGCAGATAAAATTTTGAC
*
20660257 GATTTTA
1 AATTTTA
20660264 CCCCTGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 9 0.32
26 1 0.04
27 18 0.64
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (27 bp):
AATTTTAACCGCAGATAAAATTTTGAC
Found at i:20663674 original size:25 final size:25
Alignment explanation
Indices: 20663640--20663691 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
20663630 GGAGTGCCCG
20663640 ATAAGGTTAACTTAGATAGAATCCC
1 ATAAGGTTAACTTAGATAGAATCCC
20663665 ATAAGGTTAACTTAGATAGAATCCC
1 ATAAGGTTAACTTAGATAGAATCCC
20663690 AT
1 AT
20663692 TCTCTATGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (25 bp):
ATAAGGTTAACTTAGATAGAATCCC
Found at i:20670621 original size:4 final size:4
Alignment explanation
Indices: 20670612--20670697 Score: 52
Period size: 4 Copynumber: 21.8 Consensus size: 4
20670602 TTTTCACTTG
* ** * * *
20670612 TTTA TTTA TTCA -TTA TTCC TTTTA TTTTA TTCA TTTA TTCA TTCA TTTA
1 TTTA TTTA TTTA TTTA TTTA TT-TA TT-TA TTTA TTTA TTTA TTTA TTTA
* * *
20670661 CTTG TTTA TATA -TTA TTTA TTTA TTTA TTTA -TTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
20670698 TAATTCTTCT
Statistics
Matches: 62, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
3 7 0.11
4 48 0.77
5 7 0.11
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.67
Consensus pattern (4 bp):
TTTA
Found at i:20670642 original size:21 final size:21
Alignment explanation
Indices: 20670612--20670651 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
20670602 TTTTCACTTG
20670612 TTTATTTATTCA-TTATTCCT
1 TTTATTTATTCATTTATTCCT
20670632 TTTATTTTATTCATTTATTC
1 TTTA-TTTATTCATTTATTC
20670652 ATTCATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTATTTATTCATTTATTCCT
Found at i:20670659 original size:21 final size:21
Alignment explanation
Indices: 20670616--20670659 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20670606 CACTTGTTTA
* *
20670616 TTTATTCATTATTCCTTTTAT
1 TTTATTCATTATTCCATTCAT
20670637 TTTATTCATTTATT-CATTCAT
1 TTTATTCA-TTATTCCATTCAT
20670658 TT
1 TT
20670660 ACTTGTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTATTCATTATTCCATTCAT
Found at i:20674013 original size:23 final size:22
Alignment explanation
Indices: 20673982--20674037 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
20673972 ATTTTCTATT
* *
20673982 AAAAAA-AAAGAAACGAAAAGA
1 AAAAAAGAAAAAAAAGAAAAGA
* *
20674003 AAAAAAGAAAAAAAATAAAATA
1 AAAAAAGAAAAAAAAGAAAAGA
20674025 AAAAGAAGAAAAA
1 AAAA-AAGAAAAA
20674038 GAAGGCCAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 6 0.21
22 15 0.52
23 8 0.28
ACGTcount: A:0.84, C:0.02, G:0.11, T:0.04
Consensus pattern (22 bp):
AAAAAAGAAAAAAAAGAAAAGA
Found at i:20674015 original size:28 final size:29
Alignment explanation
Indices: 20673982--20674040 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
20673972 ATTTTCTATT
*
20673982 AAAAAAAA-AGAAACGAAAAGAA-AAAAAG
1 AAAAAAAATA-AAACAAAAAGAAGAAAAAG
*
20674010 AAAAAAAATAAAATAAAAAGAAGAAAAAG
1 AAAAAAAATAAAACAAAAAGAAGAAAAAG
20674039 AA
1 AA
20674041 GGCCAAGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.03
Consensus pattern (29 bp):
AAAAAAAATAAAACAAAAAGAAGAAAAAG
Found at i:20675274 original size:137 final size:136
Alignment explanation
Indices: 20674822--20675317 Score: 394
Period size: 137 Copynumber: 3.6 Consensus size: 136
20674812 GATGGATTGA
* * * * * *
20674822 AGATCATAGCAATCCTTATCTCCATGAAGCTGTAGTGGAGCAGACTAAAGATAGCGAATGTTATT
1 AGATCATAGCAAACCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAAAGATAGCGAATCTTATC
* * * * *
20674887 TCCCTGAAGTTGCAGTGGAACAGATTAAAGCTATAAATTACAGATCTTATCTTTCTGAAGTTGCA
66 TCCCTAAAGTTGCAGTGGAA-GGATTGAAGCTACAAATTACAGATCTTATCTCTCTGAAGTTGCA
* **
20674952 GTACAAC
130 GTAGAGT
* * * ** * * * * *
20674959 AAATCATATCAAAACTTATCTCTTTGAAGTTGA-AGTGGAACA-AGTTAAAAATAAACCAATCTT
1 AGATCATAGCAAACCTTATCTCCCTGAAGTT-ATAGTGGAGCAGA-CTAAAGAT-AGCGAATCTT
** *** * *
20675022 ATCTCCCTAAAGTTATAGTGGAGCAGG-TTGAAG--ACAGGCTACAAATCTTATCTC-CTTGAAT
63 ATCTCCCTAAAGTTGCAGTGGA--AGGATTGAAGCTACAAATTACAGATCTTATCTCTC-TGAAG
* *
20675083 TTGAAGTGGAGT
125 TTGCAGTAGAGT
* * * * *
20675095 AGATTAAAGCCACAAACCTTATCCCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTT
1 AGATCATAG---CAAACCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAAAGATAGCGAATCTT
* * * *
20675160 ATTTCCTTAAAGTTGCAGTGGAATGGATTGAAGCTACAAATTGCAGATCTTATCTCTCTGAAGAT
63 ATCTCCCTAAAGTTGCAGTGGAA-GGATTGAAGCTACAAATTACAGATCTTATCTCTCTGAAGTT
20675225 GCAGTAGAGT
127 GCAGTAGAGT
* ** * * *
20675235 AGATCATAGCAAACCTTAGCTCCCTGAAGTTATAGTGGAGCAGGTTGAAGTTA-CGAGTCTTATC
1 AGATCATAGCAAACCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAAAGATAGCGAATCTTATC
* *
20675299 TCCCTGAAGTTGCAATGGA
66 TCCCTAAAGTTGCAGTGGA
20675318 GCAGACTGAA
Statistics
Matches: 270, Mismatches: 73, Indels: 33
0.72 0.19 0.09
Matches are distributed among these distances:
135 1 0.00
136 58 0.21
137 78 0.29
138 62 0.23
139 32 0.12
140 38 0.14
141 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (136 bp):
AGATCATAGCAAACCTTATCTCCCTGAAGTTATAGTGGAGCAGACTAAAGATAGCGAATCTTATC
TCCCTAAAGTTGCAGTGGAAGGATTGAAGCTACAAATTACAGATCTTATCTCTCTGAAGTTGCAG
TAGAGT
Found at i:20675354 original size:45 final size:44
Alignment explanation
Indices: 20675249--20675624 Score: 125
Period size: 44 Copynumber: 8.3 Consensus size: 44
20675239 CATAGCAAAC
* ** * ** * *
20675249 CTTAGCTCCCTGAAGTTATAGTGGAGCAGGTTGAAGTTACGAGT
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATACGAAT
20675293 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAAT
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATA-CGAAT
* * * * * *
20675338 CTTATTTCCTTGAAGTTGCAGTGGAACGGATTGAAGCTATAAATTACTG-AT
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAG------A-TAC-GAAT
* * * * *
20675389 CTTATCTCTCTGAAGTTGCAATAGAGCAGA-T---CATAGCAAAC
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATA-CGAAT
* * * * ** * * *
20675430 CTTATCTCCCTAAAGTTGTAGTGGAACAGGTTAAAAATAAACTAAT
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGAT--ACGAAT
* * * * * * * *
20675476 CTTATCTCCTTAAAGTTACAGTAGAGCAGATTGATGATAGGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGA---CTGA-A-GATACGAAT
* * ** * *
20675525 CTTATCTCCCTGAAGTTGCAGTGGAGCAGAGT-AAGCGACCAAC
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATACGAAT
* * * ** *
20675568 CTTATCTCCTTGAAGTTGTAGTGGAGCAGGTTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATACGAAT
20675612 CTTATCTCCCTGA
1 CTTATCTCCCTGA
20675625 GCGGAGCAGA
Statistics
Matches: 247, Mismatches: 62, Indels: 46
0.70 0.17 0.13
Matches are distributed among these distances:
40 2 0.01
41 26 0.11
42 1 0.00
43 33 0.13
44 53 0.21
45 37 0.15
46 28 0.11
47 1 0.00
49 33 0.13
50 2 0.01
51 28 0.11
52 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATACGAAT
Found at i:20675392 original size:181 final size:181
Alignment explanation
Indices: 20675112--20675461 Score: 565
Period size: 181 Copynumber: 1.9 Consensus size: 181
20675102 AGCCACAAAC
* *
20675112 CTTATCCCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCTTAAAGTTGCA
1 CTTATCCCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAATCTTATTTCCTTAAAGTTGCA
* * * *
20675177 GTGGAATGGATTGAAGCTACAAATTGCAGATCTTATCTCTCTGAAGATGCAGTAGAGTAGATCAT
66 GTGGAACGGATTGAAGCTACAAATTACAGATCTTATCTCTCTGAAGATGCAATAGAGCAGATCAT
* *
20675242 AGCAAACCTTAGCTCCCTGAAGTTATAGTGGAGCAGGTTGAAGTTACGAGT
131 AGCAAACCTTAGCTCCCTAAAGTTATAGTGGAACAGGTTGAAGTTACGAGT
* *
20675293 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAATCTTATTTCCTTGAAGTTGCA
1 CTTATCCCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAATCTTATTTCCTTAAAGTTGCA
* * *
20675358 GTGGAACGGATTGAAGCTATAAATTACTGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCAT
66 GTGGAACGGATTGAAGCTACAAATTACAGATCTTATCTCTCTGAAGATGCAATAGAGCAGATCAT
* *
20675423 AGCAAACCTTATCTCCCTAAAGTTGTAGTGGAACAGGTT
131 AGCAAACCTTAGCTCCCTAAAGTTATAGTGGAACAGGTT
20675462 AAAAATAAAC
Statistics
Matches: 154, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
181 154 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (181 bp):
CTTATCCCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAATCTTATTTCCTTAAAGTTGCA
GTGGAACGGATTGAAGCTACAAATTACAGATCTTATCTCTCTGAAGATGCAATAGAGCAGATCAT
AGCAAACCTTAGCTCCCTAAAGTTATAGTGGAACAGGTTGAAGTTACGAGT
Found at i:20675416 original size:96 final size:94
Alignment explanation
Indices: 20675112--20675418 Score: 285
Period size: 96 Copynumber: 3.3 Consensus size: 94
20675102 AGCCACAAAC
* * * * *
20675112 CTTATCCCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCTTAAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAATAGAGCAGACTGAAGATAGCGAATCTTATTTCCTTGAAGTTGCA
* *
20675177 GTGGAATGGATTGAAGCTACAAATTGCAGAT
66 GTGGAACGGATTGAAGCTA-AAATTAC-GAT
* * * * * * * ** * **
20675208 CTTATCTCTCTGAAGATGCAGTAGAGTAGA-T---CATAGCAAACCTTAGCTCCCTGAAGTTATA
1 CTTATCTCCCTGAAGTTGCAATAGAGCAGACTGAAGATAGCGAATCTTATTTCCTTGAAGTTGCA
*
20675269 GTGGAGCAGG-TTGAAG------TTACGAGT
66 GTGGAAC-GGATTGAAGCTAAAATTACGA-T
*
20675293 CTTATCTCCCTGAAGTTGCAATGGAGCAGACTGAAGATAGCGAATCTTATTTCCTTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAATAGAGCAGACTGAAGATAGCGAATCTTATTTCCTTGAAGTTGCA
20675358 GTGGAACGGATTGAAGCTATAAATTACTGAT
66 GTGGAACGGATTGAAGCTA-AAATTAC-GAT
*
20675389 CTTATCTCTCTGAAGTTGCAATAGAGCAGA
1 CTTATCTCCCTGAAGTTGCAATAGAGCAGA
20675419 TCATAGCAAA
Statistics
Matches: 162, Mismatches: 34, Indels: 30
0.72 0.15 0.13
Matches are distributed among these distances:
84 2 0.01
85 29 0.18
86 1 0.01
88 2 0.01
89 34 0.21
92 32 0.20
93 2 0.01
95 1 0.01
96 57 0.35
97 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (94 bp):
CTTATCTCCCTGAAGTTGCAATAGAGCAGACTGAAGATAGCGAATCTTATTTCCTTGAAGTTGCA
GTGGAACGGATTGAAGCTAAAATTACGAT
Found at i:20675640 original size:37 final size:37
Alignment explanation
Indices: 20675590--20675661 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
20675580 AAGTTGTAGT
* * **
20675590 GGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAGC
1 GGAGCAGATTGAAGATACAAATCCAATCTCCCTGAGC
*
20675627 GGAGCAGATTGAAGCTACAAATCCAATCTCCCTGA
1 GGAGCAGATTGAAGATACAAATCCAATCTCCCTGA
20675662 AGTTGTAGTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (37 bp):
GGAGCAGATTGAAGATACAAATCCAATCTCCCTGAGC
Found at i:20677366 original size:12 final size:13
Alignment explanation
Indices: 20677312--20677366 Score: 55
Period size: 12 Copynumber: 4.4 Consensus size: 13
20677302 TCATTGTTCC
20677312 TTTTATTTTATTCA
1 TTTTA-TTTATTCA
*
20677326 TTTTTATATATT-A
1 -TTTTATTTATTCA
20677339 -TTTATTTATTCA
1 TTTTATTTATTCA
20677351 -TTTATTTATT-A
1 TTTTATTTATTCA
20677362 TTTTA
1 TTTTA
20677367 ATCATTCTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
11 10 0.28
12 15 0.42
13 1 0.03
14 5 0.14
15 5 0.14
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTATTTATTCA
