Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 254 of 276
Found at i:84128511 original size:22 final size:23
Alignment explanation
Indices: 84128486--84128531 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
84128476 TTTCATTACT
84128486 TAAAATTT-TTAAAAA-AAAGAAA
1 TAAAATTTATTAAAAATAAA-AAA
84128508 T-AAATTTATTAAAAATAAAAAA
1 TAAAATTTATTAAAAATAAAAAA
84128530 TA
1 TA
84128532 TTTTTTAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
21 6 0.29
22 12 0.57
23 3 0.14
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
TAAAATTTATTAAAAATAAAAAA
Found at i:84128514 original size:21 final size:20
Alignment explanation
Indices: 84128488--84128544 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
84128478 TCATTACTTA
84128488 AAATTTTTAAAAAAAAGAAAT
1 AAATTTTTAAAAAAAA-AAAT
84128509 AAATTTATTAAAAATAAAAAAT
1 AAATTT-TTAAAAA-AAAAAAT
*
84128531 -ATTTTTTAGAAAAA
1 AAATTTTTA-AAAAA
84128545 GATGGACCAC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
20 4 0.12
21 14 0.44
22 11 0.34
23 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
AAATTTTTAAAAAAAAAAAT
Found at i:84129243 original size:28 final size:27
Alignment explanation
Indices: 84129165--84129269 Score: 78
Period size: 28 Copynumber: 4.0 Consensus size: 27
84129155 TTTTGAATTA
*
84129165 TTTAGATTT-TATGTTTTA-TTTATTT
1 TTTACATTTATATGTTTTATTTTATTT
* * * *
84129190 TTT--ATTTCTAT-TTGTACTTTAATT
1 TTTACATTTATATGTTTTATTTTATTT
* *
84129214 TTT-CTTGTTATTTGTTTTTATTTTATTT
1 TTTACAT-TTATATG-TTTTATTTTATTT
*
84129242 TTTAGATTTATATGTTTTATTTTATTT
1 TTTACATTTATATGTTTTATTTTATTT
84129269 T
1 T
84129270 ATCATATATT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
23 8 0.13
24 12 0.19
25 4 0.06
26 4 0.06
27 14 0.23
28 19 0.31
29 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.07, T:0.72
Consensus pattern (27 bp):
TTTACATTTATATGTTTTATTTTATTT
Found at i:84134195 original size:43 final size:43
Alignment explanation
Indices: 84134134--84134449 Score: 377
Period size: 43 Copynumber: 7.4 Consensus size: 43
84134124 TATGCAGCGC
* * * *
84134134 TAAAAAATGCCGCTAAAGACCAGGACATTTAGCGGCGCTCTTA
1 TAAAAAACGCCGCTAAAGACCTGGACTTTTAGCGGCGCTTTTA
* * * *
84134177 TAAAAAACGCCGCTAAAGACCAGGACCTTTAGTGGCGCTCTTA
1 TAAAAAACGCCGCTAAAGACCTGGACTTTTAGCGGCGCTTTTA
** * *
84134220 TAAAAAATACCGCTAAAGA-CTAGGACCTTTAGCGGCGGTTTTA
1 TAAAAAACGCCGCTAAAGACCT-GGACTTTTAGCGGCGCTTTTA
* *
84134263 TAAAAAA-GCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTT
1 TAAAAAACGCCGCTAAAGACCTGGACTTTTAGCGGCGCTTTTA
* * *
84134305 TAGAAAACGCCGCTAAAGACCTGCACTTTTAGCGGCGCTTTTT
1 TAAAAAACGCCGCTAAAGACCTGGACTTTTAGCGGCGCTTTTA
* * *
84134348 TAGAAAACGCCGCTAAAGGTCCTGGTC-TTTAGCGGCGCTTTTA
1 TAAAAAACGCCGCTAAA-GACCTGGACTTTTAGCGGCGCTTTTA
* * * *
84134391 TAAAAAATGCCGTTAAAGACCTGTACTTTTAGCGGCGCTTTTT
1 TAAAAAACGCCGCTAAAGACCTGGACTTTTAGCGGCGCTTTTA
84134434 TAAAAAACGCCGCTAA
1 TAAAAAACGCCGCTAA
84134450 TTTGCCCAGT
Statistics
Matches: 239, Mismatches: 29, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
42 40 0.17
43 193 0.81
44 6 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (43 bp):
TAAAAAACGCCGCTAAAGACCTGGACTTTTAGCGGCGCTTTTA
Found at i:84134364 original size:128 final size:129
Alignment explanation
Indices: 84134134--84134449 Score: 422
Period size: 128 Copynumber: 2.5 Consensus size: 129
84134124 TATGCAGCGC
* * * * *
84134134 TAAAAAATGCCGCTAAAGACCAGGACATTTAGCGGCGCTCTTATAAAAAACGCCGCTAAAGACCA
1 TAAAAAATGCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCA
* * * *
84134199 GGACCTTTAGTGGCGCTCTTATAAAAAATACCGCTAAA-G-ACTAGGACCTTTAGCGGCGGTTTT
66 GCACCTTTAGCGGCGCTCTTATAAAAAACACCGCTAAAGGTACT-GG-CCTTTAGCGGCGCTTTT
84134262 A
129 A
* *
84134263 TAAAAAA-GCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTTTAGAAAACGCCGCTAAAGACCT
1 TAAAAAATGCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCA
* * * * * * *
84134327 GCACTTTTAGCGGCGCTTTTTTAGAAAACGCCGCTAAAGGTCCTGGTCTTTAGCGGCGCTTTTA
66 GCACCTTTAGCGGCGCTCTTATAAAAAACACCGCTAAAGGTACTGGCCTTTAGCGGCGCTTTTA
*
84134391 TAAAAAATGCCGTTAAAGACCTGTACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
1 TAAAAAATGCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
84134450 TTTGCCCAGT
Statistics
Matches: 164, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
128 103 0.63
129 59 0.36
130 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (129 bp):
TAAAAAATGCCGCTAAAGACCTGTACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCA
GCACCTTTAGCGGCGCTCTTATAAAAAACACCGCTAAAGGTACTGGCCTTTAGCGGCGCTTTTA
Found at i:84135357 original size:18 final size:18
Alignment explanation
Indices: 84135325--84135362 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
84135315 TACAATATAG
84135325 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
84135344 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
84135361 TA
1 TA
84135363 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:84136452 original size:25 final size:28
Alignment explanation
Indices: 84136418--84136468 Score: 72
Period size: 25 Copynumber: 1.9 Consensus size: 28
84136408 TATAAATAAA
84136418 AAATCATAAA-ATCTT-A-CTACATCAT
1 AAATCATAAATATCTTCATCTACATCAT
*
84136443 AAATCGTAAATATCTTCATCTACATC
1 AAATCATAAATATCTTCATCTACATC
84136469 CTGACGAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 5 0.23
27 1 0.05
28 7 0.32
ACGTcount: A:0.43, C:0.22, G:0.02, T:0.33
Consensus pattern (28 bp):
AAATCATAAATATCTTCATCTACATCAT
Found at i:84141175 original size:44 final size:44
Alignment explanation
Indices: 84141112--84141203 Score: 166
Period size: 44 Copynumber: 2.1 Consensus size: 44
84141102 AAAATAATAA
84141112 TTAATACTATTTTGATAAAAATTAGTTATAACGTATAAAGACAT
1 TTAATACTATTTTGATAAAAATTAGTTATAACGTATAAAGACAT
* *
84141156 TTAATACTATTTTGATAAAAATTAGTTATAACTTTTAAAGACAT
1 TTAATACTATTTTGATAAAAATTAGTTATAACGTATAAAGACAT
84141200 TTAA
1 TTAA
84141204 AAATATTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.41
Consensus pattern (44 bp):
TTAATACTATTTTGATAAAAATTAGTTATAACGTATAAAGACAT
Found at i:84141646 original size:10 final size:10
Alignment explanation
Indices: 84141631--84141664 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
84141621 AAATATAAAA
84141631 ACTTATTCAT
1 ACTTATTCAT
84141641 ACTTATTCAT
1 ACTTATTCAT
84141651 ACTTATTCAT
1 ACTTATTCAT
84141661 ACTT
1 ACTT
84141665 CAAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (10 bp):
ACTTATTCAT
Found at i:84142015 original size:518 final size:519
Alignment explanation
Indices: 84141156--84142107 Score: 1852
Period size: 518 Copynumber: 1.8 Consensus size: 519
84141146 ATAAAGACAT
*
84141156 TTAATACTATTTTGATAAAAATTAGTTATAACTTTTAAAGACATTTAAAAATATTAAATACTAAA
1 TTAATACTATTTTGATAAAAATTAGTTATAACTTTTAAAGACATTGAAAAATATTAAATACTAAA
84141221 ATCAAACATTATTAATATAAAAAAAATAGTAATTTGAATATAATAACATCAAAAAAGAATCGTAG
66 ATCAAACATTATTAATATAAAAAAAATAGTAATTTGAATATAATAACATCAAAAAAGAATCGTAG
84141286 TTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACT
131 TTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACT
84141351 TTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGAT
196 TTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGAT
84141416 CCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCT
261 CCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCT
84141481 TTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTATAATGGACAAGCAA
326 TTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTATAATGGACAAGCAA
84141546 GCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGATCAAATAATAATTA
391 GCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGATCAAATAATAATTA
84141611 AGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTATTCATACTTCAAATAATAA
456 AGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTATTCATACTTCAAATAATAA
* *
84141675 TTAATACTGTTTTGATAAAAATTAGTTATAACTTTTAAAGACATTGAAAAATATTAAATATTAAA
1 TTAATACTATTTTGATAAAAATTAGTTATAACTTTTAAAGACATTGAAAAATATTAAATACTAAA
* *
84141740 ATCAAACATTATTAATAT-AACAAAATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAG
66 ATCAAACATTATTAATATAAAAAAAATAGTAATTTGAATATAATAACATCAAAAAAGAATCGTAG
84141804 TTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACT
131 TTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACT
84141869 TTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGAT
196 TTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGAT
84141934 CCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCT
261 CCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCT
84141999 TTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTATAATGGACAAGCAA
326 TTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTATAATGGACAAGCAA
84142064 GCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
391 GCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
84142108 CAAATAATTA
Statistics
Matches: 428, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
518 348 0.81
519 80 0.19
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (519 bp):
TTAATACTATTTTGATAAAAATTAGTTATAACTTTTAAAGACATTGAAAAATATTAAATACTAAA
ATCAAACATTATTAATATAAAAAAAATAGTAATTTGAATATAATAACATCAAAAAAGAATCGTAG
TTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACT
TTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGAT
CCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCT
TTAAAATATTTAAAATAAGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTATAATGGACAAGCAA
GCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGATCAAATAATAATTA
AGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTATTCATACTTCAAATAATAA
Found at i:84146321 original size:15 final size:15
Alignment explanation
Indices: 84146301--84146332 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
84146291 AAATAATAAT
*
84146301 TTATATATATTTATC
1 TTATATACATTTATC
84146316 TTATATACATTTATC
1 TTATATACATTTATC
84146331 TT
1 TT
84146333 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:84147390 original size:41 final size:41
Alignment explanation
Indices: 84147333--84147509 Score: 189
Period size: 41 Copynumber: 4.3 Consensus size: 41
84147323 GTTATATGAC
**
84147333 TTTTAGCGGCGTTTTACCAAAAGCGTAGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
84147374 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* ** * *
84147415 TTTTAGCGGCATTTTAAGAAAAGCGCCGCTATTACTCT-GT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * ** *
84147455 TTTTAGCGGCATTTTTTACTAAAA-CGCCGCTGTTGCTCT-AT
1 TTTTAGCGGC--GTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
84147496 TTTTAGCGACGTTT
1 TTTTAGCGGCGTTT
84147510 CTTAAAACGC
Statistics
Matches: 117, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.03
40 12 0.10
41 93 0.79
42 9 0.08
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:84147529 original size:38 final size:40
Alignment explanation
Indices: 84147392--84147531 Score: 117
Period size: 41 Copynumber: 3.5 Consensus size: 40
84147382 GTGTTTTACC
* * * *
84147392 AAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCA-TTT-TAAG
1 AAAA-CGCCGCTATTGCTCT-ATTTTTAGCGACAGTTTCT-AT
* * * * *
84147433 AAAAGCGCCGCTATTACTCTGTTTTTAGCGGCATTTTTTACT
1 AAAA-CGCCGCTATTGCTCTATTTTTAGCGACAGTTTCTA-T
*
84147475 AAAACGCCGCTGTTGCTCTATTTTTAGCGAC-GTTTCT-T
1 AAAACGCCGCTATTGCTCTATTTTTAGCGACAGTTTCTAT
84147513 AAAACGCCGCTATTGCTCT
1 AAAACGCCGCTATTGCTCT
84147532 GTATTTTAAA
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
38 19 0.22
40 17 0.20
41 45 0.52
42 5 0.06
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (40 bp):
AAAACGCCGCTATTGCTCTATTTTTAGCGACAGTTTCTAT
Found at i:84154425 original size:28 final size:27
Alignment explanation
Indices: 84154368--84154519 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
84154358 TAAATTGTGC
*
84154368 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
84154395 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
84154423 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
84154450 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
84154478 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
84154505 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
84154520 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:84154433 original size:55 final size:55
Alignment explanation
Indices: 84154368--84154519 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
84154358 TAAATTGTGC
*
84154368 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
84154423 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
84154478 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
84154520 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:84156760 original size:24 final size:24
Alignment explanation
Indices: 84156728--84156774 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
84156718 CTGTCAGAAG
84156728 AGGATTTAGGAGCT-GATAAGGGAT
1 AGGATTTAGGAG-TAGATAAGGGAT
84156752 AGGATTTAGGAGTAGATAAGGGA
1 AGGATTTAGGAGTAGATAAGGGA
84156775 GGAAATCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 1 0.05
24 21 0.95
ACGTcount: A:0.36, C:0.02, G:0.38, T:0.23
Consensus pattern (24 bp):
AGGATTTAGGAGTAGATAAGGGAT
Found at i:84158084 original size:28 final size:28
Alignment explanation
Indices: 84158044--84158108 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
84158034 ATGTACTAGA
*
84158044 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
84158072 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
84158100 ATACCCCTA
1 ATACCCCTA
84158109 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:84158315 original size:29 final size:28
Alignment explanation
Indices: 84158214--84158304 Score: 137
Period size: 28 Copynumber: 3.2 Consensus size: 28
84158204 AGGAAGCGTC
**
84158214 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
84158242 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAATTATCTGTT
* *
84158270 CTGGTGGCGCTGCCACAAAATATCTGTAT
1 CTGGTGGCCCTGCCACAAATTATCTGT-T
84158299 CTGGTG
1 CTGGTG
84158305 ACTCTGTCAC
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
28 51 0.88
29 7 0.12
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCCCTGCCACAAATTATCTGTT
Found at i:84158329 original size:56 final size:55
Alignment explanation
Indices: 84158214--84158329 Score: 135
Period size: 56 Copynumber: 2.1 Consensus size: 55
84158204 AGGAAGCGTC
* * *
84158214 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCGATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTT
* * * *
84158270 CTGGTGGCGCTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCGATGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-T
84158326 CTGG
1 CTGG
84158330 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