Found at i:20692216 original size:24 final size:22
Alignment explanation
Indices: 20692187--20692245 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 22
20692177 GAATATATAT
20692187 AAAATTATAAAAAATAAAAAATAA
1 AAAATTATAAAAAAT--AAAATAA
* *
20692211 AAAATTATTAAAGACTAAAATAA
1 AAAATTA-TAAAAAATAAAATAA
20692234 AATAATTATAAA
1 AA-AATTATAAA
20692246 TATATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
23 13 0.42
24 12 0.39
25 6 0.19
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAATTATAAAAAATAAAATAA
Found at i:20695269 original size:50 final size:50
Alignment explanation
Indices: 20695211--20695346 Score: 227
Period size: 50 Copynumber: 2.7 Consensus size: 50
20695201 TATTGAGGTT
*
20695211 ATGAGAGGTCCCACGTAAAACCATGTTTGGGACATGACGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGACGTTGGCACCGAG
* *
20695261 ATGAGAGGTCTCACGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGACGTTGGCACCGAG
* *
20695311 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATG
1 ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATG
20695347 GCATGGGCAT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.26, C:0.22, G:0.32, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTTTGGGACATGACGTTGGCACCGAG
Found at i:20695347 original size:50 final size:50
Alignment explanation
Indices: 20695169--20695348 Score: 225
Period size: 50 Copynumber: 3.5 Consensus size: 50
20695159 GAGACCTCAT
* **
20695169 GTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGGTTATGAGAGGTCCCAC
1 GTAAGACCATGTCTGGGACATGGCGTTGGC---ACCGA-G--ATGAGAGGTCCCAC
* * * *
20695225 GTAAAACCATGTTTGGGACATGACGTTGGCACCGAGATGAGAGGTCTCAC
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
* *
20695275 GTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
1 GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
20695325 GTAAGACCATGTCTGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
20695349 ATGGGCATCA
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
50 82 0.73
52 1 0.01
53 3 0.03
56 26 0.23
ACGTcount: A:0.25, C:0.21, G:0.32, T:0.23
Consensus pattern (50 bp):
GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCAC
Found at i:20695392 original size:100 final size:100
Alignment explanation
Indices: 20695211--20695392 Score: 229
Period size: 100 Copynumber: 1.8 Consensus size: 100
20695201 TATTGAGGTT
* * * * **
20695211 ATGAGAGGTCCCACGTAAAACCATGTTTGGGACATGACGTTGGCACCGAGATGAGAGGTCTCACG
1 ATGAGAGGTCCCACGTAAAACCATGTCTGGGACATGACATGGGCACCAAGATGAGAACTCTCACG
* *
20695276 TAAGACCATGTTTGGGACATGGCGTTGGCACCGAG
66 TAAGACCATATCTGGGACATGGCGTTGGCACCGAG
* * * * * *
20695311 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCAATATGAGAACTCTCATG
1 ATGAGAGGTCCCACGTAAAACCATGTCTGGGACATGACATGGGCACCAAGATGAGAACTCTCACG
*
20695376 TATGACCATATCTGGGA
66 TAAGACCATATCTGGGA
20695393 TAGTGCATTG
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
100 67 1.00
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (100 bp):
ATGAGAGGTCCCACGTAAAACCATGTCTGGGACATGACATGGGCACCAAGATGAGAACTCTCACG
TAAGACCATATCTGGGACATGGCGTTGGCACCGAG
Found at i:20700807 original size:18 final size:18
Alignment explanation
Indices: 20700786--20700833 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
20700776 AAAATGTGAG
*
20700786 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
20700804 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
20700822 AAATGATGTTCA
1 AAATGATGTTCA
20700834 AATTGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:20701359 original size:72 final size:72
Alignment explanation
Indices: 20701264--20701502 Score: 367
Period size: 72 Copynumber: 3.3 Consensus size: 72
20701254 CAATGCTAAA
* *
20701264 CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTATTAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
20701329 GTGCAAT
66 GTGCAAT
20701336 CTAGTTTTATTAAT-GTCTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTA
1 CTAGTTTTATTAATAGT-TGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTA
*
20701400 TGTGTAAT
65 TGTGCAAT
* *
20701408 CTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTAATTTAT
1 CTAGTTTTATTAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
* *
20701473 ACT-AAAT
66 -GTGCAAT
*
20701480 -TAGTTTTATCAATAGTTGTTTAT
1 CTAGTTTTATTAATAGTTGTTTAT
20701503 ATATGATTTT
Statistics
Matches: 156, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
71 24 0.15
72 129 0.83
73 3 0.02
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (72 bp):
CTAGTTTTATTAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGCAAT
Found at i:20702819 original size:21 final size:20
Alignment explanation
Indices: 20702791--20702829 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
20702781 GCAGATTTTA
20702791 TGGAATATGA-AGATATTAAC
1 TGGAATATGAGA-ATATTAAC
20702811 TGGACATATGAGAATATTA
1 TGGA-ATATGAGAATATTA
20702830 TTGATTCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 12 0.71
22 1 0.06
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.31
Consensus pattern (20 bp):
TGGAATATGAGAATATTAAC
Found at i:20703430 original size:13 final size:13
Alignment explanation
Indices: 20703414--20703445 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
20703404 ACTCTTTCAC
20703414 AGCATTTTCCAAA
1 AGCATTTTCCAAA
*
20703427 AGCACTTTCCAAA
1 AGCATTTTCCAAA
20703440 AGCATT
1 AGCATT
20703446 GCCAAAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.38, C:0.25, G:0.09, T:0.28
Consensus pattern (13 bp):
AGCATTTTCCAAA
Found at i:20703443 original size:26 final size:27
Alignment explanation
Indices: 20703392--20703445 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
20703382 GAACATTTTA
* *
20703392 TTTCTCAAAAGCACTCTTTCACAGCAT
1 TTTCTCAAAAGCACTCTTCCAAAGCAT
20703419 TTTC-CAAAAGCACT-TTCCAAAAGCAT
1 TTTCTCAAAAGCACTCTTCC-AAAGCAT
20703445 T
1 T
20703446 GCCAAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 3 0.12
26 17 0.71
27 4 0.17
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.31
Consensus pattern (27 bp):
TTTCTCAAAAGCACTCTTCCAAAGCAT
Found at i:20703590 original size:14 final size:15
Alignment explanation
Indices: 20703565--20703596 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
20703555 AGAAGTGTTG
20703565 TATTCATTAATTTAA
1 TATTCATTAATTTAA
20703580 TATTC-TTAATTTAA
1 TATTCATTAATTTAA
20703594 TAT
1 TAT
20703597 ATATATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTCATTAATTTAA
Found at i:20703939 original size:21 final size:22
Alignment explanation
Indices: 20703899--20703939 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
20703889 GTCTTAACTT
*
20703899 ATTGCAATTTATTTTATCAATC
1 ATTGCAATATATTTTATCAATC
*
20703921 ATTGCAATAT-TTTTGTCAA
1 ATTGCAATATATTTTATCAA
20703940 ATTATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (22 bp):
ATTGCAATATATTTTATCAATC
Found at i:20711646 original size:39 final size:39
Alignment explanation
Indices: 20711602--20711688 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
20711592 TAAATAGTAA
20711602 GTAAGTGAAATATGAAATGAGAATATAAGAATCAATTAG
1 GTAAGTGAAATATGAAATGAGAATATAAGAATCAATTAG
20711641 GTAAGTGAAATATGAAATGAGAATATAAGAATCAATTAG
1 GTAAGTGAAATATGAAATGAGAATATAAGAATCAATTAG
*
20711680 GTATGTGAA
1 GTAAGTGAA
20711689 TAAGATCTAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.49, C:0.02, G:0.22, T:0.26
Consensus pattern (39 bp):
GTAAGTGAAATATGAAATGAGAATATAAGAATCAATTAG
Found at i:20716285 original size:19 final size:18
Alignment explanation
Indices: 20716253--20716289 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
20716243 GGGACTAATC
*
20716253 TAAAACAAAATAAAAATA
1 TAAAAAAAAATAAAAATA
20716271 TAAAAAAAAACTAAAAATA
1 TAAAAAAAAA-TAAAAATA
20716290 GGGGTCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (18 bp):
TAAAAAAAAATAAAAATA
Found at i:20720525 original size:35 final size:35
Alignment explanation
Indices: 20720479--20720549 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
20720469 TAATGTAAGG
20720479 TGAGTTTGAAATGAGCATGATGGGAGAGCTCTCAT
1 TGAGTTTGAAATGAGCATGATGGGAGAGCTCTCAT
20720514 TGAGTTTGAAATGAGCATGATGGGAGAGCTCTCAT
1 TGAGTTTGAAATGAGCATGATGGGAGAGCTCTCAT
20720549 T
1 T
20720550 CTTTTTGGGG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.11, G:0.31, T:0.30
Consensus pattern (35 bp):
TGAGTTTGAAATGAGCATGATGGGAGAGCTCTCAT
Found at i:20725826 original size:55 final size:55
Alignment explanation
Indices: 20725759--20725866 Score: 173
Period size: 55 Copynumber: 2.0 Consensus size: 55
20725749 CTTAACTTGC
* *
20725759 AAACATTTTGATCTTGTAA-GAGTTATTTCGTTGTTTGCTTATTTGTATCTCTTTG
1 AAACATTCTGATCTTGTAAGGA-TTATTACGTTGTTTGCTTATTTGTATCTCTTTG
*
20725814 AAACATTCTGATCTTGTAAGGATTATTACTTTGTTTGCTTATTTGTATCTCTT
1 AAACATTCTGATCTTGTAAGGATTATTACGTTGTTTGCTTATTTGTATCTCTT
20725867 ATAGAGGGTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
55 47 0.96
56 2 0.04
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.52
Consensus pattern (55 bp):
AAACATTCTGATCTTGTAAGGATTATTACGTTGTTTGCTTATTTGTATCTCTTTG
Found at i:20727798 original size:5 final size:5
Alignment explanation
Indices: 20727788--20727822 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
20727778 TGAGCATTCG
20727788 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA
20727823 TAATTTTCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (5 bp):
ATCGA
Found at i:20728871 original size:9 final size:9
Alignment explanation
Indices: 20728853--20728898 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
20728843 TATAGTTTGA
*
20728853 TATTCAAAT
1 TATTCGAAT
20728862 TATTCGAAT
1 TATTCGAAT
20728871 TATTCGAAT
1 TATTCGAAT
*
20728880 TATTCGAGT
1 TATTCGAAT
20728889 TATTCGAAT
1 TATTCGAAT
20728898 T
1 T
20728899 CGAAAACTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:20731147 original size:25 final size:24
Alignment explanation
Indices: 20731100--20731150 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
20731090 TAGTTTCCAC
20731100 TACTTTAGTTTTATTTTATTTTAT
1 TACTTTAGTTTTATTTTATTTTAT
*
20731124 TACTTTATGTTTTGTTATTA-TTTAT
1 TACTTTA-GTTTTATT-TTATTTTAT
20731149 TA
1 TA
20731151 ATTTTATTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 14 0.58
26 3 0.12
ACGTcount: A:0.22, C:0.04, G:0.06, T:0.69
Consensus pattern (24 bp):
TACTTTAGTTTTATTTTATTTTAT
Found at i:20750721 original size:12 final size:13
Alignment explanation
Indices: 20750698--20750762 Score: 60
Period size: 13 Copynumber: 4.7 Consensus size: 13
20750688 TTATGACTAC
*
20750698 ATTATAATATTTT
1 ATTATTATATTTT
20750711 ATT-TTATATTTT
1 ATTATTATATTTT
*
20750723 ATTATTATTGTTATTAAT
1 ATTATTA----TATT-TT
20750741 ATTATTATATTTT
1 ATTATTATATTTT
20750754 ATTATTATA
1 ATTATTATA
20750763 GTGATATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
12 11 0.26
13 16 0.37
14 4 0.09
17 4 0.09
18 8 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (13 bp):
ATTATTATATTTT
Found at i:20750729 original size:3 final size:3
Alignment explanation
Indices: 20750705--20750761 Score: 54
Period size: 3 Copynumber: 21.0 Consensus size: 3
20750695 TACATTATAA
* *
20750705 TAT T-T TAT T-T TA- TAT T-T TAT TAT TAT TGT TAT TAA TAT TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
20750748 TAT T-T TAT TAT TAT
1 TAT TAT TAT TAT TAT
20750762 AGTGATATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
2 12 0.27
3 32 0.73
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:20751853 original size:4 final size:4
Alignment explanation
Indices: 20751844--20751869 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
20751834 TCATGTTAAT
20751844 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
20751870 CATGAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:20754771 original size:52 final size:52
Alignment explanation
Indices: 20754707--20754873 Score: 282
Period size: 52 Copynumber: 3.2 Consensus size: 52
20754697 CAGATAAGGA
20754707 TAAGG-TATGAAAGTTGATCATTCTCTTACTCTCCAAATTTGATTAACAACAT
1 TAAGGATA-GAAAGTTGATCATTCTCTTACTCTCCAAATTTGATTAACAACAT
20754759 TAAGGATAGAAAGTTGATCATTCTCTTACTCTCCAAATTTGATTAACAACAT
1 TAAGGATAGAAAGTTGATCATTCTCTTACTCTCCAAATTTGATTAACAACAT
* * * *
20754811 TAAGGATAGAAAGTTGATCCTTCTCTTACTCTCTAAATTCGATCAACAACAT
1 TAAGGATAGAAAGTTGATCATTCTCTTACTCTCCAAATTTGATTAACAACAT
20754863 TAAGGATAGAA
1 TAAGGATAGAA
20754874 TATAATTTGG
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
52 108 0.98
53 2 0.02
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (52 bp):
TAAGGATAGAAAGTTGATCATTCTCTTACTCTCCAAATTTGATTAACAACAT
Found at i:20755748 original size:39 final size:38
Alignment explanation
Indices: 20755705--20755822 Score: 115
Period size: 36 Copynumber: 3.2 Consensus size: 38
20755695 TATAACATAA
20755705 TTTTAATATTATTATTTAATGTAAATATAATATAAGTA-
1 TTTTAATATTATTATTTAATGTAAATATAATATAA-TAT
*
20755743 TTTT--TATTATAATTTAATGTAAATATAA-AT-ATAT
1 TTTTAATATTATTATTTAATGTAAATATAATATAATAT
* * *
20755777 TTTATCAT-TTATTATTTAAT-TTAATATATATAAAAATAT
1 TTT-TAATATTATTATTTAATGTAAATATA-AT-ATAATAT
20755816 TTTTAAT
1 TTTTAAT
20755823 GGGTCACTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
33 2 0.03
34 4 0.06
35 10 0.15
36 35 0.52
37 1 0.01
38 8 0.12
39 7 0.10
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (38 bp):
TTTTAATATTATTATTTAATGTAAATATAATATAATAT
Found at i:20755794 original size:36 final size:36
Alignment explanation
Indices: 20755693--20755806 Score: 121
Period size: 36 Copynumber: 3.2 Consensus size: 36
20755683 ATTATTATTT
20755693 AATATAACATA-ATTTTA-ATATTATTATTTAATGTA
1 AATATAACATATATTTTATAT-TTATTATTTAATGTA
* *
20755728 AATATAATATAAGTATTTT-TA-TTATAATTTAATGTA
1 AATATAACAT-A-TATTTTATATTTATTATTTAATGTA
*
20755764 AATATAA-ATATATTTTATCATTTATTATTTAATTTA
1 AATATAACATATATTTTAT-ATTTATTATTTAATGTA
20755800 ATATATA
1 A-ATATA
20755807 TAAAAATATT
Statistics
Matches: 67, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
33 6 0.09
34 2 0.03
35 12 0.18
36 36 0.54
37 5 0.07
38 6 0.09
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.51
Consensus pattern (36 bp):
AATATAACATATATTTTATATTTATTATTTAATGTA
Found at i:20755814 original size:41 final size:40
Alignment explanation
Indices: 20755742--20755820 Score: 106
Period size: 41 Copynumber: 1.9 Consensus size: 40
20755732 TAATATAAGT
* *
20755742 ATTTTTATTATAATTTAATGTAAATATAAATATATTTTATC
1 ATTTTTATTATAATTTAATATAAATAAAAATAT-TTTTATC
*
20755783 ATTTATTATT-TAATTTAATATATATAAAAATATTTTTA
1 ATTT-TTATTATAATTTAATATAAATAAAAATATTTTTA
20755821 ATGGGTCACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 5 0.15
41 24 0.71
42 5 0.15
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (40 bp):
ATTTTTATTATAATTTAATATAAATAAAAATATTTTTATC
Found at i:20769747 original size:17 final size:18
Alignment explanation
Indices: 20769727--20769761 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
20769717 TAGAATAGAA
*
20769727 AATAACTTAT-TGGGTTG
1 AATAAATTATATGGGTTG
20769744 AATAAATTATATGGGTTG
1 AATAAATTATATGGGTTG
20769762 GTTTCAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (18 bp):
AATAAATTATATGGGTTG
Found at i:20772105 original size:6 final size:6
Alignment explanation
Indices: 20772096--20772121 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
20772086 TAAGTCTAAG
20772096 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
20772122 TAAACTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:20773841 original size:23 final size:23
Alignment explanation
Indices: 20773813--20773875 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 23
20773803 TATATAGAAC
20773813 TAATAATAAAAATAAAAGATAATA
1 TAATAATAAAAATAAAA-ATAATA
20773837 -AATAATAAACTAAT-AAAATAATA
1 TAATAATAAA--AATAAAAATAATA
*
20773860 TAACTAATAAGAATAA
1 TAA-TAATAAAAATAA
20773876 TGGATAAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
23 18 0.55
24 6 0.18
25 9 0.27
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (23 bp):
TAATAATAAAAATAAAAATAATA
Found at i:20773852 original size:8 final size:8
Alignment explanation
Indices: 20773832--20773869 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
20773822 AAATAAAAGA
20773832 TAATAAA-
1 TAATAAAC
20773839 TAATAAAC
1 TAATAAAC
*
20773847 TAATAAAA
1 TAATAAAC
20773855 TAATATAAC
1 TAATA-AAC
20773864 TAATAA
1 TAATAA
20773870 GAATAATGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
7 7 0.26
8 13 0.48
9 7 0.26
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (8 bp):
TAATAAAC
Found at i:20773862 original size:25 final size:23
Alignment explanation
Indices: 20773814--20773875 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
20773804 ATATAGAACT
*
20773814 AATAATAAAAATAAAAGATAATA
1 AATAATAAAAATAAAAAATAATA
20773837 AATAATAAACTAATAAAATAAT-ATA
1 AATAATAAA--AATAAAA-AATAATA
* *
20773862 ACTAATAAGAATAA
1 AATAATAAAAATAA
20773876 TGGATAAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 14 0.42
25 17 0.52
26 2 0.06
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.24
Consensus pattern (23 bp):
AATAATAAAAATAAAAAATAATA
Found at i:20774935 original size:115 final size:115
Alignment explanation
Indices: 20774726--20774935 Score: 264
Period size: 115 Copynumber: 1.8 Consensus size: 115
20774716 AAATTTTGGA
* * * *
20774726 AAAATTAAGTCTCAGGATCCACACGGCCAATGACATGCCTGTGTGTGCAAGCTAAGTGGGTCACA
1 AAAATTAAGTCTCAGGATCCACACGGCCAAGGACACGCCTGTGTGTCCAACCTAAGTGGGTCACA
** * * *
20774791 TGGCCATGTTGCCAAGCCGTCTAACTCACTGTTGAATATTTTAAAATTTT
66 CAGCCATGTCGCCAAGCCATATAACTCACTGTTGAATATTTTAAAATTTT
*
20774841 AAAATTAAGTCTTAGGATCCACACGGCCAAGGACACGTCC-GTGTGTCCAGACCGT-A-TGGGTC
1 AAAATTAAGTCTCAGGATCCACACGGCCAAGGACACG-CCTGTGTGTCCA-ACC-TAAGTGGGTC
* *
20774903 ACACAGCCATGTCGCCAGGCCATATAAGTCACT
63 ACACAGCCATGTCGCCAAGCCATATAACTCACT
20774936 ATCAAAACCC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
115 74 0.93
116 5 0.06
117 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (115 bp):
AAAATTAAGTCTCAGGATCCACACGGCCAAGGACACGCCTGTGTGTCCAACCTAAGTGGGTCACA
CAGCCATGTCGCCAAGCCATATAACTCACTGTTGAATATTTTAAAATTTT
Found at i:20785072 original size:31 final size:30
Alignment explanation
Indices: 20785024--20785085 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
20785014 GTGAAATTTA
**
20785024 ATCATTTTATTGAAATAATATTTTAATTAAT
1 ATCATTTTATTGAAATAA-ATGATAATTAAT
**
20785055 ATCATTTTATTTTAATAAATGATAATTAAT
1 ATCATTTTATTGAAATAAATGATAATTAAT
20785085 A
1 A
20785086 GACTTGCTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 11 0.41
31 16 0.59
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (30 bp):
ATCATTTTATTGAAATAAATGATAATTAAT
Found at i:20788264 original size:471 final size:461
Alignment explanation
Indices: 20787306--20788651 Score: 1531
Period size: 471 Copynumber: 2.9 Consensus size: 461
20787296 TAGAGTGAGG
* * *
20787306 TTTCATTGCTATGGAACATGTGATTGAGTTGCTAGAAGTAGGAGTTTGCTATTATGAAGTAGGAA
1 TTTCATTGCTATGGAGCATGTGATTGAGTTGCTA-AAGTAGGAGTTTGCTATTATAAAGTAGGAG
* * *
20787371 TTC-ACATTATTCAGAGAAGGATTTCATTGCTTGGGTGGGAGCAAGA-CATTGGGTTAGGTGGA-
65 TTCGA-ATTACTCAGAGAAGGATTTCACTGTTTGGGTGGGAGCAAGAGC-TTGGG-TAGGTGGAG
* * * * * *
20787433 AGAAGATTTTATTGCTATGGAGTAAGAGTTCGGGTTTAGCAGAGTAGGAGTTCAAGCTATGCCGT
127 A-AAGATTTTATTGTTATGGAGCAAGAGTTCGGGTTTAGCAGAATAGGAGTTCAAACTATGTCAT
* * *
20787498 GTAAGATTTCACTAATAAGAAGGAGTTTGGGTTATAGGGAGTATGATTTTATCATTGTGGAGCAA
191 GTAAGATTTCACTAATAAG-AGGAGTTTGGGTTATA-AGAGTAAGATTTTACCA-T-TGGAGCAA
*
20787563 TAGTTGAAGATGCTTGGAGTAAGATTTAATTGTTATGGAGCAGAAGTTTGCATTGCTCGGAGTAG
252 -AGTTGAAGATGCTTGGAGTAAGATTTAATTGTTATGGAGCAGAAGTTTGCATTGCTCGAAGTAG
* * ** * * * *
20787628 GATTTATGGAGCAATAGTTTAGGCTATACGAAACAACATTTTACTATTATCGACCTATAATTTAG
316 GATTTATGGAGCAAGAATTTAGGCTGCACGAAATAACATTTCACTATTATGGACCTAGAATTTAG
* * * * * **
20787693 GTTGCATGAAGCAAGAGTTTAGGCTAGGCAAACTAGAATCTCATTGTTATGAAGCAAGATTTTGG
381 GTTGCATGAAGCAAGAGTTTGGGCTAGACAAACTAGAATCTCATTATTATAAAGCAAGAGTTAAG
* *
20787758 GATGTACAGAGCGATA
446 GATGTACAGAACGAGA
* *
20787774 TTTCATTGCTATGGAGCATGTGATTGAGTTGCTCAAAGTAGG-GATTTGCCATTATTAAGTAGGA
1 TTTCATTGCTATGGAGCATGTGATTGAGTTGCT-AAAGTAGGAG-TTTGCTATTATAAAGTAGGA
* * * *
20787838 GTTCGAATTACTCAAAAAAGGATTTCACTATTTGGGTGGGAGTAAGAGCTTGGGCTAGGTGGAGA
64 GTTCGAATTACTCAGAGAAGGATTTCACTGTTTGGGTGGGAGCAAGAGCTTGGG-TAGGTGGAGA
* ** *
20787903 AAGATTTTATTTTTATGGAGCAAGAGTTCGAATTTAGCAGAATAGGTGTTCAAACTATGTCATGT
128 AAGATTTTATTGTTATGGAGCAAGAGTTCGGGTTTAGCAGAATAGGAGTTCAAACTATGTCATGT
* * *
20787968 AAGATTTCATTCATATAGAGGAGTTTGGGTTATGAAGAGTAAGATTTTACCACTATGGAGTTGGA
193 AAGATTTCACTAATA-AGAGGAGTTTGGGTTAT-AAGAGTAAGATTTTACCA-T-TGGA---GCA
* * **
20788033 AGAGTAGAAGATGCTTGGAGTAAGATTTATTTGTTATGGAGTGGAAGTTTGCATTGCTCGAAGTA
251 A-AGTTGAAGATGCTTGGAGTAAGATTTAATTGTTATGGAGCAGAAGTTTGCATTGCTCGAAGTA
* * * * *** *
20788098 GGATTTATAGAGCAAGAACTAAGGCTGCAAGGTGTAAGATTTCACTATTATGGACCTAGAATTTA
315 GGATTTATGGAGCAAGAATTTAGGCTGCACGAAATAACATTTCACTATTATGGACCTAGAATTTA
* * *
20788163 GGTTGCATGAAGTAAGAGTTTGGGCTAGACGAAGTATG-ATCTCATTATTATAAAGCAAGAGTTA
380 GGTTGCATGAAGCAAGAGTTTGGGCTAGACAAACTA-GAATCTCATTATTATAAAGCAAGAGTTA
*
20788227 AGGATGTGTC-GAACGAGA
444 AGGATGT-ACAGAACGAGA
* * * * * *
20788245 TTTCATTGCTATAGAGCATGTGATTGAGTTGCTTGAAGTAAGAGTCTGTTATTATAAAGTAGAAG
1 TTTCATTGCTATGGAGCATGTGATTGAGTTGC-TAAAGTAGGAGTTTGCTATTATAAAGTAGGAG
* * * * * * *
20788310 TTCGCATTACTTAGAGAAGGATTTCACTGTTTGGGAGGGAACAAGAGCTTGGGTTGTGCGGAGGA
65 TTCGAATTACTCAGAGAAGGATTTCACTGTTTGGGTGGGAGCAAGAGCTTGGGTAG-GTGGAGAA
* ** *
20788375 AGATTTTATTGTTATGGAGCAAGAGTTTGGGTTTAGCA-AAGTAGGAGTTTGATCTATGTCATGT
129 AGATTTTATTGTTATGGAGCAAGAGTTCGGGTTTAGCAGAA-TAGGAGTTCAAACTATGTCATGT
* * * * * *
20788439 AAGATTTCACTAATACGGAGGAGTTT-GGAT-TAAGAGTAGGATTTCACCATTGTGAAACACAAT
193 AAGATTTCACTAATA-AGAGGAGTTTGGGTTATAAGAGTAAGATTTTACCATTG-G-AGCA-AAG
* *
20788502 TTGAAGATGCTTGGAGTAAGATTTAATTGTTATGGAGCAGAAGTTTGCATTGCTCAAAGTAAGAT