55 8 0.16
56 29 0.57
57 14 0.27
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (55 bp):
CTGGTGGCGATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTT
Found at i:84164527 original size:24 final size:24
Alignment explanation
Indices: 84164495--84164541 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
84164485 CTGTTAGGAG
*
84164495 AGGATTTAGGAGCTGATAAGGGAT
1 AGGATTTAGGAGCAGATAAGGGAT
84164519 AGGATTTAGGAGCAGATAAGGGA
1 AGGATTTAGGAGCAGATAAGGGA
84164542 GGAAATCTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.38, T:0.21
Consensus pattern (24 bp):
AGGATTTAGGAGCAGATAAGGGAT
Found at i:84169495 original size:61 final size:61
Alignment explanation
Indices: 84169420--84169541 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
84169410 GCTTATAAAA
* *** * * *
84169420 CTTTCCTATCTAGAGTTTTGCCTTAAAGTCATTCCTTAACATTCAATACTCGCCACAAAGG
1 CTTTCCTATCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAATACTCACCACAAAGG
* *
84169481 CTTTCCTGTCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAGTACTCACCACAAAGG
1 CTTTCCTATCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAATACTCACCACAAAGG
84169542 ATTCCTTCTC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.31
Consensus pattern (61 bp):
CTTTCCTATCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAATACTCACCACAAAGG
Found at i:84175651 original size:45 final size:45
Alignment explanation
Indices: 84175587--84175675 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
84175577 TTGGTCTACG
*
84175587 AAATTGTGAGAAAATGGGTTCGGGAGTTGGTTACATACGAGGAAA
1 AAATTGTGAGAAAATGGGTTCGGGAGTCGGTTACATACGAGGAAA
84175632 AAATTGTGAGAAAATGGGTTCGGGAGTCGGTTACATACGAGGAA
1 AAATTGTGAGAAAATGGGTTCGGGAGTCGGTTACATACGAGGAA
84175676 GGGTTAGCAC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.35, C:0.08, G:0.34, T:0.24
Consensus pattern (45 bp):
AAATTGTGAGAAAATGGGTTCGGGAGTCGGTTACATACGAGGAAA
Found at i:84176870 original size:19 final size:19
Alignment explanation
Indices: 84176848--84176884 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
84176838 GGAATAATAT
*
84176848 ATATAGTAAAATATATAAC
1 ATATAATAAAATATATAAC
*
84176867 ATATAATAAAATTTATAA
1 ATATAATAAAATATATAA
84176885 ATAAAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:84176904 original size:21 final size:23
Alignment explanation
Indices: 84176880--84176934 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
84176870 TAATAAAATT
84176880 TATAAATAAAATG-T--ATAATAA
1 TATAAATAAAATGATAAATAAT-A
*
84176901 TATAAATAATATGATAAATAATA
1 TATAAATAAAATGATAAATAATA
84176924 TATAAATAAAA
1 TATAAATAAAA
84176935 ATAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.41
22 1 0.03
23 11 0.38
24 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
TATAAATAAAATGATAAATAATA
Found at i:84176909 original size:12 final size:12
Alignment explanation
Indices: 84176794--84176937 Score: 58
Period size: 12 Copynumber: 12.6 Consensus size: 12
84176784 GCAATTAATG
84176794 AATAATA-AAAT
1 AATAATATAAAT
*
84176805 AAT-ATATAATT
1 AATAATATAAAT
*
84176816 TATAATA-AAAT
1 AATAATATAAAT
* * **
84176827 AAAAAATGTAAGG
1 -AATAATATAAAT
*
84176840 AATAATATATAT
1 AATAATATAAAT
* * *
84176852 AGTAAAATATAT
1 AATAATATAAAT
*
84176864 AA-CATAT-AAT
1 AATAATATAAAT
84176874 AA-AATTTATAAAT
1 AATAA--TATAAAT
*
84176887 AA-AATGT--AT
1 AATAATATAAAT
84176896 AATAATATAAAT
1 AATAATATAAAT
84176908 AAT-ATGATAAAT
1 AATAAT-ATAAAT
84176920 AAT-ATATAAAT
1 AATAATATAAAT
*
84176931 AAAAATA
1 AATAATA
84176938 ATATATATAA
Statistics
Matches: 98, Mismatches: 23, Indels: 23
0.68 0.16 0.16
Matches are distributed among these distances:
9 4 0.04
10 12 0.12
11 26 0.27
12 47 0.48
13 9 0.09
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:84176917 original size:17 final size:16
Alignment explanation
Indices: 84176843--84176944 Score: 51
Period size: 15 Copynumber: 6.7 Consensus size: 16
84176833 TGTAAGGAAT
*
84176843 AATATATATAGTAAAATA
1 AATA-ATATA-TAATATA
* *
84176861 TATAACATATAATA-A
1 AATAATATATAATATA
*
84176876 AAT-TTATA-AATA-A
1 AATAATATATAATATA
*
84176889 AAT-GTATAATAATATA
1 AATAATAT-ATAATATA
84176905 AATAATATGATAA-AT-
1 AATAATAT-ATAATATA
*
84176920 AAT-ATATA-AATAAA
1 AATAATATATAATATA
84176934 AATAATATATA
1 AATAATATATA
84176945 TAATTTTTAC
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
12 2 0.03
13 13 0.20
14 11 0.17
15 15 0.23
16 11 0.17
17 11 0.17
18 3 0.05
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (16 bp):
AATAATATATAATATA
Found at i:84176938 original size:21 final size:20
Alignment explanation
Indices: 84176857--84176947 Score: 64
Period size: 19 Copynumber: 4.5 Consensus size: 20
84176847 TATATAGTAA
*
84176857 AATATATAACAT-ATAATAA-
1 AATATATAA-ATAAAAATAAT
* *
84176876 AATTTATAAAT-AAAATGTAT
1 AATATATAAATAAAAAT-AAT
*
84176896 AATAATATAAATAATATGATAAAT
1 AAT-ATATAAATAA-A-AAT-AAT
84176920 AATATATAAATAAAAATAAT
1 AATATATAAATAAAAATAAT
84176940 -ATATATAA
1 AATATATAA
84176948 TTTTTACATG
Statistics
Matches: 58, Mismatches: 8, Indels: 12
0.74 0.10 0.15
Matches are distributed among these distances:
18 6 0.10
19 17 0.29
20 6 0.10
21 9 0.16
22 2 0.03
23 11 0.19
24 7 0.12
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.34
Consensus pattern (20 bp):
AATATATAAATAAAAATAAT
Found at i:84177556 original size:9 final size:9
Alignment explanation
Indices: 84177537--84177568 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
84177527 ACTAGGCTGA
84177537 ACGCG-CAC
1 ACGCGCCAC
84177545 ACGCGCCAC
1 ACGCGCCAC
84177554 ACGCGCCAC
1 ACGCGCCAC
84177563 ACGCGC
1 ACGCGC
84177569 TGCCATACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.53, G:0.25, T:0.00
Consensus pattern (9 bp):
ACGCGCCAC
Found at i:84178697 original size:44 final size:44
Alignment explanation
Indices: 84178615--84179141 Score: 601
Period size: 44 Copynumber: 12.0 Consensus size: 44
84178605 CAGATTTGCT
* * * * * *
84178615 ATCTTTGATCTGCTCCCCGTCTAATATAGAGACACCAAATCTATC
1 ATCTTCGATCTGCTCTCTGTC-AATACAGAGACGCCAAATCTGTC
* * * * *
84178660 AAC-TCTAACCTGCCCTCTGTCAATACAGAGACGCCAAATCTGTT
1 ATCTTC-GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * * *
84178704 ATCTTTGATATGCTCTTTTTCAATACAGAGACGCCAAATCTG-C
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
*
84178747 TATCTTCGATCTGCTCTCGGTCAATACAGAGACGCCAAATCTG-C
1 -ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * *
84178791 TATCTTCGATCTGCTCTCTGTCACTACAGAGACTCCAAATCTGTT
1 -ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* *
84178836 ATCTTCGATCTGCTCTCTATCAATACAGAGAAGCCAAATCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * * * *
84178880 ATCTTTGATTTGCTCTTTGTCAATACAGAGACGCCAAATCTATT
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * * * *
84178924 ATCTTCAATCTACTCTCTGTCATTATAGAGATGCCAAATCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* *
84178968 ATCTTCGATCTGCTCTCTATCAATACAGAGACGCCAAATCTATC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * * * *
84179012 ATCTTGGATCTGCTTTCTGTAAATACAGAGACACCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * *
84179056 GTCTTCGATCTGCTCTATGTCAATACAGAGACACCAAATCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * *
84179100 ATCTTTGATCTGCTCTCTATCAATACAGAGATGCCAAATCTG
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG
84179142 CTATCGGTGA
Statistics