254 TTGAAGATGCTTGGAGTAAGATTTAATTGTTATGGAGCAGAAGTTTGCATTGCTCGAAGTAGGAT
* * * * *
20788567 TTATGGATCAAGATTTTAGGCTGCACGAAATAATATTTCACTATTATGGACCTCGAATTTGGGTT
319 TTATGGAGCAAGAATTTAGGCTGCACGAAATAACATTTCACTATTATGGACCTAGAATTTAGGTT
20788632 GCATGAAGCAAGAGTTTGGG
384 GCATGAAGCAAGAGTTTGGG
20788652 ATGTGCGGAG
Statistics
Matches: 738, Mismatches: 121, Indels: 41
0.82 0.13 0.05
Matches are distributed among these distances:
465 133 0.18
466 3 0.00
467 3 0.00
468 226 0.31
469 8 0.01
470 7 0.01
471 354 0.48
472 4 0.01
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.32
Consensus pattern (461 bp):
TTTCATTGCTATGGAGCATGTGATTGAGTTGCTAAAGTAGGAGTTTGCTATTATAAAGTAGGAGT
TCGAATTACTCAGAGAAGGATTTCACTGTTTGGGTGGGAGCAAGAGCTTGGGTAGGTGGAGAAAG
ATTTTATTGTTATGGAGCAAGAGTTCGGGTTTAGCAGAATAGGAGTTCAAACTATGTCATGTAAG
ATTTCACTAATAAGAGGAGTTTGGGTTATAAGAGTAAGATTTTACCATTGGAGCAAAGTTGAAGA
TGCTTGGAGTAAGATTTAATTGTTATGGAGCAGAAGTTTGCATTGCTCGAAGTAGGATTTATGGA
GCAAGAATTTAGGCTGCACGAAATAACATTTCACTATTATGGACCTAGAATTTAGGTTGCATGAA
GCAAGAGTTTGGGCTAGACAAACTAGAATCTCATTATTATAAAGCAAGAGTTAAGGATGTACAGA
ACGAGA
Found at i:20788873 original size:57 final size:57
Alignment explanation
Indices: 20788803--20788918 Score: 178
Period size: 57 Copynumber: 2.0 Consensus size: 57
20788793 GAAATGCAAA
* * * *
20788803 ATCTTAACTAATATATAATATTAGTATTTTAGGTAACTAATCTCCTAAGAATCAACT
1 ATCTTAACAAATATAGAATATCAATATTTTAGGTAACTAATCTCCTAAGAATCAACT
* *
20788860 ATCTTAACAAATATAGAATATCAATATTTTAGGTAACTAGTCTCCTAAGAATCAGCT
1 ATCTTAACAAATATAGAATATCAATATTTTAGGTAACTAATCTCCTAAGAATCAACT
20788917 AT
1 AT
20788919 ATAGTGTGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.36
Consensus pattern (57 bp):
ATCTTAACAAATATAGAATATCAATATTTTAGGTAACTAATCTCCTAAGAATCAACT
Found at i:20807549 original size:44 final size:44
Alignment explanation
Indices: 20807501--20807765 Score: 149
Period size: 44 Copynumber: 5.8 Consensus size: 44
20807491 TGTAGCAAGA
* *
20807501 TGAAGCTACAAATCCTATATCCCTAAAGTTACAGTGGATCAAAT
1 TGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAAAT
* * *
20807545 TGAAGCTACAATTCTTATA-CCTCTGAAGTTGCAGTGGGTCGAAA-
1 TGAAGCTACAAATCCTATATCC-CTGAAGTTGCAGTGGATC-AAAT
* * * *
20807589 TGAAACTACAGTGACAAATCCTATATCTCTGAAGTTGTAGTAGATCAAAT
1 TG-AA--GC--T-ACAAATCCTATATCCCTGAAGTTGCAGTGGATCAAAT
* * * * * **
20807639 TGAAGCTGCAAATCTTATAACCCTGAAGTTGCAATGGGTCGGAT
1 TGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAAAT
* * * * ** *
20807683 TGAATCTACTATAGCAAGTCTTATCTCCCTGAAGCTATAGTGGAGCAAGA-
1 TGAAGCTAC---A--AA-TCCTATATCCCTGAAGTTGCAGTGGATCAA-AT
* *
20807733 TGGAGCTACAAATCCTATACCCCTGAAGTTGCA
1 TGAAGCTACAAATCCTATATCCCTGAAGTTGCA
20807766 ATGGGTCAGA
Statistics
Matches: 161, Mismatches: 43, Indels: 34
0.68 0.18 0.14
Matches are distributed among these distances:
43 2 0.01
44 83 0.52
45 8 0.05
47 4 0.02
49 8 0.05
50 54 0.34
51 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (44 bp):
TGAAGCTACAAATCCTATATCCCTGAAGTTGCAGTGGATCAAAT
Found at i:20807685 original size:138 final size:137
Alignment explanation
Indices: 20807284--20807691 Score: 435
Period size: 138 Copynumber: 3.0 Consensus size: 137
20807274 TCTCAAATCC
* * * * *
20807284 TATACCCTTGAAGTAGTAGTGGGTC-AGATTGAAACTAAAGTGACGAATCTTCTTTCTCTGAAGT
1 TATACCCTTGAAGTTGCAGTGGGTCGA-AATGAAACTAAAGTGACGAATCTTATATCTCTGAAGT
* * * *
20807348 TGTAGTGGAGCAAGATGAAACAACAAATCATATATCTCTGAAGTTGCAGTGGATCGAATTGAAGA
65 TGTAGT-GAGCAAGATGAAGCTACAAATCATATATCCCTGAAGTTGCAGTGGATCGAATTGAAGC
20807413 TACAATTCT
129 TACAATTCT
* * * * ** * * * *
20807422 TATACCCTTGAAGTTGTAGTGGGTCGGAATGAAATTATAGTGGTGAATATTATCTCCCTAAAGTT
1 TATACCCTTGAAGTTGCAGTGGGTCGAAATGAAACTAAAGTGACGAATCTTATATCTCTGAAGTT
* * * *
20807487 GTAGTGTAGCAAGATGAAGCTACAAATCCTATATCCCTAAAGTTACAGTGGATCAAATTGAAGCT
66 GTAGTG-AGCAAGATGAAGCTACAAATCATATATCCCTGAAGTTGCAGTGGATCGAATTGAAGCT
20807552 ACAATTCT
130 ACAATTCT
* * *
20807560 TATA-CCTCTGAAGTTGCAGTGGGTCGAAATGAAACTACAGTGACAAATCCTATATCTCTGAAGT
1 TATACCCT-TGAAGTTGCAGTGGGTCGAAATGAAACTAAAGTGACGAATCTTATATCTCTGAAGT
* * * * * * * *
20807624 TGTAGTAGATCAA-ATTGAAGCTGCAAATCTTATAACCCTGAAGTTGCAATGGGTCGGATTGAAT
65 TGTAGT-GAGCAAGA-TGAAGCTACAAATCATATATCCCTGAAGTTGCAGTGGATCGAATTGAAG
20807688 CTAC
128 CTAC
20807692 TATAGCAAGT
Statistics
Matches: 222, Mismatches: 43, Indels: 10
0.81 0.16 0.04
Matches are distributed among these distances:
137 5 0.02
138 216 0.97
139 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (137 bp):
TATACCCTTGAAGTTGCAGTGGGTCGAAATGAAACTAAAGTGACGAATCTTATATCTCTGAAGTT
GTAGTGAGCAAGATGAAGCTACAAATCATATATCCCTGAAGTTGCAGTGGATCGAATTGAAGCTA
CAATTCT
Found at i:20807791 original size:94 final size:93
Alignment explanation
Indices: 20807511--20808188 Score: 605
Period size: 94 Copynumber: 7.2 Consensus size: 93
20807501 TGAAGCTACA
* * * * * * * *
20807511 AATCCTATATCCCTAAAGTTACAGTGGATCAA-ATTGAAGCTACAATTCTTATACCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTTATAGTGGAGCAAGA-TGAAGCTACAAATCCTATACCCCTGAAGTT
* * * * *
20807575 GCAGTGGGTCGAAATGAAACTA-CAGT-GACA
65 GCAATGGGTC-AGATTAAATTACCA-TAG-CG
* * * * * * * * *
20807605 AATCCTATATCTCTGAAGTTGTAGTAGATCAA-ATTGAAGCTGCAAATCTTATAACCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTATAGTGGAGCAAGA-TGAAGCTACAAATCCTATACCCCTGAAGTT
* * *
20807669 GCAATGGGTCGGATTGAATCTACTATAGC-
65 GCAATGGGTCAGATTAAAT-TACCATAGCG
* *
20807698 AAGTCTTATCTCCCTGAAGCTATAGTGGAGCAAGATGGAGCTACAAATCCTATACCCCTGAAGTT
1 AA-TCTTATCTCCCTGAAGTTATAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTT
20807763 GCAATGGGTCAGATTAAAGTTACCATAGCG
65 GCAATGGGTCAGATTAAA-TTACCATAGCG
* * ** * * * * * *
20807793 AGTCTTATCTCCCTAAAGTTGCAATGAAGCAAGATGAAGTTACAAACCCTATACCCTTTAAGTTG
1 AATCTTATCTCCCTGAAGTTATAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG
* * * * *
20807858 TAGTAGGTCAGACTAAAGTTACCATAACG
66 CAATGGGTCAGATTAAA-TTACCATAGCG
* * *
20807887 AATCTTATCCCCCTGAAGTT-CAGTGGAGTAAGATTG-AGCTACAAATCCTATACCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTATAGTGGAGCAAGA-TGAAGCTACAAATCCTATACCCCTGAAGTT
** *
20807950 ATAATGGGTCAGATTGAAGTTACCATAGCG
65 GCAATGGGTCAGATT-AAATTACCATAGCG
* **
20807980 AATCTTATCTCCCTGAAGTTGTAGTAAAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG
1 AATCTTATCTCCCTGAAGTTATAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG
* * * * *
20808045 TAGTGGGTCAGATTGAAACTACAAATGGCG
66 CAATGGGTCAGATT-AAATTAC-CATAGCG
* * * *
20808075 AATCTTATCTCTCTAAAGTTACAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTC
1 AATCTTATCTCCCTGAAGTTATAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG
* *
20808140 CAGTAGGTCAGATTGAAATTACCATAGCG
66 CAATGGGTCAGATT-AAATTACCATAGCG
* *
20808169 AAACTTATCTCTCTGAAGTT
1 AATCTTATCTCCCTGAAGTT
20808189 GCAGTAGGTC
Statistics
Matches: 484, Mismatches: 88, Indels: 24
0.81 0.15 0.04
Matches are distributed among these distances:
93 81 0.17
94 316 0.65
95 87 0.18
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (93 bp):
AATCTTATCTCCCTGAAGTTATAGTGGAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG
CAATGGGTCAGATTAAATTACCATAGCG
Found at i:20807941 original size:187 final size:188
Alignment explanation
Indices: 20807701--20808191 Score: 641
Period size: 187 Copynumber: 2.6 Consensus size: 188
20807691 CTATAGCAAG
* *
20807701 TCTTATCTCCCTGAAGCTAT-AGTGGAGCAAGATGGAGCTACAAATCCTATACCCCTGAAGTTGC
1 TCTTATCTCCCTGAAG-T-TCAGTGGAGCAAGATTGAGCTACAAATCCTATACCCCTGAAGTTAC
* * *
20807765 AATGGGTCAGATTAAAGTTACCATAGCGAGTCTTATCTCCCTAAAGTTGCAATGAAGCAAGATGA
64 AATGGGTCAGATTAAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAATAAAGCAAGATGA
* * * * *
20807830 AGTTACAAACCCTATACCCTTTAAGTTGTAGTAGGTCAGACT-AAAGTTAC-CATAACGAA
129 AGCTACAAACCCTATACCCCTGAAGTTGTAGTAGGTCAGACTGAAA-CTACAAATAACGAA
* * *
20807889 TCTTATCCCCCTGAAGTTCAGTGGAGTAAGATTGAGCTACAAATCCTATACCCCTGAAGTTATAA
1 TCTTATCTCCCTGAAGTTCAGTGGAGCAAGATTGAGCTACAAATCCTATACCCCTGAAGTTACAA
* * *
20807954 TGGGTCAGATTGAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGTAGTAAAGCAAGATGAAG
66 TGGGTCAGATTAAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAATAAAGCAAGATGAAG
* * * **
20808019 CTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTACAAATGGCGAA
131 CTACAAACCCTATACCCCTGAAGTTGTAGTAGGTCAGACTGAAACTACAAATAACGAA
* * *
20808077 TCTTATCTCTCTAAAGTTACAGTGGAGCAAGA-TGAAGCTACAAATCCTATACCCCTGAAGTTCC
1 TCTTATCTCCCTGAAGTT-CAGTGGAGCAAGATTG-AGCTACAAATCCTATACCCCTGAAGTTAC
* * * *
20808141 AGTAGGTCAGATTGAAA-TTACCATAGCGAAACTTATCTCTCTGAAGTTGCA
64 AATGGGTCAGATT-AAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCA
20808192 GTAGGTCGGA
Statistics
Matches: 264, Mismatches: 33, Indels: 11
0.86 0.11 0.04
Matches are distributed among these distances:
186 1 0.00
187 139 0.53
188 41 0.16
189 81 0.31
190 2 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (188 bp):
TCTTATCTCCCTGAAGTTCAGTGGAGCAAGATTGAGCTACAAATCCTATACCCCTGAAGTTACAA
TGGGTCAGATTAAAGTTACCATAGCGAATCTTATCTCCCTGAAGTTGCAATAAAGCAAGATGAAG
CTACAAACCCTATACCCCTGAAGTTGTAGTAGGTCAGACTGAAACTACAAATAACGAA
Found at i:20808067 original size:44 final size:44
Alignment explanation
Indices: 20807887--20808070 Score: 135
Period size: 44 Copynumber: 4.1 Consensus size: 44
20807877 TACCATAACG
* * * * *
20807887 AATCTTATCCCCCTGAAGTT-CAGTGGAGTAAGATTG-AGCTACA
1 AATCCTATACCCCTGAAGTTGTAGTGG-GTCAGATTGAAACTACA
* * *
20807930 AATCCTATACCCCTGAAGTTATAATGGGTCAGATTGAAGTTACCATAGCG
1 AATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAA---A-C-TA-CA
* ** *
20807980 AATCTTAT-CTCCCTGAAGTTGTAGTAAAG-CAAGA-TGAAGCTACA
1 AATCCTATAC-CCCTGAAGTTGTAGT-GGGTC-AGATTGAAACTACA
20808024 AATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTACA
1 AATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTACA
20808068 AAT
1 AAT
20808071 GGCGAATCTT
Statistics
Matches: 109, Mismatches: 18, Indels: 27
0.71 0.12 0.18
Matches are distributed among these distances:
43 30 0.28
44 41 0.38
45 3 0.03
46 1 0.01
48 1 0.01
49 3 0.03
50 26 0.24
51 4 0.04
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAACTACA
Found at i:20808206 original size:50 final size:50
Alignment explanation
Indices: 20808129--20808243 Score: 203
Period size: 50 Copynumber: 2.3 Consensus size: 50
20808119 AATCCTATAC
*
20808129 CCCTGAAGTTCCAGTAGGTCAGATTGAAATTACCATAGCGAAACTTATCT
1 CCCTGAAGTTGCAGTAGGTCAGATTGAAATTACCATAGCGAAACTTATCT
* *
20808179 CTCTGAAGTTGCAGTAGGTCGGATTGAAATTACCATAGCGAAACTTATCT
1 CCCTGAAGTTGCAGTAGGTCAGATTGAAATTACCATAGCGAAACTTATCT
20808229 CCCTGAAGTTGCAGT
1 CCCTGAAGTTGCAGT
20808244 GGAACAAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (50 bp):
CCCTGAAGTTGCAGTAGGTCAGATTGAAATTACCATAGCGAAACTTATCT
Found at i:20808257 original size:50 final size:50
Alignment explanation
Indices: 20808129--20808257 Score: 161
Period size: 50 Copynumber: 2.6 Consensus size: 50
20808119 AATCCTATAC
* * * *
20808129 CCCTGAAGTTCCAGTAGGTCAGATTGAAATTACCATAGCGAAACTTATCT