Matches: 401, Mismatches: 77, Indels: 9
0.82 0.16 0.02
Matches are distributed among these distances:
44 388 0.97
45 13 0.03
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (44 bp):
ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
Found at i:84179154 original size:44 final size:44
Alignment explanation
Indices: 84178669--84179146 Score: 614
Period size: 44 Copynumber: 10.9 Consensus size: 44
84178659 CAACTCTAAC
* *
84178669 CTGCCCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTTGAT
1 CTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGAT
* * * *
84178713 ATGCTCTTTTTCAATACAGAGACGCCAAATCTGCTATCTTCGAT
1 CTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGAT
* *
84178757 CTGCTCTCGGTCAATACAGAGACGCCAAATCTGCTATCTTCGAT
1 CTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGAT
* *
84178801 CTGCTCTCTGTCACTACAGAGACTCCAAATCTGTTATCTTCGAT
1 CTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGAT
* * * *
84178845 CTGCTCTCTATCAATACAGAGAAGCCAAATCTGTCATCTTTGAT
1 CTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGAT
* * * *
84178889 TTGCTCTTTGTCAATACAGAGACGCCAAATCTATTATCTTCAAT
1 CTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGAT
* * * * *
84178933 CTACTCTCTGTCATTATAGAGATGCCAAATCTGTCATCTTCGAT
1 CTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGAT
* * * *
84178977 CTGCTCTCTATCAATACAGAGACGCCAAATCTATCATCTTGGAT
1 CTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGAT
* * * *
84179021 CTGCTTTCTGTAAATACAGAGACACCAAATCTGTTGTCTTCGAT
1 CTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGAT
* * * *
84179065 CTGCTCTATGTCAATACAGAGACACCAAATCTGTCATCTTTGAT
1 CTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGAT
* * *
84179109 CTGCTCTCTATCAATACAGAGATGCCAAATCTGCTATC
1 CTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATC
84179147 GGTGATCTAC
Statistics
Matches: 370, Mismatches: 64, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 370 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (44 bp):
CTGCTCTCTGTCAATACAGAGACGCCAAATCTGTTATCTTCGAT
Found at i:84191457 original size:40 final size:40
Alignment explanation
Indices: 84191408--84191752 Score: 314
Period size: 39 Copynumber: 8.7 Consensus size: 40
84191398 ACTACTTGCT
84191408 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTTATAGTAACTCGCA
* * * * **
84191448 CACATGCCTTTGGGACTCATCCCGGTTCA-A-CCACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-ATAGTAACTCGCA
* * * * *
84191487 CCAATGCCTTCGGAACTTAGGCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
84191527 CAATTGCCTTCGGG-TTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
84191566 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTTATAGTAACTCGCA
* * *
84191606 CAAATGCCTTTGGGACTCATCCCGGTTCA-A-TAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-ATAGTAACTCGCA
* * * *
84191645 CCAATGCCTTCGGAACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * * *
84191685 CAATTGCCTTCGGG-TTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
84191724 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
84191753 CATCCGAATA
Statistics
Matches: 240, Mismatches: 50, Indels: 30
0.75 0.16 0.09
Matches are distributed among these distances:
38 4 0.02
39 120 0.50
40 112 0.47
41 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:84191495 original size:39 final size:38
Alignment explanation
Indices: 84191410--84191751 Score: 221
Period size: 40 Copynumber: 8.7 Consensus size: 38
84191400 TACTTGCTCA
*
84191410 AATGCCTTCGGGACT-TGACCCGGTTATAGTAACTCGCA-C
1 AATGCCTTCGGGACTCAG-CCCGGTTA-A-TAACTCGCACC
* * **
84191449 ACATGCCTTTGGGACTCATCCCGGTTCAACCACTCGCACC
1 A-ATGCCTTCGGGACTCAGCCCGGTT-AATAACTCGCACC
* * *
84191489 AATGCCTTCGGAACTTAGGCCGGATATAATAACTCGCA-C
1 AATGCCTTCGGGACTCAGCCCGG-T-TAATAACTCGCACC
* * * * * *
84191528 AATTGCCTTCGGG-TTTAGCCCGGAATTAGTCACTAGCACA
1 AA-TGCCTTCGGGACTCAGCCCGG--TTAATAACTCGCACC
* *
84191568 AATGCCTTCGGGACT-TGACCCGGTTATAGTAACTCGCACA
1 AATGCCTTCGGGACTCAG-CCCGGTTA-A-TAACTCGCACC
* *
84191608 AATGCCTTTGGGACTCATCCCGGTTCAATAACTCGCACC
1 AATGCCTTCGGGACTCAGCCCGGTT-AATAACTCGCACC
* *
84191647 AATGCCTTCGGAACTTAGCCCGGATATAATAACTCGCA-C
1 AATGCCTTCGGGACTCAGCCCGG-T-TAATAACTCGCACC
* * * * * *
84191686 AATTGCCTTCGGG-TTTAGCCCGGAATTAGTCACTAGCACA
1 AA-TGCCTTCGGGACTCAGCCCGG--TTAATAACTCGCACC
*
84191726 AATGCCTTCGGGACTTAGCCCGGTTA
1 AATGCCTTCGGGACTCAGCCCGGTTA
84191752 TCATCCGAAT
Statistics
Matches: 243, Mismatches: 39, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
38 6 0.02
39 116 0.48
40 117 0.48
41 4 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (38 bp):
AATGCCTTCGGGACTCAGCCCGGTTAATAACTCGCACC
Found at i:84191572 original size:79 final size:79
Alignment explanation
Indices: 84191479--84191748 Score: 348
Period size: 79 Copynumber: 3.4 Consensus size: 79
84191469 CCGGTTCAAC
* * *
84191479 CACTCGCACCAATGCCTTCGGAACTTAGGCCGGATATAATAACTCGCACAATTGCCTTCGGGTTT
1 CACTAGCACAAATGCCTTCGGAACTTAGCCCGGATATAATAACTCGCACAATTGCCTTCGGGTTT
84191544 AGCCCGGAATTAGT
66 AGCCCGGAATTAGT
* * * * * *
84191558 CACTAGCACAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCACAAATGCCTTTGGGAC
1 CACTAGCACAAATGCCTTCGGAACTTAG-CCCGGATATAATAACTCGCACAATTGCCTTCGGG-T
* * *
84191622 TCATCCCGG--TTCAAT
64 TTAGCCCGGAATT-AGT
* * *
84191637 AACTCGCACCAATGCCTTCGGAACTTAGCCCGGATATAATAACTCGCACAATTGCCTTCGGGTTT
1 CACTAGCACAAATGCCTTCGGAACTTAGCCCGGATATAATAACTCGCACAATTGCCTTCGGGTTT
84191702 AGCCCGGAATTAGT
66 AGCCCGGAATTAGT
*
84191716 CACTAGCACAAATGCCTTCGGGACTTAGCCCGG
1 CACTAGCACAAATGCCTTCGGAACTTAGCCCGG
84191749 TTATCATCCG
Statistics
Matches: 157, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
78 10 0.06
79 137 0.87
80 10 0.06
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
CACTAGCACAAATGCCTTCGGAACTTAGCCCGGATATAATAACTCGCACAATTGCCTTCGGGTTT
AGCCCGGAATTAGT
Found at i:84191663 original size:158 final size:158
Alignment explanation
Indices: 84191408--84191752 Score: 638
Period size: 158 Copynumber: 2.2 Consensus size: 158
84191398 ACTACTTGCT
*
84191408 CAAATGCCTTCGGGACTTGACCCGGTTATAGTAACTCGCACACATGCCTTTGGGACTCATCCCGG
1 CAAATGCCTTCGGGACTTGACCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTCATCCCGG
* *
84191473 TTCAACCACTCGCACCAATGCCTTCGGAACTTAGGCCGGATATAATAACTCGCACAATTGCCTTC
66 TTCAACAACTCGCACCAATGCCTTCGGAACTTAGCCCGGATATAATAACTCGCACAATTGCCTTC
84191538 GGGTTTAGCCCGGAATTAGTCACTAGCA
131 GGGTTTAGCCCGGAATTAGTCACTAGCA
84191566 CAAATGCCTTCGGGACTTGACCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTCATCCCGG
1 CAAATGCCTTCGGGACTTGACCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTCATCCCGG
*
84191631 TTCAATAACTCGCACCAATGCCTTCGGAACTTAGCCCGGATATAATAACTCGCACAATTGCCTTC
66 TTCAACAACTCGCACCAATGCCTTCGGAACTTAGCCCGGATATAATAACTCGCACAATTGCCTTC
84191696 GGGTTTAGCCCGGAATTAGTCACTAGCA
131 GGGTTTAGCCCGGAATTAGTCACTAGCA
84191724 CAAATGCCTTCGGGACTT-AGCCCGGTTAT
1 CAAATGCCTTCGGGACTTGA-CCCGGTTAT
84191753 CATCCGAATA
Statistics
Matches: 182, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
157 1 0.01
158 181 0.99
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (158 bp):
CAAATGCCTTCGGGACTTGACCCGGTTATAGTAACTCGCACAAATGCCTTTGGGACTCATCCCGG
TTCAACAACTCGCACCAATGCCTTCGGAACTTAGCCCGGATATAATAACTCGCACAATTGCCTTC
GGGTTTAGCCCGGAATTAGTCACTAGCA
Found at i:84199718 original size:40 final size:40