1 CCCTGAAGTTGCAGTAGGACAAAATGAAATTACCATAGCGAAACTTATCT
* * ** *
20808179 CTCTGAAGTTGCAGTAGGTCGGATTGAAATTACCATAGCGAAACTTATCT
1 CCCTGAAGTTGCAGTAGGACAAAATGAAATTACCATAGCGAAACTTATCT
20808229 CCCTGAAGTTGCAGT-GGAACAAAATGAAA
1 CCCTGAAGTTGCAGTAGG-ACAAAATGAAA
20808258 CTACAAATCC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
49 2 0.03
50 68 0.97
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (50 bp):
CCCTGAAGTTGCAGTAGGACAAAATGAAATTACCATAGCGAAACTTATCT
Found at i:20808332 original size:144 final size:145
Alignment explanation
Indices: 20808036--20808335 Score: 356
Period size: 144 Copynumber: 2.1 Consensus size: 145
20808026 TCCTATACCC
* * * * *
20808036 CTGAAGTTGTAGTGGGTCAGATTGAAACTACAAATGGCGAATCTTATCTCTCTAAAGTTACAGTG
1 CTGAAGTTGCAGTAGGTCAGATTGAAACTACAAATAGCGAAACTTATCTCCCTAAAGTTACAGTG
* * * * * * *
20808101 GAGCAAGATGAAGCTACAAATCCTATACCCCTGAAGTTCCAGTAGGTCAGATTGAAATTACCATA
66 GAACAAAATGAAACTACAAATCCTACACCCCTGAAGTTCCAGTAGGTCAGATTGAAACTACAACA
*
20808166 GCGAAACTTATCTCT
131 ACGAAACTTATCTCT
* * * * *
20808181 CTGAAGTTGCAGTAGGTCGGATTGAAATTAC-CATAGCGAAACTTATCTCCCTGAAGTTGCAGTG
1 CTGAAGTTGCAGTAGGTCAGATTGAAACTACAAATAGCGAAACTTATCTCCCTAAAGTTACAGTG
** *
20808245 GAACAAAATGAAACTACAAATCCTACACCCCTGAAGTTGTAGT-GAGTCAGGTTGAAACTACAAC
66 GAACAAAATGAAACTACAAATCCTACACCCCTGAAGTTCCAGTAG-GTCAGATTGAAACTACAAC
20808309 AAC-AAATCTTATCTC-
130 AACGAAA-CTTATCTCT
20808324 CTTGAAGTTGCA
1 C-TGAAGTTGCA
20808336 ATAGAGCAAG
Statistics
Matches: 131, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
143 5 0.04
144 99 0.76
145 27 0.21
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (145 bp):
CTGAAGTTGCAGTAGGTCAGATTGAAACTACAAATAGCGAAACTTATCTCCCTAAAGTTACAGTG
GAACAAAATGAAACTACAAATCCTACACCCCTGAAGTTCCAGTAGGTCAGATTGAAACTACAACA
ACGAAACTTATCTCT
Found at i:20825534 original size:9 final size:9
Alignment explanation
Indices: 20825520--20825544 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
20825510 AACATTTACG
20825520 TTTTTTTAA
1 TTTTTTTAA
20825529 TTTTTTTAA
1 TTTTTTTAA
20825538 TTTTTTT
1 TTTTTTT
20825545 TTCTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:20828125 original size:24 final size:24
Alignment explanation
Indices: 20828098--20828147 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
20828088 TCTACCAAAG
20828098 ATTTTAAAGCATGAAGTCAAAACA
1 ATTTTAAAGCATGAAGTCAAAACA
20828122 ATTTTAAAGCATGAAGTCAAAACA
1 ATTTTAAAGCATGAAGTCAAAACA
20828146 AT
1 AT
20828148 CACTTATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (24 bp):
ATTTTAAAGCATGAAGTCAAAACA
Found at i:20830582 original size:18 final size:18
Alignment explanation
Indices: 20830561--20830603 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
20830551 ATTTTACATA
*
20830561 TTTTAAATTATTCTAATT
1 TTTTAAATTATTATAATT
* *
20830579 TTTTAAGTTATTATTATT
1 TTTTAAATTATTATAATT
20830597 TTTTAAA
1 TTTTAAA
20830604 AATATATAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTTAAATTATTATAATT
Found at i:20830733 original size:25 final size:25
Alignment explanation
Indices: 20830705--20830753 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
20830695 AACTGTAATA
20830705 TATAATTTATAAATATATAAAAACG
1 TATAATTTATAAATATATAAAAACG
* * *
20830730 TATAGTTTATAAATTTATATAAAC
1 TATAATTTATAAATATATAAAAAC
20830754 ACATAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (25 bp):
TATAATTTATAAATATATAAAAACG
Found at i:20831696 original size:21 final size:21
Alignment explanation
Indices: 20831672--20831713 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
20831662 ATGAAGTGGT
20831672 CACTCTACCGTTAAGCTCCGC
1 CACTCTACCGTTAAGCTCCGC
20831693 CACTCTACCGTTAAGCTCCGC
1 CACTCTACCGTTAAGCTCCGC
20831714 TACCTCCCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.43, G:0.14, T:0.24
Consensus pattern (21 bp):
CACTCTACCGTTAAGCTCCGC
Found at i:20832251 original size:32 final size:32
Alignment explanation
Indices: 20832210--20832278 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
20832200 TAAATGCTAT
* *
20832210 TTAAATAATTGACTATAATGATACATAAAATA
1 TTAAATAATTGAATATAATGATACACAAAATA
* *
20832242 TTAAATAATTTAATATAATGATATACAAAATA
1 TTAAATAATTGAATATAATGATACACAAAATA
20832274 -TAAAT
1 TTAAAT
20832279 TAATCTAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 5 0.15
32 28 0.85
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.36
Consensus pattern (32 bp):
TTAAATAATTGAATATAATGATACACAAAATA
Found at i:20843305 original size:18 final size:18
Alignment explanation
Indices: 20843268--20843305 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
20843258 TAAATGATGA
20843268 ATTTAAAATATTAGTTGTT
1 ATTTAAAATATTA-TTGTT
20843287 ATTTAAAAGTATT-TTGTT
1 ATTTAAAA-TATTATTGTT
20843305 A
1 A
20843306 AGTGATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 8 0.44
20 4 0.22
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.53
Consensus pattern (18 bp):
ATTTAAAATATTATTGTT
Found at i:20844020 original size:25 final size:24
Alignment explanation
Indices: 20843992--20844051 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
20843982 AGCGTCCCGA
20843992 TATATGGCTCTCCAGAACTTCCTGT
1 TATATGGCTCTCC-GAACTTCCTGT
* * *
20844017 TATATGGTTCTTGCGAGCTTCCTGT
1 TATATGGCTC-TCCGAACTTCCTGT
20844042 T-TATGGCTCT
1 TATATGGCTCT
20844052 TATGAGCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 7 0.23
25 20 0.67
26 2 0.07
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (24 bp):
TATATGGCTCTCCGAACTTCCTGT
Found at i:20844077 original size:25 final size:24
Alignment explanation
Indices: 20844044--20844184 Score: 115
Period size: 24 Copynumber: 5.8 Consensus size: 24
20844034 CTTCCTGTTT
20844044 ATGGCTCTTATGAGCTTCCCGATA
1 ATGGCTCTTATGAGCTTCCCGATA
** *
20844068 ATTGGCTCTTCGGAGCTTCTCGATA
1 A-TGGCTCTTATGAGCTTCCCGATA
* * *
20844093 ACTGACTCTTATGAGCTTCCTGATT
1 A-TGGCTCTTATGAGCTTCCCGATA
**
20844118 ATGGCTCTTCA-GAGCTTCCTAATA
1 ATGGCTCTT-ATGAGCTTCCCGATA
* * * * *
20844142 TTGGCTCGCT-TGAACTTTCCGATT
1 ATGGCTC-TTATGAGCTTCCCGATA
20844166 ATGGCTCTTATGAGCTTCC
1 ATGGCTCTTATGAGCTTCC
20844185 TATTATACAG
Statistics
Matches: 88, Mismatches: 24, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
23 1 0.01
24 46 0.52
25 41 0.47
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (24 bp):
ATGGCTCTTATGAGCTTCCCGATA
Found at i:20844203 original size:25 final size:26
Alignment explanation
Indices: 20844175--20844234 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
20844165 TATGGCTCTT
*
20844175 ATGAGCTTCCT-ATTATACAGCTCGA
1 ATGAGCTTCCTCATTATACAGCTCAA
**
20844200 ATGAGCTT-CTCATTATATGGCTCAA
1 ATGAGCTTCCTCATTATACAGCTCAA
*
20844225 AAGAGCTTCC
1 ATGAGCTTCC
20844235 CGTTTACATG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 2 0.07
25 26 0.90
26 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (26 bp):
ATGAGCTTCCTCATTATACAGCTCAA
Found at i:20844215 original size:48 final size:47
Alignment explanation
Indices: 20844103--20844215 Score: 104
Period size: 48 Copynumber: 2.3 Consensus size: 47
20844093 ACTGACTCTT
* ** *
20844103 ATGAGCTTCCTGATTATGGCTCTTCAGAGCTTCCTAATATTGGCTCGC
1 ATGAGCTT-CTCATTATGGCTCTTCAGAGCTTCCTAATATCAGCTCGA
* * *
20844151 TTGAACTT-TCCGATTATGGCTCTT-ATGAGCTTCCTATTATACAGCTCGA
1 ATGAGCTTCT-C-ATTATGGCTCTTCA-GAGCTTCCTAATAT-CAGCTCGA
20844200 ATGAGCTTCTCATTAT
1 ATGAGCTTCTCATTAT
20844216 ATGGCTCAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
46 1 0.02
47 1 0.02
48 36 0.71
49 12 0.24
50 1 0.02
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (47 bp):
ATGAGCTTCTCATTATGGCTCTTCAGAGCTTCCTAATATCAGCTCGA
Found at i:20848323 original size:43 final size:44
Alignment explanation
Indices: 20848275--20848371 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 44
20848265 TGTTTTCCCT
* * *
20848275 CAAACGCCATTATAGAACATGATCTTTAGTAGCGATTTTA-CTA
1 CAAACGCCACTAAAGAACATGATCTTTAGTAGCGATTCTAGCTA
** * *
20848318 CAAACGCTGCTAAAGAACATGATCTTTTGTGGCGATTCTAGCTA
1 CAAACGCCACTAAAGAACATGATCTTTAGTAGCGATTCTAGCTA
20848362 CAAACGCCAC
1 CAAACGCCAC
20848372 AACATGCTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
43 33 0.75
44 11 0.25
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (44 bp):
CAAACGCCACTAAAGAACATGATCTTTAGTAGCGATTCTAGCTA
Found at i:20849695 original size:19 final size:19
Alignment explanation
Indices: 20849667--20849711 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
20849657 TATATTTTTC
* *
20849667 AAAAAA-TATAAATATTAT
1 AAAAAATTATAAAGAATAT
20849685 AAAAAATTATAAAGAATAT
1 AAAAAATTATAAAGAATAT
20849704 ATAAAAAT
1 A-AAAAAT
20849712 GTTAAGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 6 0.26
19 11 0.48
20 6 0.26
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAAATTATAAAGAATAT
Found at i:20854160 original size:60 final size:60
Alignment explanation
Indices: 20854049--20854163 Score: 144
Period size: 60 Copynumber: 1.9 Consensus size: 60
20854039 TTTCAGGAAT
* * * *
20854049 TAACTTTGATAAAAAAAAAGTTGAACTCCCAATGAGAAAATATTTGCCAAGTTCAAGGCC
1 TAACTTGGATAAAAAAAAAGTTAAACTCCCAATGAGAAAATAATTACCAAGTTCAAGGCC
* *
20854109 TAACTTGGATAAAAGAAAAGTTTAAAC-CCCAAT-ATGAAAATAATTATCAAGTTCA
1 TAACTTGGATAAAAAAAAAG-TTAAACTCCCAATGA-GAAAATAATTACCAAGTTCA
20854164 GTGTTTAACT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 1 0.02
60 41 0.87
61 5 0.11
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (60 bp):
TAACTTGGATAAAAAAAAAGTTAAACTCCCAATGAGAAAATAATTACCAAGTTCAAGGCC
Found at i:20854173 original size:60 final size:60
Alignment explanation
Indices: 20854048--20854186 Score: 140
Period size: 60 Copynumber: 2.3 Consensus size: 60
20854038 TTTTCAGGAA
* * * *
20854048 TTAACTTTGATAAAAAAAAAGTTGAACTCCCAATGAGAAAATATTTGCCAAGTTCAAGGC
1 TTAACTTGGATAAAAAAAAAGTTAAACTCCCAATGAGAAAATAATTACCAAGTTCAAGGC
* * * *
20854108 CTAACTTGGATAAAAGAAAAGTTTAAAC-CCCAAT-ATGAAAATAATTATCAAGTTC-AGTGT
1 TTAACTTGGATAAAAAAAAAG-TTAAACTCCCAATGA-GAAAATAATTACCAAGTTCAAG-GC
*
20854168 TTAACTTAGGTTAAAAAAA
1 TTAACTT-GGATAAAAAAA
20854187 TTCAGGCCCC
Statistics
Matches: 64, Mismatches: 11, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
59 3 0.05
60 47 0.73
61 14 0.22
ACGTcount: A:0.45, C:0.13, G:0.14, T:0.28
Consensus pattern (60 bp):
TTAACTTGGATAAAAAAAAAGTTAAACTCCCAATGAGAAAATAATTACCAAGTTCAAGGC
Found at i:20856680 original size:21 final size:21
Alignment explanation
Indices: 20856650--20856691 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
20856640 TTTACATTAG
20856650 TGTCTAGAGA-CATCAAGAACA
1 TGTCTAGAGACCAT-AAGAACA
*
20856671 TGTCTTGAGACCATAAGAACA
1 TGTCTAGAGACCATAAGAACA
20856692 AATTTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.21
Consensus pattern (21 bp):
TGTCTAGAGACCATAAGAACA
Found at i:20856927 original size:23 final size:22
Alignment explanation
Indices: 20856901--20856944 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
20856891 ATACAAAAAC
*
20856901 AAGGGAACATTGCCTCGAGACAT
1 AAGGGAA-AATGCCTCGAGACAT
*
20856924 AAGGGAAAATGTCTCGAGACA
1 AAGGGAAAATGCCTCGAGACA
20856945 AAAATCCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.39, C:0.18, G:0.27, T:0.16
Consensus pattern (22 bp):
AAGGGAAAATGCCTCGAGACAT
Found at i:20858780 original size:51 final size:51
Alignment explanation
Indices: 20858712--20858811 Score: 141
Period size: 51 Copynumber: 2.0 Consensus size: 51
20858702 TCTATTATTC
*
20858712 TCTCAATTTCCTCTCAATTTCCT-TCCAAATTTCTCTCAAATCC-CTATTTAA
1 TCTCAATTTCATCTCAATTTCCTCT-CAAATTTCTCTCAAA-CCGCTATTTAA
* *
20858763 TCTCAATTTGATCTCAATTTCCTCTCAAATTTCTCTTAAACCGCTATTT
1 TCTCAATTTCATCTCAATTTCCTCTCAAATTTCTCTCAAACCGCTATTT
20858812 TTAAATTATT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
50 2 0.05
51 41 0.93
52 1 0.02
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.44
Consensus pattern (51 bp):
TCTCAATTTCATCTCAATTTCCTCTCAAATTTCTCTCAAACCGCTATTTAA
Found at i:20858798 original size:11 final size:11
Alignment explanation
Indices: 20858711--20858795 Score: 56
Period size: 11 Copynumber: 8.0 Consensus size: 11
20858701 CTCTATTATT
20858711 CTCTCAATTTC
1 CTCTCAATTTC
20858722 CTCTCAATTTC
1 CTCTCAATTTC
20858733 CT-TCCAAATTT-
1 CTCT-C-AATTTC
*
20858744 CTCTCAA-ATC
1 CTCTCAATTTC
*
20858754 C-CT--ATTTA
1 CTCTCAATTTC
* *
20858762 ATCTCAATTTG
1 CTCTCAATTTC
*
20858773 ATCTCAATTTC
1 CTCTCAATTTC
20858784 CTCTCAAATTTC
1 CTCTC-AATTTC
20858796 TCTTAAACCG
Statistics
Matches: 58, Mismatches: 7, Indels: 17
0.71 0.09 0.21
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 5 0.09
10 4 0.07
11 35 0.60
12 12 0.21
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:20859015 original size:25 final size:26
Alignment explanation
Indices: 20858952--20859016 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
20858942 ATGGTAAGTG
20858952 TTAAATTTA-T-TTTTTAAATATTAT
1 TTAAATTTATTATTTTTAAATATTAT
*
20858976 TTAAGATTTTTTATTTTTAAATAATTA-
1 TTAA-ATTTATTATTTTTAAAT-ATTAT
20859003 TT-AATTTATTATTT
1 TTAAATTTATTATTT
20859017 GTTATAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
24 4 0.11
25 14 0.40
26 2 0.06
27 11 0.31
28 4 0.11
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (26 bp):
TTAAATTTATTATTTTTAAATATTAT
Found at i:20860421 original size:18 final size:18
Alignment explanation
Indices: 20860398--20860440 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
20860388 TGCCAGATGC
* *
20860398 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
20860416 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
20860434 GTTTCCT
1 GTATCCT
20860441 TTTCTGAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:20860727 original size:21 final size:21
Alignment explanation
Indices: 20860681--20860728 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
20860671 CCAACACCGA
*
20860681 CAACCAGATACCCTACCAGAG
1 CAACCAGATACCCCACCAGAG
* *
20860702 GAACCAGA-ATCCCCACCGGAG
1 CAACCAGATA-CCCCACCAGAG
20860723 CAACCA
1 CAACCA
20860729 CAACCCCCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.38, C:0.40, G:0.17, T:0.06
Consensus pattern (21 bp):
CAACCAGATACCCCACCAGAG
Found at i:20869412 original size:15 final size:17
Alignment explanation
Indices: 20869392--20869428 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
20869382 ATAAATATGA
20869392 TATTTTT-ATTTCT-TT
1 TATTTTTAATTTCTGTT
*
20869407 TATTTTTAATTTTTGTT
1 TATTTTTAATTTCTGTT
20869424 TATTT
1 TATTT
20869429 ATTGTTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 5 0.26
17 7 0.37
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (17 bp):
TATTTTTAATTTCTGTT
Found at i:20869456 original size:30 final size:26
Alignment explanation
Indices: 20869394--20869458 Score: 76
Period size: 26 Copynumber: 2.3 Consensus size: 26
20869384 AAATATGATA
*
20869394 TTTTTATTTCTTTTATTTTTAATTTT
1 TTTTTATTTATTTTATTTTTAATTTT
*
20869420 TGTTTATTTATTGTTATTTGTTTAATTTCT
1 TTTTTATTTATT-TTA-TT-TTTAATTT-T
20869450 TTTTTATTT
1 TTTTTATTT
20869459 GTAAGTTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 10 0.31
27 3 0.09
28 2 0.06
29 8 0.25
30 9 0.28
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (26 bp):
TTTTTATTTATTTTATTTTTAATTTT
Found at i:20889655 original size:20 final size:19
Alignment explanation
Indices: 20889630--20889670 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
20889620 CCAATATAGT
*
20889630 GGTCAATGCTCTTAGTTGAA
1 GGTCAATGCTC-GAGTTGAA
*
20889650 GGTCAATGTTCGAGTTGAA
1 GGTCAATGCTCGAGTTGAA
20889669 GG
1 GG
20889671 CGATTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (19 bp):
GGTCAATGCTCGAGTTGAA
Found at i:20900400 original size:18 final size:18
Alignment explanation
Indices: 20900366--20900400 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20900356 TTAGAGTTTA
* *
20900366 TATCTAAATTTATTTAAT
1 TATCTAAATTAAATTAAT
20900384 TATCTAAATTAAATTAA
1 TATCTAAATTAAATTAA
20900401 ACTACGATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
TATCTAAATTAAATTAAT
Found at i:20901621 original size:73 final size:73
Alignment explanation
Indices: 20901544--20901689 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
20901534 ACAAATCTTA
20901544 TGTCCATCAAGCAATATATGGATTTAATCTCCGAAGAAAAACTCCACATGCAAACTATGTAACCC
1 TGTCCATCAAGCAATATATGGATTTAATCTCCGAAGAAAAACTCCACATGCAAACTATGTAACCC
20901609 ATTATTAT
66 ATTATTAT
20901617 TGTCCATCAAGCAATATATGGATTTAATCTCCGAAGAAAAACTCCACATGCAAACTATGTAACCC
1 TGTCCATCAAGCAATATATGGATTTAATCTCCGAAGAAAAACTCCACATGCAAACTATGTAACCC
20901682 ATTATTAT
66 ATTATTAT
20901690 ATCTATATGT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (73 bp):
TGTCCATCAAGCAATATATGGATTTAATCTCCGAAGAAAAACTCCACATGCAAACTATGTAACCC
ATTATTAT
Found at i:20903315 original size:22 final size:21
Alignment explanation
Indices: 20903290--20903332 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
20903280 GAGACTAATT
20903290 TAAAACAATTCAAAAA-TTTTGA
1 TAAAA-AATT-AAAAACTTTTGA
*
20903312 TAAAAAGTTAAAAACTTTTGA
1 TAAAAAATTAAAAACTTTTGA
20903333 AAACATGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (21 bp):
TAAAAAATTAAAAACTTTTGA
Found at i:20908056 original size:91 final size:92
Alignment explanation
Indices: 20907941--20908169 Score: 311
Period size: 92 Copynumber: 2.5 Consensus size: 92
20907931 TAATATTAGT
* *
20907941 TGTGATATTAAATTAGCGAGCTATTTGGAGTAACGATAGTAAATCAGCTAACTCA-AAGATT-TT
1 TGTGATCTTAAATTAGCGAGCTATTTGGAGTAACGATAGAAAATCAGCTAACTCAGAAGATTATT
20908004 TCATGATAGTAAATCAATGAACTTAGGC
66 T-ATGATAGTAAATCAATGAACTTAGGC
* * * *
20908032 TGTGATCTTAAATCAGCGAGCTATTCGGAGTAACGGA-AGAAAATCAGTTAACTTAGAAGATTAT
1 TGTGATCTTAAATTAGCGAGCTATTTGGAGTAAC-GATAGAAAATCAGCTAACTCAGAAGATTAT
*
20908096 TTATGATAGTAAATCAATGAACTTAGGT
65 TTATGATAGTAAATCAATGAACTTAGGC
* * * * *
20908124 TGTGATCTTAAATTAGTGAACTGTTTGGAGTAGCGATACAAAATCA
1 TGTGATCTTAAATTAGCGAGCTATTTGGAGTAACGATAGAAAATCA
20908170 ACTGTTAGAT
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
91 48 0.40
92 69 0.57
93 3 0.03
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (92 bp):
TGTGATCTTAAATTAGCGAGCTATTTGGAGTAACGATAGAAAATCAGCTAACTCAGAAGATTATT
TATGATAGTAAATCAATGAACTTAGGC
Found at i:20915728 original size:13 final size:15
Alignment explanation
Indices: 20915710--20915741 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
20915700 GAAAGGGAAG
20915710 GAGAAGAA-AAGAA-
1 GAGAAGAAGAAGAAT
20915723 GAGAAGAAGAAGAAT
1 GAGAAGAAGAAGAAT
20915738 GAGA
1 GAGA
20915742 GGGTGGGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 5 0.29
15 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.34, T:0.03
Consensus pattern (15 bp):
GAGAAGAAGAAGAAT
Found at i:20918964 original size:62 final size:62
Alignment explanation
Indices: 20918883--20919001 Score: 193
Period size: 62 Copynumber: 1.9 Consensus size: 62
20918873 TTTATTTGTA
* * *
20918883 ATATAAATTAAATACATTACATCACTAAAAATTGGAACCAACATTGTAATATAAATTGTGTT
1 ATATAAATTAAATACATTACAACACTAAAAATTGGAACAAACATTATAATATAAATTGTGTT
* *
20918945 ATATAAATTAAATACATTACAACATTAAAAATTGGAACAAACTTTATAATATAAATT
1 ATATAAATTAAATACATTACAACACTAAAAATTGGAACAAACATTATAATATAAATT
20919002 AGGTACATTG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (62 bp):
ATATAAATTAAATACATTACAACACTAAAAATTGGAACAAACATTATAATATAAATTGTGTT
Found at i:20922264 original size:27 final size:27
Alignment explanation
Indices: 20922233--20922295 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
20922223 CTAGGTGTGT
20922233 CGCCTATCAGATAGGCACCACTAGTGC
1 CGCCTATCAGATAGGCACCACTAGTGC
*** *
20922260 CGCCTATCAGATAGGGGTCACTGGTGC
1 CGCCTATCAGATAGGCACCACTAGTGC
20922287 CGCCTATCA
1 CGCCTATCA
20922296 AGTAGACACC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.22, C:0.32, G:0.25, T:0.21
Consensus pattern (27 bp):
CGCCTATCAGATAGGCACCACTAGTGC
Found at i:20923476 original size:17 final size:17
Alignment explanation
Indices: 20923449--20923483 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20923439 ATAAAATAAG
20923449 ATTTTTATTATT-TTTA
1 ATTTTTATTATTATTTA
20923465 ATTTTATATTATTATTTA
1 ATTTT-TATTATTATTTA
20923483 A
1 A
20923484 AGACTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 7 0.41
18 5 0.29
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTATTATTATTTA
Found at i:20923639 original size:22 final size:20
Alignment explanation
Indices: 20923603--20923648 Score: 74
Period size: 22 Copynumber: 2.2 Consensus size: 20
20923593 ACAAATATGA
20923603 ATATAAATAAATAAATATTT
1 ATATAAATAAATAAATATTT
20923623 ATATAAAATAAAATAAATATTT
1 ATAT-AAAT-AAATAAATATTT
20923645 ATAT
1 ATAT
20923649 TTAGAATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.17
21 4 0.17
22 16 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
ATATAAATAAATAAATATTT
Found at i:20924098 original size:20 final size:20
Alignment explanation
Indices: 20924073--20924121 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
20924063 AGGAGTCATT
*
20924073 AAATCAATTTGATTAAAATC
1 AAATCAAATTGATTAAAATC
**
20924093 AAATCAAATTGATTGGAATC
1 AAATCAAATTGATTAAAATC
*
20924113 AAATAAAAT
1 AAATCAAAT
20924122 CAAGATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATC
Found at i:20924812 original size:377 final size:375
Alignment explanation
Indices: 20924113--20925873 Score: 2224
Period size: 377 Copynumber: 4.7 Consensus size: 375
20924103 GATTGGAATC
* * * * * *
20924113 AAATAAAATCAAGATAAAAT-TCCTTTTATAAATAGATTCTTTATGTTTGCTGAGAAAAATTAAC
1 AAATCAAATCAAGAT-AAATGTCCTTTTAAAAACAGATTATTTATGTTTGTTGAGAAAAAATAAC
* * * ** *
20924177 TTTCGTGCTGGGCTAAAATATCCGCAGGCCCATTTTGCGCCCGACTAGTCTAGACATTTCGCATC
65 TTTCGTGTTGGGCTAAAATATCCGCAGGCCCATTTTGGGCCCGACTGGTCCGGACATTTCGCGTC
* * *
20924242 GCCCACGTTGTGCTGGTGCACCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGCGCAAGA
130 GCCCACGTTGTGC-GGTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGTGCAAGG
* * * *
20924307 CAATGTTTCGAGCTTAGTCATTCAATCACTCTTCAAGTGGATTCTCATATATATTTGTGCTTTTT