Alignment explanation
Indices: 84199672--84199858 Score: 213
Period size: 39 Copynumber: 4.7 Consensus size: 40
84199662 ACTACTTGCT
84199672 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTTATAGTAACTCGCA
* *
84199712 CAAATGCCTTCGGGACTCATCCCGGTTCA-A-TAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-ATAGTAACTCGCA
* * *
84199751 CCAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * ** * *
84199791 CAATTGCCTTCGGG-TTTAGCCC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
84199830 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
84199859 CATCCGAATA
Statistics
Matches: 123, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
38 4 0.03
39 62 0.50
40 54 0.44
41 3 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:84199810 original size:39 final size:40
Alignment explanation
Indices: 84199649--84199854 Score: 210
Period size: 40 Copynumber: 5.2 Consensus size: 40
84199639 CCTTTGAAAT
* *
84199649 TTAG-CCGGATATAACT-ACTTGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-TAACTCGCACAAATGCCTTCGGGAC
* *
84199688 TT-GACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAC
1 TTAG-CCCGGATATAATAACTCGCACAAATGCCTTCGGGAC
* * *
84199728 TCATCCCGG-T-TCAATAACTCGCACCAATGCCTTCGGGAC
1 TTAGCCCGGATAT-AATAACTCGCACAAATGCCTTCGGGAC
* *
84199767 TTAGCCCGGATATAATAACTCGCACAATTGCCTTCGGG-T
1 TTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGAC
* * * *
84199806 TTAGCCC-GAAATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAATAACTCGCACAAATGCCTTCGGGAC
84199846 TTAGCCCGG
1 TTAGCCCGG
84199855 TTATCATCCG
Statistics
Matches: 138, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
38 5 0.04
39 65 0.47
40 66 0.48
41 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGAC
Found at i:84199836 original size:79 final size:79
Alignment explanation
Indices: 84199672--84199854 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 79
84199662 ACTACTTGCT
* * *
84199672 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTCATCCCG
1 CAAATGCCTTCGGGACTTAG-CCCGGATATAATAACTCGCACAAATGCCTTCGGGACTCAGCCCG
* *
84199736 GTTCAATAACTCGCA
65 ATTCAATAACTAGCA
* * * *
84199751 CCAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAATTGCCTTCGGG-TTTAGCCCGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTCAGCCCG-
* *
84199815 AATT-AGTCACTAGCA
65 -ATTCAATAACTAGCA
84199830 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
84199855 TTATCATCCG
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
78 6 0.07
79 80 0.90
80 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTCAGCCCGA
TTCAATAACTAGCA
Found at i:84210429 original size:61 final size:61
Alignment explanation
Indices: 84210354--84210475 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
84210344 GCTTATAAAA
* *** * * *
84210354 CTTTCCTATCTAGAGTTTTGCCTTAAAGTCATTCCTTAACATTCAATACTCGCCACAAAGG
1 CTTTCCTATCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAATACTCACCACAAAGG
* *
84210415 CTTTCCTGTCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAGTACTCACCACAAAGG
1 CTTTCCTATCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAATACTCACCACAAAGG
84210476 ATTCCTTCTC
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.31
Consensus pattern (61 bp):
CTTTCCTATCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAATACTCACCACAAAGG
Found at i:84217702 original size:19 final size:19
Alignment explanation
Indices: 84217680--84217716 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
84217670 GGAATAATAT
*
84217680 ATATAGTAAAATATATAAC
1 ATATAATAAAATATATAAC
*
84217699 ATATAATAAAATTTATAA
1 ATATAATAAAATATATAA
84217717 ATAAAATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:84217736 original size:21 final size:23
Alignment explanation
Indices: 84217712--84217766 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 23
84217702 TAATAAAATT
84217712 TATAAATAAAATG-T--ATAATAA
1 TATAAATAAAATGATAAATAAT-A
* *
84217733 TATAAGTAATATGATAAATAATA
1 TATAAATAAAATGATAAATAATA
84217756 TATAAATAAAA
1 TATAAATAAAA
84217767 ATAATATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
21 11 0.41
22 1 0.04
23 10 0.37
24 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAAATAAAATGATAAATAATA
Found at i:84217742 original size:12 final size:11
Alignment explanation
Indices: 84217726--84217764 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
84217716 AATAAAATGT
84217726 ATAATAATATAA
1 ATAAT-ATATAA
*
84217738 GTAATATGATAA
1 ATAATAT-ATAA
84217750 ATAATATATAA
1 ATAATATATAA
84217761 ATAA
1 ATAA
84217765 AAATAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (11 bp):
ATAATATATAA
Found at i:84219847 original size:44 final size:44
Alignment explanation
Indices: 84219431--84219838 Score: 588
Period size: 44 Copynumber: 9.2 Consensus size: 44
84219421 AAAATGTCAG
* * *
84219431 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTC-AATACAGAGACGCCAA
* * *
84219476 ATCTG-TCATCTTCGACCTGCCCTTTGTCAATACAGAGACGCCAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* * *
84219520 ATCTGTTATCTTCGATCTGCTCTTTTTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
84219564 ATCTGCTATCTTCGATCTGCTCTCTGTCACTACAAAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
* *
84219608 ATTTGTTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
*
84219652 ATCT-ATCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
84219696 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATAC--AGAGACGCCAA
* *
84219742 ATCTGTTATCTTTGATCTGCTCTCTGTCAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
*
84219786 ATCTG-TCATCTTCGATCTGCTCTCTGTCAATACAAAGACGCCAA
1 ATCTGCT-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
84219830 ATCTGCTAT
1 ATCTGCTAT
84219839 TGGTGATCTA
Statistics
Matches: 330, Mismatches: 25, Indels: 17
0.89 0.07 0.05
Matches are distributed among these distances:
43 2 0.01
44 262 0.79
45 24 0.07
46 42 0.13
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.31
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAA
Found at i:84226568 original size:15 final size:15
Alignment explanation
Indices: 84226548--84226577 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
84226538 ATTGCATGCA
84226548 CCTTAAATAGACTTT
1 CCTTAAATAGACTTT
84226563 CCTTAAATAGACTTT
1 CCTTAAATAGACTTT
84226578 GATAAAGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.40
Consensus pattern (15 bp):
CCTTAAATAGACTTT
Found at i:84231999 original size:21 final size:23
Alignment explanation
Indices: 84231974--84232028 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
84231964 ATATAAAATT
84231974 TATAAATAAAATG-T--ATAATAA
1 TATAAATAAAATGATAAATAAT-A
*
84231995 TATAAATAATATGATAAATAATA
1 TATAAATAAAATGATAAATAATA
84232018 TATAAATAAAA
1 TATAAATAAAA
84232029 ATAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.41
22 1 0.03
23 11 0.38
24 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
TATAAATAAAATGATAAATAATA
Found at i:84232003 original size:12 final size:11
Alignment explanation
Indices: 84231988--84232026 Score: 60
Period size: 12 Copynumber: 3.4 Consensus size: 11
84231978 AATAAAATGT
84231988 ATAATAATATAA
1 ATAAT-ATATAA
84232000 ATAATATGATAA
1 ATAATAT-ATAA
84232012 ATAATATATAA
1 ATAATATATAA
84232023 ATAA
1 ATAA
84232027 AAATAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
ATAATATATAA
Found at i:84232011 original size:17 final size:16
Alignment explanation
Indices: 84231937--84232038 Score: 53
Period size: 14 Copynumber: 6.7 Consensus size: 16
84231927 AAATGTAAGG
84231937 AATAATATAT-ATAGT-
1 AATAATATATAATA-TA
*
84231952 AA-AATATATAACATA
1 AATAATATATAATATA
*
84231967 TAA-AATTTATAA-ATA
1 -AATAATATATAATATA
*
84231982 AA-ATGTATAATAATATA
1 AATA-ATAT-ATAATATA
84231999 AATAATATGATAA-AT-
1 AATAATAT-ATAATATA
*
84232014 AAT-ATATA-AATAAA
1 AATAATATATAATATA
84232028 AATAATATATA
1 AATAATATATA
84232039 TTATTTTTAC
Statistics
Matches: 69, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
12 2 0.03
13 2 0.03
14 18 0.26
15 17 0.25
16 17 0.25
17 12 0.17
18 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (16 bp):
AATAATATATAATATA
Found at i:84232032 original size:21 final size:20
Alignment explanation
Indices: 84231974--84232039 Score: 55
Period size: 23 Copynumber: 3.1 Consensus size: 20
84231964 ATATAAAATT
*
84231974 TATAAAT-AAAATGTATAATAA
1 TATAAATAAAAAT-AATAAT-A
*
84231995 TATAAATAATATGATAAATAATA
1 TATAAATAA-A-AAT-AATAATA
84232018 TATAAATAAAAATAAT-ATA
1 TATAAATAAAAATAATAATA
84232037 TAT
1 TAT
84232040 TATTTTTACA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
19 6 0.16
20 3 0.08
21 9 0.24
22 2 0.05
23 11 0.29
24 7 0.18
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
TATAAATAAAAATAATAATA
Found at i:84233234 original size:74 final size:74
Alignment explanation
Indices: 84233113--84233257 Score: 263
Period size: 74 Copynumber: 2.0 Consensus size: 74
84233103 AATTGCATCA
*
84233113 CGAGTTTAGGGGCCTTCATCTGGTGCTTGCGGCGCCTAGGGTTTCAGAAACCCTAGGCTTTCTGA
1 CGAGTTTAGGGGCCTTCATCTGGTGCTTGCAGCGCCTAGGGTTTCAGAAACCCTAGGCTTTCTGA
84233178 CTTCTGGCG
66 CTTCTGGCG
* *
84233187 CGAGTTTAGGGGCTTTCATCTGGTGCTTGCAGTGCCTAGGGTTTCAGAAACCCTAGGCTTTCTGA
1 CGAGTTTAGGGGCCTTCATCTGGTGCTTGCAGCGCCTAGGGTTTCAGAAACCCTAGGCTTTCTGA
84233252 CTTCTG
66 CTTCTG
84233258 TTAGCTATTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.14, C:0.24, G:0.30, T:0.32
Consensus pattern (74 bp):
CGAGTTTAGGGGCCTTCATCTGGTGCTTGCAGCGCCTAGGGTTTCAGAAACCCTAGGCTTTCTGA
CTTCTGGCG
Found at i:84246808 original size:77 final size:77
Alignment explanation
Indices: 84246662--84246822 Score: 182
Period size: 77 Copynumber: 2.1 Consensus size: 77
84246652 ACAGGCATGT
* * * * * * * *
84246662 GGCT-GGCCATGTGGGTGGCCGTGTGTGAGACACAACCGTGTGTCTGACGAAGGTGTGGCTGTGC
1 GGCTAGGCAATGTGGGTGGCCGTATGCGAGACACAACCATGTGGCTAACGAAGATGTGGCTGTAC
**
84246726 ACAAGACACGTG
66 ACAAGACACACG
* *
84246738 GGCTAGGCAATGTGGGTGGCTGTATGCGAGACACGACCATGTGGCTAACGAAGATGTGGAC-GTA
1 GGCTAGGCAATGTGGGTGGCCGTATGCGAGACACAACCATGTGGCTAACGAAGATGTGG-CTGTA
*
84246802 CGCAAGACACACG
65 CACAAGACACACG
84246815 GGCTAGGC
1 GGCTAGGC
84246823 CAAGTTTGAC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
76 4 0.06
77 65 0.93
78 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (77 bp):
GGCTAGGCAATGTGGGTGGCCGTATGCGAGACACAACCATGTGGCTAACGAAGATGTGGCTGTAC
ACAAGACACACG
Found at i:84247171 original size:23 final size:23
Alignment explanation
Indices: 84247136--84247197 Score: 61
Period size: 26 Copynumber: 2.6 Consensus size: 23
84247126 AGGTATCAAC
* *
84247136 ATGTAAGCATGATAACTCTAATT
1 ATGTATGCCTGATAACTCTAATT
*
84247159 ATGTATGCCTGATGATAACTCTGATT
1 ATGTATGCC---TGATAACTCTAATT
*
84247185 ATGTATGACTGAT
1 ATGTATGCCTGAT
84247198 TGGGTGGGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
23 11 0.34
26 21 0.66
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (23 bp):
ATGTATGCCTGATAACTCTAATT
Found at i:84247178 original size:26 final size:26
Alignment explanation
Indices: 84247144--84247197 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
84247134 ACATGTAAGC
*
84247144 ATGATAACTCTAATTATGTATGCCTG
1 ATGATAACTCTAATTATGTATGACTG
*
84247170 ATGATAACTCTGATTATGTATGACTG
1 ATGATAACTCTAATTATGTATGACTG
84247196 AT
1 AT
84247198 TGGGTGGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (26 bp):
ATGATAACTCTAATTATGTATGACTG
Found at i:84248033 original size:43 final size:43
Alignment explanation
Indices: 84247971--84248052 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
84247961 GACATCTCCA
* * * *
84247971 GATTCGGCCATAACGTCTAGGCTAGGTTTTGGGTTTTACTCTG
1 GATTCGGCCATAACATCTAGGCCAGGTTTGGGGTGTTACTCTG
*
84248014 GATTCGGCCATAATATCTAGGCCAGGTTTGGGGTGTTAC
1 GATTCGGCCATAACATCTAGGCCAGGTTTGGGGTGTTAC
84248053 AAGAAAAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.34
Consensus pattern (43 bp):
GATTCGGCCATAACATCTAGGCCAGGTTTGGGGTGTTACTCTG
Found at i:84256311 original size:16 final size:16
Alignment explanation
Indices: 84256290--84256334 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
84256280 ATGTCTAAAA
84256290 GCATGATAGAGTCTCT
1 GCATGATAGAGTCTCT
84256306 GCATGAATA-AGTCTCT
1 GCATG-ATAGAGTCTCT
*
84256322 ACATGA-AGAGTCT
1 GCATGATAGAGTCT
84256335 GCGCATAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.04
15 6 0.23
16 16 0.62
17 3 0.12
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (16 bp):
GCATGATAGAGTCTCT
Found at i:84256531 original size:54 final size:54
Alignment explanation
Indices: 84256448--84256585 Score: 177
Period size: 54 Copynumber: 2.6 Consensus size: 54
84256438 TGACAAGAAT
* * *
84256448 ACCATAAAGTGTAAGATCTAGTCTGGGACTATAGCATCATATGGGGAAAAAAAG
1 ACCATATAGTGTAAGACCTAGTCTGGGACTATAGCATAATATGGGGAAAAAAAG
* * * * **
84256502 ACCATATAGTGTCAGACCTAGTCTTGGACTATGGCATAATATGGGGATATGAAG
1 ACCATATAGTGTAAGACCTAGTCTGGGACTATAGCATAATATGGGGAAAAAAAG
* *
84256556 ACCACATAGTGTAAAACCTAGTCTGGGACT
1 ACCATATAGTGTAAGACCTAGTCTGGGACT
84256586 GTGGCGTCAT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 71 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (54 bp):
ACCATATAGTGTAAGACCTAGTCTGGGACTATAGCATAATATGGGGAAAAAAAG
Found at i:84258523 original size:46 final size:45
Alignment explanation
Indices: 84258473--84258645 Score: 154
Period size: 46 Copynumber: 3.8 Consensus size: 45
84258463 GTTGAGCATC
*
84258473 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGAT
* * *
84258519 CGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA-GATG-TAACTAGGCAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAA-T--G-AT
* * * **
84258565 CTGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCC
1 C-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA-GGATGCGAATGAT
** *
84258612 CGGGCTCGTTGAGTTGAGTCCAAGTTCACTTAGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGG
84258646 GGCGGGTTAC
Statistics
Matches: 102, Mismatches: 16, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 55 0.54
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGATGCGAATGAT
Found at i:84258627 original size:93 final size:93
Alignment explanation
Indices: 84258468--84258638 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
84258458 GGATGGTTGA
* * **
84258468 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
*
84258533 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* * * **
84258561 GCATCTGAACTCATTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGGGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
84258626 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
84258639 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:84275417 original size:40 final size:40
Alignment explanation