194 CAAGGTTTCAAGCTTAGTCATTCAATCACCCTTCAAGTGGGTTCTCATATATATTTGTG-TTTTT
*
20924372 TTTAATTCTGAAGAATTCTTTAGGCTTTTATAGGCATTAAATATGAAGGTATTTTGGAAATTTCC
258 TTTAATTCTGAAGAATTCTTTAGGCTTTTATAGGCATTCAATATGAAGGTATTTTGGAAATTTCC
* *
20924437 ATGAATAAAGATACAAAATCTGCAATAAATAAGTCATTAAATCAATTTGATTA
323 ATGAATAAAGATACAAAATCTGCATTAAATGAGTCATTAAATCAATTTGATTA
* *
20924490 CAATCAAATCAAGATAAATGT-CTATTTAAAAACAGATTCTTTATGTTTGTTGAGAAAAAATAAC
1 AAATCAAATCAAGATAAATGTCCT-TTTAAAAACAGATTATTTATGTTTGTTGAGAAAAAATAAC
* * * * * * *
20924554 TTTCGTGCTGGGCTAAAATATTCGCATGCCCATTTTGTGCTCGACTGGTCCAGACGTTTCGCGTC
65 TTTCGTGTTGGGCTAAAATATCCGCAGGCCCATTTTGGGCCCGACTGGTCCGGACATTTCGCGTC
*
20924619 GCCCACGTTGTGCTGGTGCACCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGTGCAAGG
130 GCCCACGTTGTGC-GGTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGTGCAAGG
* *
20924684 CAAGGTTTCAAGCTTAGTCATTCAATCACTCTTCAAGTGGATTCTCATATATATTTGTGTTTTTT
194 CAAGGTTTCAAGCTTAGTCATTCAATCACCCTTCAAGTGGGTTCTCATATATATTTGTGTTTTTT
20924749 TTAAATTCTGAAGAATTCTTTAGGCTTTTATAGGCATTCAATATGAAGGTATTTTGGAAATTTCC
259 TT-AATTCTGAAGAATTCTTTAGGCTTTTATAGGCATTCAATATGAAGGTATTTTGGAAATTTCC
* * *
20924814 ATGAATAAAGATACAAAATCTGCATTAAAGGAGCCATTGAATCAATTTGATTA
323 ATGAATAAAGATACAAAATCTGCATTAAATGAGTCATTAAATCAATTTGATTA
*
20924867 AAATCAAATCAAGATAAATGTCCTTTTAAAAACAGATT-TTGTATGTTTGCTGAGAAAAAATAAC
1 AAATCAAATCAAGATAAATGTCCTTTTAAAAACAGATTATT-TATGTTTGTTGAGAAAAAATAAC
* ** * * * * *
20924931 TTTCGTGTTGGGCT-AACTATCCGCAGGCCCATTTTGGGCTAGATTGGTCTGGACATTTTGAGTT
65 TTTCGTGTTGGGCTAAAATATCCGCAGGCCCATTTTGGGCCCGACTGGTCCGGACATTTCGCGTC
* * * * *
20924995 GCCTATGTCGTGCGAGTGTGCCCCAACCCCGATAGGTTTGGATCTGCAACCCCCTACGCT-CAAG
130 GCCCACGTTGTGCG-GTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACG-TGCAAG
* * * * * *
20925059 GCAGGGTTTCAAGCTTAGTCATCCAATCACCTTTCAAGTGGGTTCTTATATATATTGGGGTTCTT
193 GCAAGGTTTCAAGCTTAGTCATTCAATCACCCTTCAAGTGGGTTCTCATATATATTTGTGTT-TT
* * *
20925124 TCTTAAAATTCTGAAGAATTCTTTAGGCTTTTATAGGTATTCAATATGGAGGTATTTTGGAAATT
257 T-TT-TAATTCTGAAGAATTCTTTAGGCTTTTATAGGCATTCAATATGAAGGTATTTTGGAAATT
* * *
20925189 TCTATGAATAAAGATACAAAATTTGCATTAAATGAGTCATTAAATCAATTTCATTA
320 TCCATGAATAAAGATACAAAATCTGCATTAAATGAGTCATTAAATCAATTTGATTA
* * *
20925245 AAATCAAATCAAGATAAATGTCCTTTTAAAAATAGATTATGTATGTCTGTTGAGAAAAAAATAAC
1 AAATCAAATCAAGATAAATGTCCTTTTAAAAACAGATTATTTATGTTTGTTGAG-AAAAAATAAC
* * * * ** * * * *
20925310 TTTCGTGTTGGGATAAAATATCCGTAGGCCTATTTTTGGCCTAACCGTTCCGGACATTTCCCATC
65 TTTCGTGTTGGGCTAAAATATCCGCAGGCCCATTTTGGGCCCGACTGGTCCGGACATTTCGCGTC
* * ** * * * * * *
20925375 ACCTATATCGTTCGAGTGCGCCCCAACCCTGATAGGTTTGGATTTGC-ACCCCCTGA-GCGCGAA
130 GCCCACGTTGTGCG-GTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCT-ACGTGC-AA
* *
20925438 -GCAAGGTTTCAAGCTTAGTCATTCAATCACCCTTCAAGTGGGTTCTCGTATATATTAGTGTTTT
192 GGCAAGGTTTCAAGCTTAGTCATTCAATCACCCTTCAAGTGGGTTCTCATATATATTTGTGTTTT
* * * * * *
20925502 TTTTTATTCTGAGGAATTCTTTAGGCTTTTATAGACATTGAATATGGAGGTATTTTGGAAATTTT
257 TTTTAATTCTGAAGAATTCTTTAGGCTTTTATAGGCATTCAATATGAAGGTATTTTGGAAATTTC
* *
20925567 CATGAATAAATATACAAAATATGCATTAAATGAGTCATTAAATCAATTTGATTTGAA
322 CATGAATAAAGATACAAAATCTGCATTAAATGAGTCATTAAATCAATTTGA-TT--A
* *
20925624 TCAAATAAAATCAAGATAAATGTCCTTTTAAAAACAGATTATGTATGTTTGTTGAGAAAAAATAA
1 --AAATCAAATCAAGATAAATGTCCTTTTAAAAACAGATTATTTATGTTTGTTGAGAAAAAATAA
* * * * * * *
20925689 CTTTCGTGTTGGGCTAAAATATTCGCAAGCCCAATTTGGGCCCGATTAGTTCGGACATTTTGCGT
64 CTTTCGTGTTGGGCTAAAATATCCGCAGGCCCATTTTGGGCCCGACTGGTCCGGACATTTCGCGT
* * * * * **
20925754 CGCCCACATTGTGCGGGTGCGCTCCAACCCCGATGGGTTTGGATTTGTAACCCCCAACGTGTGAG
129 CGCCCACGTTGTGC-GGTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGTGCAAG
* ** *
20925819 GTAAAATTTCAAGCTTAGTTATTCAATCACCCTTCAAGTGGGTTCTCATATATAT
193 GCAAGGTTTCAAGCTTAGTCATTCAATCACCCTTCAAGTGGGTTCTCATATATAT
20925874 ACACATCTCA
Statistics
Matches: 1213, Mismatches: 146, Indels: 46
0.86 0.10 0.03
Matches are distributed among these distances:
375 1 0.00
376 264 0.22
377 413 0.34
378 162 0.13
379 89 0.07
380 174 0.14
381 110 0.09
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (375 bp):
AAATCAAATCAAGATAAATGTCCTTTTAAAAACAGATTATTTATGTTTGTTGAGAAAAAATAACT
TTCGTGTTGGGCTAAAATATCCGCAGGCCCATTTTGGGCCCGACTGGTCCGGACATTTCGCGTCG
CCCACGTTGTGCGGTGCGCCCCAACCCCGATGGGTTTGGATCTGCAACCCCCTACGTGCAAGGCA
AGGTTTCAAGCTTAGTCATTCAATCACCCTTCAAGTGGGTTCTCATATATATTTGTGTTTTTTTT
AATTCTGAAGAATTCTTTAGGCTTTTATAGGCATTCAATATGAAGGTATTTTGGAAATTTCCATG
AATAAAGATACAAAATCTGCATTAAATGAGTCATTAAATCAATTTGATTA
Found at i:20926966 original size:4 final size:4
Alignment explanation
Indices: 20926959--20926996 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
20926949 TATTTTAGAT
20926959 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
20926997 TGAGAATCAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:20928720 original size:34 final size:34
Alignment explanation
Indices: 20928659--20928849 Score: 177
Period size: 34 Copynumber: 5.6 Consensus size: 34
20928649 GCAATATGGA
* * * * *
20928659 ATGCTTATGATAGATTAATACGATAGCATTTAAT
1 ATGCTTATAACAGATCAATACGGTAGCAATTAAT
* * * *
20928693 ATGCTTATAATAGTTCAATATGGTAGCAAATAAT
1 ATGCTTATAACAGATCAATACGGTAGCAATTAAT
* * *
20928727 ATACTTATAACGGATCAATACGGTAGTAATTAAT
1 ATGCTTATAACAGATCAATACGGTAGCAATTAAT
* ** * *
20928761 ATGCTTATAACAGATCAATAAGGTAAAAACTAAC
1 ATGCTTATAACAGATCAATACGGTAGCAATTAAT
* *
20928795 ATGCTTATAACAGATCAATGCGGT-GCCAAATAAT
1 ATGCTTATAACAGATCAATACGGTAG-CAATTAAT
* *
20928829 ATGTTTATAACAAATCAATAC
1 ATGCTTATAACAGATCAATAC
20928850 AATAGAAAAA
Statistics
Matches: 126, Mismatches: 30, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
34 126 1.00
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (34 bp):
ATGCTTATAACAGATCAATACGGTAGCAATTAAT
Found at i:20940329 original size:34 final size:34
Alignment explanation
Indices: 20940156--20940331 Score: 106
Period size: 34 Copynumber: 5.2 Consensus size: 34
20940146 CTTACGACAG
* * *
20940156 ATCAATACGATAACATTTAATATGCTTATAACAA
1 ATCAATACGGTAACAATTAATATGATTATAACAA
* * * * * * * ***
20940190 TTCGACACAGTAGCAAATAATATGATCATAATGG
1 ATCAATACGGTAACAATTAATATGATTATAACAA
***
20940224 ATCAATACGGTGGTAATTAATAT-ACTTATAACAGA
1 ATCAATACGGTAACAATTAATATGA-TTATAACA-A
* * * * *
20940259 AT-AATACGTTAGCAA-TAACATGATTATAATAG
1 ATCAATACGGTAACAATTAATATGATTATAACAA
* *
20940291 ATCAATGCGGTAACAATTAATATGTTTATAACAA
1 ATCAATACGGTAACAATTAATATGATTATAACAA
20940325 ATCAATA
1 ATCAATA
20940332 TAGTAGCAAA
Statistics
Matches: 99, Mismatches: 38, Indels: 10
0.67 0.26 0.07
Matches are distributed among these distances:
32 2 0.02
33 23 0.23
34 72 0.73
35 2 0.02
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (34 bp):
ATCAATACGGTAACAATTAATATGATTATAACAA
Found at i:20940339 original size:67 final size:66
Alignment explanation
Indices: 20940154--20940340 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 66
20940144 TGCTTACGAC
* * * * * *
20940154 AGATCAATACGATAACATTTAATATGCTTATAACAATTCGACACAGTAGCAAATAATATGATCAT
1 AGATCAATACGGTAACAATTAATATGCTTATAACAAATCAATA-AGTAGC-AATAACATGATCAT
20940219 AAT
64 AAT
* *** * * *
20940222 GGATCAATACGGTGGTAATTAATATACTTATAACAGAAT-AATACGTTAGCAATAACATGATTAT
1 AGATCAATACGGTAACAATTAATATGCTTATAACA-AATCAATAAG-TAGCAATAACATGATCAT
20940286 AAT
64 AAT
* *
20940289 AGATCAATGCGGTAACAATTAATATGTTTATAACAAATCAATATAGTAGCAA
1 AGATCAATACGGTAACAATTAATATGCTTATAACAAATCAATA-AGTAGCAA
20940341 AAGACATGCT
Statistics
Matches: 94, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
66 3 0.03
67 54 0.57
68 35 0.37
69 2 0.02
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (66 bp):
AGATCAATACGGTAACAATTAATATGCTTATAACAAATCAATAAGTAGCAATAACATGATCATAA
T
Found at i:20942390 original size:24 final size:24
Alignment explanation
Indices: 20942363--20942445 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 24
20942353 ATAACATCTA
20942363 ATTAATAGTGAAACCTTCATCAAT
1 ATTAATAGTGAAACCTTCATCAAT
** * *
20942387 ATTAAAATATGTGTTTAAAAATAACATCTA-
1 ATT--AATA-GTG---AAACCT-TCATCAAT
20942417 ATTAATAGTGAAACCTTCATCAAT
1 ATTAATAGTGAAACCTTCATCAAT
20942441 ATTAA
1 ATTAA
20942446 AAATATAGTT
Statistics
Matches: 43, Mismatches: 8, Indels: 16
0.64 0.12 0.24
Matches are distributed among these distances:
23 5 0.12
24 12 0.28
26 4 0.09
27 6 0.14
28 4 0.09
30 7 0.16
31 5 0.12
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (24 bp):
ATTAATAGTGAAACCTTCATCAAT
Found at i:20942422 original size:54 final size:54
Alignment explanation
Indices: 20942340--20942447 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
20942330 AAAATACAAG
20942340 TATGTGTTTAAAAATAACATCTAATTAATAGTGAAACCTTCATCAATATTAAAA
1 TATGTGTTTAAAAATAACATCTAATTAATAGTGAAACCTTCATCAATATTAAAA
20942394 TATGTGTTTAAAAATAACATCTAATTAATAGTGAAACCTTCATCAATATTAAAA
1 TATGTGTTTAAAAATAACATCTAATTAATAGTGAAACCTTCATCAATATTAAAA
20942448 ATATAGTTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.35
Consensus pattern (54 bp):
TATGTGTTTAAAAATAACATCTAATTAATAGTGAAACCTTCATCAATATTAAAA
Found at i:20942463 original size:54 final size:54
Alignment explanation
Indices: 20942340--20942461 Score: 201
Period size: 54 Copynumber: 2.2 Consensus size: 54
20942330 AAAATACAAG
*
20942340 TATGTGTTTAAAAATAACATCTAATTAATAGTGAAACCTTCATCAATATTAAAA
1 TATGTGTATAAAAATAACATCTAATTAATAGTGAAACCTTCATCAATATTAAAA
*
20942394 TATGTGTTTAAAAATAACATCTAATTAATAGTGAAACCTTCATCAATATTAAAAA
1 TATGTGTATAAAAATAACATCTAATTAATAGTGAAACCTTCATCAATATT-AAAA
20942449 TATAGT-TATAAAA
1 TAT-GTGTATAAAA
20942462 TATTCATTTA
Statistics
Matches: 65, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
54 50 0.77
55 13 0.20
56 2 0.03
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (54 bp):
TATGTGTATAAAAATAACATCTAATTAATAGTGAAACCTTCATCAATATTAAAA
Found at i:20942697 original size:7 final size:7
Alignment explanation
Indices: 20942685--20942710 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20942675 TCAAATATAT
20942685 TAAAATG
1 TAAAATG
20942692 TAAAATG
1 TAAAATG
20942699 TAAAATG
1 TAAAATG
20942706 TAAAA
1 TAAAA
20942711 AATATTCACA
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:0.62, C:0.00, G:0.12, T:0.27
Consensus pattern (7 bp):
TAAAATG
Found at i:20944099 original size:22 final size:22
Alignment explanation
Indices: 20944069--20944128 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
20944059 GTGCAGGTTT
* * *
20944069 AGCAGTTTTGTGCTCTCTGTTC
1 AGCACTTTTGTGCTCTCTATGC
* *
20944091 AGCACTTTTGCGCTCTTTATGC
1 AGCACTTTTGTGCTCTCTATGC
20944113 AGCAC-TTTGCTGCTCT
1 AGCACTTTTG-TGCTCT
20944129 TTGCTTAGCA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.12, C:0.27, G:0.20, T:0.42
Consensus pattern (22 bp):
AGCACTTTTGTGCTCTCTATGC
Found at i:20958238 original size:20 final size:20
Alignment explanation
Indices: 20958215--20958252 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20958205 GCCTAGGTCG
*
20958215 CATTCTATTAGCCTTTGTGA
1 CATTATATTAGCCTTTGTGA
*
20958235 CATTATGTTAGCCTTTGT
1 CATTATATTAGCCTTTGT
20958253 AGTGTACTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.47
Consensus pattern (20 bp):
CATTATATTAGCCTTTGTGA
Found at i:20964603 original size:26 final size:26
Alignment explanation
Indices: 20964530--20964589 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
20964520 ATATTTTCTA
* *
20964530 AAAATTTTACC-GAAGGCAAAATCATC
1 AAAATTTTACCAG-GGGTAAAATCATC
*
20964556 GAAATTTTACCAGGGGTAAAATCATC
1 AAAATTTTACCAGGGGTAAAATCATC
20964582 AAAATTTT
1 AAAATTTT
20964590 GATGAGGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.28
Consensus pattern (26 bp):
AAAATTTTACCAGGGGTAAAATCATC
Found at i:20967937 original size:27 final size:27
Alignment explanation
Indices: 20967907--20967983 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
20967897 AATGCACCAG
*
20967907 AGTGCCAATATCAATGATTTGCATTGA
1 AGTGCCAATATCAATGATTTGCATCGA
*
20967934 AGTGCCAATATCATTG-TGTTGCATCGA
1 AGTGCCAATATCAATGAT-TTGCATCGA
* * * *
20967961 AGGGCTAATATCACTAATTTGCA
1 AGTGCCAATATCAATGATTTGCA
20967984 CCAAATCCCC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.32
Consensus pattern (27 bp):
AGTGCCAATATCAATGATTTGCATCGA
Found at i:20969357 original size:11 final size:11
Alignment explanation
Indices: 20969341--20969383 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
20969331 CCTAAAATAC
20969341 ATAAAATATTA
1 ATAAAATATTA
20969352 ATAAAATATCTTA
1 ATAAAATA--TTA
20969365 ATAAAATATTA
1 ATAAAATATTA
*
20969376 TTAAAATA
1 ATAAAATA
20969384 ATTTCACCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
11 18 0.62
13 11 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
ATAAAATATTA
Found at i:20973693 original size:13 final size:13
Alignment explanation
Indices: 20973675--20973700 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20973665 TATCATGTGG
20973675 CATGTTTTATATA
1 CATGTTTTATATA
20973688 CATGTTTTATATA
1 CATGTTTTATATA
20973701 TCAATTCCAT
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:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (13 bp):
CATGTTTTATATA
Found at i:20974394 original size:22 final size:22
Alignment explanation
Indices: 20974339--20974396 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
20974329 AGTGTTTAAA
**
20974339 CAATAGGCACCAAAATGCTGAG
1 CAATAGGCACCGTAATGCTGAG
*
20974361 CAATAGGCACCGTAATG-TGAAT
1 CAATAGGCACCGTAATGCTG-AG
20974383 CAATAGGCACCGTA
1 CAATAGGCACCGTA
20974397 GTGCAAATCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (22 bp):
CAATAGGCACCGTAATGCTGAG
Found at i:20974405 original size:22 final size:22
Alignment explanation
Indices: 20974361--20974405 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
20974351 AAATGCTGAG
**
20974361 CAATAGGCACCGTAATGTGAAT
1 CAATAGGCACCGTAATGCAAAT
*
20974383 CAATAGGCACCGTAGTGCAAAT
1 CAATAGGCACCGTAATGCAAAT
20974405 C
1 C
20974406 CTGTAAAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (22 bp):
CAATAGGCACCGTAATGCAAAT
Found at i:20985860 original size:13 final size:13
Alignment explanation
Indices: 20985844--20985876 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
20985834 GAAGTAAAAC
20985844 AAAGAAAAAA-AGA
1 AAAGAAAAAATA-A
20985857 AAAGAAAAAATAA
1 AAAGAAAAAATAA
20985870 AAAGAAA
1 AAAGAAA
20985877 GAAGAAGAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 18 0.95
14 1 0.05
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (13 bp):
AAAGAAAAAATAA
Found at i:20997376 original size:51 final size:49
Alignment explanation
Indices: 20997314--20997426 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 49
20997304 TTCCAGGTCA
*
20997314 TTTTCATTTTCATTTTGGAGAAAA-CTACACTCATTTCGAAATGTTTTCAT
1 TTTTCATTTTCATTTTGAAGAAAATC-ACACTCATTTCGAAATG-TTTCAT
* * *
20997364 TTTTCTATTTTCATTTTTAAGAAAATCACATTCATTTCTAAATGTTTCAT
1 TTTTC-ATTTTCATTTTGAAGAAAATCACACTCATTTCGAAATGTTTCAT
*
20997414 TTCTCCATTTTCA
1 TT-TTCATTTTCA
20997427 CCATTTCTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
50 20 0.36
51 34 0.62
52 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (49 bp):
TTTTCATTTTCATTTTGAAGAAAATCACACTCATTTCGAAATGTTTCAT
Found at i:21004464 original size:21 final size:22
Alignment explanation
Indices: 21004428--21004471 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
21004418 CCTAATTTCC
*
21004428 AATTTTATATTTTCAATCTTCA
1 AATTTTATACTTTCAATCTTCA
*
21004450 AATTTTA-ACTTTCAATTTTCA
1 AATTTTATACTTTCAATCTTCA
21004471 A
1 A
21004472 TTTCAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.34, C:0.14, G:0.00, T:0.52
Consensus pattern (22 bp):
AATTTTATACTTTCAATCTTCA
Found at i:21004468 original size:13 final size:13
Alignment explanation
Indices: 21004421--21004477 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
21004411 TTCAATCCCT
* *
21004421 AATTTCCAATTTT
1 AATTTTCAATTTC
21004434 ATATTTTCAATCTTC
1 A-ATTTTCAAT-TTC
21004449 AAATTTT-AACTTTC
1 -AATTTTCAA-TTTC
21004463 AATTTTCAATTTC
1 AATTTTCAATTTC
21004476 AA
1 AA
21004478 AATTTCAATC
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
13 13 0.35
14 15 0.41
15 8 0.22
16 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (13 bp):
AATTTTCAATTTC
Found at i:21004483 original size:14 final size:13
Alignment explanation
Indices: 21004438--21004486 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
21004428 AATTTTATAT
21004438 TTTCAATCTTCAAA
1 TTTCAAT-TTCAAA
* *
21004452 TTTTAACTTTCAAT
1 TTTCAA-TTTCAAA
21004466 TTTCAATTTCAAAA
1 TTTCAATTTC-AAA
21004480 TTTCAAT
1 TTTCAAT
21004487 CATCAATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 4 0.14
14 24 0.83
15 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTCAATTTCAAA
Found at i:21004492 original size:28 final size:28
Alignment explanation
Indices: 21004436--21004494 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
21004426 CCAATTTTAT
* *
21004436 ATTTTCAATCTTCAAATTTTAACTTTCA
1 ATTTTCAATCTTCAAATTTCAACTATCA
21004464 ATTTTCAAT-TTCAAAATTTCAA-TCATCA
1 ATTTTCAATCTTC-AAATTTCAACT-ATCA
21004492 ATT
1 ATT
21004495 ATTTTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTTTCAATCTTCAAATTTCAACTATCA
Found at i:21004507 original size:13 final size:13
Alignment explanation
Indices: 21004491--21004525 Score: 54
Period size: 12 Copynumber: 2.7 Consensus size: 13
21004481 TTCAATCATC
21004491 AATTATTTTTTTA
1 AATTATTTTTTTA
21004504 AATTA-TTTTTTA
1 AATTATTTTTTTA
21004516 AATTTATTTT
1 AA-TTATTTT
21004526 CTTCGATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 9 0.45
13 8 0.40
14 3 0.15
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
AATTATTTTTTTA
Found at i:21004514 original size:12 final size:12
Alignment explanation
Indices: 21004491--21004525 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
21004481 TTCAATCATC
21004491 AATTATTTTTTTA
1 AATTA-TTTTTTA
21004504 AATTATTTTTTA
1 AATTATTTTTTA
21004516 AATTTATTTT
1 AA-TTATTTT
21004526 CTTCGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (12 bp):
AATTATTTTTTA
Found at i:21006257 original size:63 final size:63
Alignment explanation
Indices: 21006189--21006350 Score: 202
Period size: 63 Copynumber: 2.6 Consensus size: 63
21006179 TCACAATTAT
* * ** *
21006189 CACAACACGCACACTCATTCCCTGCATTATCACCTTCAA-TTTCGGTTTATTTTACACAACCAC
1 CACAACACACACACTCATTCCCTGCATTAACACCTTCAACACT-AGTTTATTTTACACAACCAC
* * *
21006252 CACAACACACACAATCATTCCCTGCATTAACACATTCAACACTAGTTTATTTTACACAAGCAC
1 CACAACACACACACTCATTCCCTGCATTAACACCTTCAACACTAGTTTATTTTACACAACCAC
* *
21006315 CACAACACAC-CCCATCATTCCCTGTATTAACACCTT
1 CACAACACACACAC-TCATTCCCTGCATTAACACCTT
21006351 TTCTATGGAT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
62 1 0.01
63 83 0.98
64 1 0.01
ACGTcount: A:0.33, C:0.35, G:0.05, T:0.27
Consensus pattern (63 bp):
CACAACACACACACTCATTCCCTGCATTAACACCTTCAACACTAGTTTATTTTACACAACCAC
Found at i:21012232 original size:41 final size:41
Alignment explanation
Indices: 21012175--21012550 Score: 448
Period size: 41 Copynumber: 9.2 Consensus size: 41
21012165 TAATTATACT
* *
21012175 TGAATTACACATACGTGCCCCTATTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
*
21012216 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCA
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * *
21012257 TAAATTGCACATACGTGCCCTTGTTTATACTTTGATGCCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* *
21012298 TGAATTGCATATTCGTGCCCCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
21012339 TAAATTGCACATACGTGCCCCTGTTTATACTTCGATACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
21012380 TGAATTGCATATTCGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * *
21012421 TGAATTTCACATACGTGCCCCTATTTGTACTTCGGTACCTC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * ** *
21012462 TGAATTGCACATACGTGCCCTTATTTGTACTAGGGTA-CTC
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
* * * * * * *
21012502 TGTATAGCACTTACGTGCCCCTGTTTATACATCTGGTAACCT
1 TGAATTGCACATACGTGCCCCTGTTTGTACTTC-GGTACCCC
21012544 TGAATTG
1 TGAATTG
21012551 AATAATATAT
Statistics
Matches: 281, Mismatches: 52, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
40 27 0.10
41 248 0.88
42 6 0.02
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.35
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACCCC
Found at i:21024615 original size:6 final size:6
Alignment explanation
Indices: 21024604--21024650 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
21024594 AGCCAAAAAA
* * *
21024604 AAATAT AAATAT AAATAA AAATTT ATATAT AAA-AT AAAATAT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT -AAATAT AAATA
21024651 GCATAATTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
5 2 0.06
6 29 0.88
7 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:21024623 original size:18 final size:17
Alignment explanation
Indices: 21024599--21024650 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
21024589 ATGTTAGCCA
21024599 AAAAAAAATATAAATAT
1 AAAAAAAATATAAATAT
* *
21024616 AAATAAAAATTTATATAT
1 AAA-AAAAATATAAATAT
21024634 AAAATAAAATATAAATA
1 AAAA-AAAATATAAATA
21024651 GCATAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
AAAAAAAATATAAATAT
Found at i:21029687 original size:22 final size:23
Alignment explanation
Indices: 21029643--21029758 Score: 137
Period size: 23 Copynumber: 5.1 Consensus size: 23
21029633 CCCACAAAAT
* * *
21029643 ACAACCAAACATAGCCTCTAAAC
1 ACAACCAAATATACCCTCCAAAC
*
21029666 ACAACC-AATTTACCCTCCAAAC
1 ACAACCAAATATACCCTCCAAAC
*
21029688 ACAACCAAACATACCCTCC-AAC
1 ACAACCAAATATACCCTCCAAAC
* *
21029710 ACAACCAAATATAGCCTCCAAGC
1 ACAACCAAATATACCCTCCAAAC
* *
21029733 ACCACCAAATATACCCTTCAAAC
1 ACAACCAAATATACCCTCCAAAC
21029756 ACA
1 ACA
21029759 TCCATTTAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
22 38 0.49
23 39 0.51
ACGTcount: A:0.45, C:0.39, G:0.03, T:0.14
Consensus pattern (23 bp):
ACAACCAAATATACCCTCCAAAC
Done.