Indices: 84275362--84275542 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
84275352 TATTCGGATG
* *
84275362 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
84275402 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
84275442 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
84275482 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
84275522 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
84275543 ATACTTGGAT
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.10
40 115 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:84277130 original size:26 final size:26
Alignment explanation
Indices: 84277094--84277146 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
84277084 AAGTTGAATG
84277094 AATAAATCGTCCGATTCGAAGCCAGA
1 AATAAATCGTCCGATTCGAAGCCAGA
*
84277120 AATAAATCGTCCGATTCGGAGCCAGA
1 AATAAATCGTCCGATTCGAAGCCAGA
84277146 A
1 A
84277147 TAACAAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (26 bp):
AATAAATCGTCCGATTCGAAGCCAGA
Found at i:84280278 original size:78 final size:77
Alignment explanation
Indices: 84280149--84280301 Score: 236
Period size: 78 Copynumber: 2.0 Consensus size: 77
84280139 GAGGTGAGTC
* *
84280149 ATCCCAAGTTCGGCACTTTTAAGGTAAACAACAACCGATTAAAACCTTATTTTGATGAGATTGAT
1 ATCCCAAGTTCGACACTTTTAAGGTAAACAACAACCGATTAAAACCTTATTTTGATGAGATTAAT
84280214 AGCAGGAATNGTA
66 AGCAGGAAT-GTA
* *
84280227 ATCCCAAGTTTGACATTTTTAAGGTAAACAAC-ACCAGATTAAAACCTTATTTTGATGAGATTAA
1 ATCCCAAGTTCGACACTTTTAAGGTAAACAACAACC-GATTAAAACCTTATTTTGATGAGATTAA
*
84280291 TAGCATGAATG
65 TAGCAGGAATG
84280302 AGGAGTATAA
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
77 4 0.06
78 65 0.94
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (77 bp):
ATCCCAAGTTCGACACTTTTAAGGTAAACAACAACCGATTAAAACCTTATTTTGATGAGATTAAT
AGCAGGAATGTA
Found at i:84281107 original size:87 final size:87
Alignment explanation
Indices: 84280958--84281133 Score: 316
Period size: 87 Copynumber: 2.0 Consensus size: 87
84280948 CGCTCAATCT
*
84280958 CTTTCCCTTAGCATTTGTTTACTCCTTTCACTTCTATTTTACTTATTTCTAATGCTTCTTATCAA
1 CTTTCCCTTAGCATTTGTTTACTCCTTTCACTTCTATTTTACTTATTTCTAATGCTTATTATCAA
*
84281023 CTTAAACTTCATATCTTTTGAA
66 CATAAACTTCATATCTTTTGAA
* *
84281045 CTTTCCCTTAGCGTTTGTTTACTCTTTTCACTTCTATTTTACTTATTTCTAATGCTTATTATCAA
1 CTTTCCCTTAGCATTTGTTTACTCCTTTCACTTCTATTTTACTTATTTCTAATGCTTATTATCAA
84281110 CATAAACTTCATATCTTTTGAA
66 CATAAACTTCATATCTTTTGAA
84281132 CT
1 CT
84281134 ATTTTTCATT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.22, C:0.22, G:0.05, T:0.51
Consensus pattern (87 bp):
CTTTCCCTTAGCATTTGTTTACTCCTTTCACTTCTATTTTACTTATTTCTAATGCTTATTATCAA
CATAAACTTCATATCTTTTGAA
Found at i:84282990 original size:190 final size:190
Alignment explanation
Indices: 84282667--84283030 Score: 638
Period size: 190 Copynumber: 1.9 Consensus size: 190
84282657 GTCCCTCAGA
*
84282667 TGATTAATTTTGGAAAAATATTCTCATTGTGGAAGCTTTGCTTGTTGTCGTGTTATTTTGAAATC
1 TGATTAATTTTGGAAAAATATTCTCATTGTGGAAGCTTTCCTTGTTGTCGTGTTATTTTGAAATC
* * * *
84282732 AATTACCGTTTTTGAAAATGCGCCCTAATGTTATCCAAATTCAACAGTTAAGTATAAATAATACC
66 AATTACCGTTTTTGAAAACGCACCCTAATGCTATCCAAATTCAACAGTTAAATATAAATAATACC
84282797 TAACTCAATAAAACATATAAAACCCATCAAAGAAAATAATTAAGTCTTTTTTAGGAAAAG
131 TAACTCAATAAAACATATAAAACCCATCAAAGAAAATAATTAAGTCTTTTTTAGGAAAAG
* *
84282857 TGATTAATTTTGGAAAAATATTCTTATTGTGGAAGTTTTCCTTGTTGTCGTGTTATTTTGAAATC
1 TGATTAATTTTGGAAAAATATTCTCATTGTGGAAGCTTTCCTTGTTGTCGTGTTATTTTGAAATC
*
84282922 AATTACCGTTTTTGAAAACGCACCCTAATGCTATCCAAATTCAATAGTTAAATATAAATAATACC
66 AATTACCGTTTTTGAAAACGCACCCTAATGCTATCCAAATTCAACAGTTAAATATAAATAATACC
**
84282987 TAACTCAATAAAACATATAAAACTGATCAAAGAAAATAATTAAG
131 TAACTCAATAAAACATATAAAACCCATCAAAGAAAATAATTAAG
84283031 CGGCCTTATT
Statistics
Matches: 164, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
190 164 1.00
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.35
Consensus pattern (190 bp):
TGATTAATTTTGGAAAAATATTCTCATTGTGGAAGCTTTCCTTGTTGTCGTGTTATTTTGAAATC
AATTACCGTTTTTGAAAACGCACCCTAATGCTATCCAAATTCAACAGTTAAATATAAATAATACC
TAACTCAATAAAACATATAAAACCCATCAAAGAAAATAATTAAGTCTTTTTTAGGAAAAG
Found at i:84283517 original size:27 final size:26
Alignment explanation
Indices: 84283460--84283571 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
84283450 CAGCATGGCT
* *
84283460 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
84283486 ACCAGAACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATAAT-GTGGCAGAGCC
* *
84283513 ACCAGAACAGATATATGTTGCAAAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
*
84283540 ACCA-AATCAGATAATTGTGGCATAGCC
1 ACCAGAA-CAGATAA-TGTGGCAGAGCC
84283567 ACCAG
1 ACCAG
84283572 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 18 0.24
27 55 0.73
28 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:84285016 original size:24 final size:24
Alignment explanation
Indices: 84284989--84285035 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
84284979 CCAACACCAT
84284989 TCTCCCTAATCAGATCATAAATCC
1 TCTCCCTAATCAGATCATAAATCC
* * *
84285013 TCTCCCTTATCAGCTCCTAAATC
1 TCTCCCTAATCAGATCATAAATC
84285036 TTTTCCTGAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.36, G:0.04, T:0.32
Consensus pattern (24 bp):
TCTCCCTAATCAGATCATAAATCC
Found at i:84290548 original size:60 final size:62
Alignment explanation
Indices: 84290438--84290558 Score: 219
Period size: 60 Copynumber: 2.0 Consensus size: 62
84290428 AATAGCTAGC
*
84290438 TTAGCAAACCTTAATTTAATATATAATTGTTCATAACACAATTAAAGCATCCTCTCCATTCT
1 TTAGCAAACCTTAATTTAACATATAATTGTTCATAACACAATTAAAGCATCCTCTCCATTCT
84290500 TTAG-AAACCTTAATTTAACATATAATT-TTCATAACACAATTAAAGCATCCTCTCCATTC
1 TTAGCAAACCTTAATTTAACATATAATTGTTCATAACACAATTAAAGCATCCTCTCCATTC
84290559 CATCGATTCA
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
60 32 0.55
61 22 0.38
62 4 0.07
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.36
Consensus pattern (62 bp):
TTAGCAAACCTTAATTTAACATATAATTGTTCATAACACAATTAAAGCATCCTCTCCATTCT
Found at i:84304302 original size:48 final size:48
Alignment explanation
Indices: 84304224--84304443 Score: 195
Period size: 48 Copynumber: 4.6 Consensus size: 48
84304214 AGCTTCTGTA
* * * * * *
84304224 TAAGACCATATTTGGGATATGACATCGGCATCGTTATGTGATCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
* * * *
84304272 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGAGAACATCGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATC-CCATG
*
84304321 TAAGACCATAGT-TGGG-CTAT--CA---GCTTCGATATGTGTGATCCCATG
1 TAAGACCAT-GTCTGGGAC-ATGGCATTGGCATCGATA--TGTGATCCCATG
* *
84304366 TAAGACCATGTCTGGGACATGGCATTGGTATCGATAAGTTG-TCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCATCGATATG-TGATCCCATG
* *
84304414 TAAGACCATATCTGGGATATGGCATTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
84304444 CCTACTATGT
Statistics
Matches: 138, Mismatches: 21, Indels: 26
0.75 0.11 0.14
Matches are distributed among these distances:
44 10 0.07
45 18 0.13
46 6 0.04
47 4 0.03
48 71 0.51
49 20 0.14
50 9 0.07
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATG
Found at i:84323241 original size:28 final size:28
Alignment explanation
Indices: 84323209--84323302 Score: 109
Period size: 28 Copynumber: 3.4 Consensus size: 28
84323199 TATTTATATG
* *
84323209 TGGCACTTAACGTGCGAAGTATCGGGGA
1 TGGCACTTAGCGTGCGAAGTATCGAGGA
* * *
84323237 TGGCACTTAGCGTGCGATA-CATCTAGAA
1 TGGCACTTAGCGTGCGA-AGTATCGAGGA
* *
84323265 TGGCACTTAGTGTGCGAAGTAACGAGGA
1 TGGCACTTAGCGTGCGAAGTATCGAGGA
84323293 TGGCACTTAG
1 TGGCACTTAG
84323303 TGTGTGAAAC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.02
28 52 0.96
29 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.23
Consensus pattern (28 bp):
TGGCACTTAGCGTGCGAAGTATCGAGGA
Found at i:84323295 original size:56 final size:56
Alignment explanation
Indices: 84323209--84323335 Score: 155
Period size: 56 Copynumber: 2.3 Consensus size: 56
84323199 TATTTATATG
** * * * * *
84323209 TGGCACTTAACGTGCGAAGTATCGGGGATGGCACTTAGCGTGCGATACATCTAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGCGTGCGAAACACCCAGAA
* *
84323265 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGTGTGTGAAACACCCAGAA
1 TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGCGTGCGAAACACCCAGAA
* *
84323321 CGACACTTAGTGTGC
1 TGGCACTTAGTGTGC
84323336 AAGGTATCGG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (56 bp):
TGGCACTTAGTGTGCGAAGTAACGAGGATGGCACTTAGCGTGCGAAACACCCAGAA
Found at i:84323464 original size:32 final size:32
Alignment explanation
Indices: 84323428--84323507 Score: 142
Period size: 32 Copynumber: 2.5 Consensus size: 32
84323418 TACGAGATGA
*
84323428 TACAGGTATCTACGGAAATTGGTACAATATAG
1 TACAGGTATGTACGGAAATTGGTACAATATAG
*
84323460 TACAGGTATGTACGGAAATTGGTACAATATGG
1 TACAGGTATGTACGGAAATTGGTACAATATAG
84323492 TACAGGTATGTACGGA
1 TACAGGTATGTACGGA
84323508 GATTCAATTG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.35, C:0.11, G:0.26, T:0.28
Consensus pattern (32 bp):
TACAGGTATGTACGGAAATTGGTACAATATAG
Found at i:84326038 original size:46 final size:47
Alignment explanation
Indices: 84325967--84326238 Score: 186
Period size: 47 Copynumber: 5.8 Consensus size: 47
84325957 TGTGTATGCT
* * * *
84325967 AGTGTAA-AACATGTCTGGGATAT-GCATTGGCATTGAGACGAGAGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGA-GAGAGTC
* *
84326013 AGTGTAAGA-CATGTCTAGGACAT-GCATCGGC-TAG-GAGATGTGTC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAGA-GAGTC
* * * *
84326057 AGTATAAGACCATG-CTTAGGACATGACATCGGCATGGATATGTGAGAG-C
1 AGTGTAAGACCATGTC-TAGGACATGGCATCGGCATTG--A-GAGAGAGTC
* * ** *
84326106 TAGTGTAAGACCATGTCTAGGACATGGCATCGACCTTGATTTCGATAGTC
1 -AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGA--GAGAGAGTC
* * * *
84326156 AGTGTAAGACCATGTCTGGGACATGGCAT-TGAATTGATG-GATGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGA-GAGA-GAGTC
* *
84326203 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCATT
84326239 ATACCCTATG
Statistics
Matches: 182, Mismatches: 28, Indels: 30
0.76 0.12 0.12
Matches are distributed among these distances:
43 2 0.01
44 15 0.08
45 14 0.08
46 35 0.19
47 36 0.20
48 9 0.05
49 34 0.19
50 33 0.18
51 4 0.02
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGAGAGAGTC
Found at i:84331005 original size:92 final size:93
Alignment explanation
Indices: 84330888--84331059 Score: 260
Period size: 92 Copynumber: 1.9 Consensus size: 93
84330878 GACTAGAGCT
* * *
84330888 AGTGTAAGACATGTCTGGGACATGGCATC-AGCACGTATAGAGGTGTCAATGTAAGA-CATGTTT
1 AGTGTAAAACATGTCTGGGACATGGCATCGA-CACGTATAGAGATGTCAATGTAAGACCATGTCT
*
84330951 GGGACAT-GCATCGGCTACAAGATGCGTC
65 AGGACATGGCATCGGCTACAAGATGCGTC
*
84330979 AGTGTAAAACCATGTCTGGGACATGGCATCGACACGTATAGAGATGTCAGTGTAAGACCATGTCT
1 AGTGTAAAA-CATGTCTGGGACATGGCATCGACACGTATAGAGATGTCAATGTAAGACCATGTCT
84331044 AGGACATGGCATCGGC
65 AGGACATGGCATCGGC
84331060 CTCGATTTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
91 8 0.11
92 43 0.60
93 13 0.18
94 8 0.11
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (93 bp):
AGTGTAAAACATGTCTGGGACATGGCATCGACACGTATAGAGATGTCAATGTAAGACCATGTCTA
GGACATGGCATCGGCTACAAGATGCGTC
Found at i:84331152 original size:95 final size:97
Alignment explanation
Indices: 84330979--84331152 Score: 255
Period size: 95 Copynumber: 1.8 Consensus size: 97
84330969 AAGATGCGTC
* *
84330979 AGTGTAAAACCATGTCTGGGACATGGCATCGACACGTATAGAGATGTCAGTGTAAGACCATGTCT
1 AGTGTAAAACCATGTCTGGGACATGGCATCGACACGTATAGAGATGCCAGTGCAAGACCATGTCT
84331044 AGGACATGGCATCGGCCTCGATTTCAATAATA
66 AGGACATGGCATCGGCCTCGATTTCAATAATA
* ** *
84331076 AGTGTAAGACCATGTCTGGGACATGGCATCG-CTTG-ATGGATGA-GCCAGTGCAAGACCATGTC
1 AGTGTAAAACCATGTCTGGGACATGGCATCGACACGTATAGA-GATGCCAGTGCAAGACCATGTC
*
84331138 TGGGACATGGCATCG
65 TAGGACATGGCATCG
84331153 ACATTATACC
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
95 35 0.51
96 4 0.06
97 30 0.43
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (97 bp):
AGTGTAAAACCATGTCTGGGACATGGCATCGACACGTATAGAGATGCCAGTGCAAGACCATGTCT
AGGACATGGCATCGGCCTCGATTTCAATAATA
Found at i:84338572 original size:47 final size:46
Alignment explanation
Indices: 84338499--84338826 Score: 257
Period size: 47 Copynumber: 6.9 Consensus size: 46
84338489 TTATTTGTGT
84338499 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-CACATTATGAGA
* *
84338545 GCTAGTGTAAGACCATGTCTGGTACATGGCATCG-GCATTGA-GACTAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGCACATT-ATG---AGA
*
84338593 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCAGCAC-GTAT-AGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-GCACATTATGAGA
* *
84338637 GGTGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCACATATATGTGAGA
1 -G-CT-AGTGTAAGACCATGTCTGGGACATGGCATC-GCACAT-TA--TGAGA
* * *
84338690 GCTAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATT-TCGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATC-G-CAC-ATTAT-GAGA
** * *
84338739 G-TCAGTGTAAGACCATGTCTGGGACATGGTGTC-AAC-TTGATGGATAA
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCGCACATT-AT-GA-GA
*
84338786 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG-ACATTAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGCACATTAT
84338827 ACCCTATGTT
Statistics
Matches: 230, Mismatches: 24, Indels: 55
0.74 0.08 0.18
Matches are distributed among these distances:
44 5 0.02
45 6 0.03
46 18 0.08
47 77 0.33
48 49 0.21
49 32 0.14
50 32 0.14
51 4 0.02
52 4 0.02
53 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGCACATTATGAGA
Found at i:84338994 original size:53 final size:53
Alignment explanation
Indices: 84338914--84339019 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
84338904 CGAGAAAAGT
84338914 ATAACCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGTGAG
1 ATAACCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGTGAG
*
84338967 ATAACCATGTTGTGAGTGGTATAGGTACCTATTTGAAATGTATGAGATGTGAG
1 ATAACCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGTGAG
84339020 CTCAATATAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.33
Consensus pattern (53 bp):
ATAACCATGTTGTGAGTGGTACAGGTACCTATTTGAAATGTATGAGATGTGAG
Found at i:84343950 original size:35 final size:35
Alignment explanation
Indices: 84343904--84344082 Score: 227
Period size: 35 Copynumber: 5.1 Consensus size: 35
84343894 CATGATTCAA
* * * *
84343904 AACTCAGTATGGTTAATACCATACCTATGTTTCAC
1 AACTCAGTATGGATAATACCATACCTACGTATCAT
*
84343939 AACTC-GATATGGGA-AATACCATACCTACATATCAT
1 AACTCAG-TAT-GGATAATACCATACCTACGTATCAT
* *
84343974 AGCTCAGTATGGAAAATACCATACCTACGTATCAT
1 AACTCAGTATGGATAATACCATACCTACGTATCAT
*
84344009 AGCTCAGTATGGATAATACCATACCTACGTATCAT
1 AACTCAGTATGGATAATACCATACCTACGTATCAT
* * *
84344044 ATCTCAGTATGGATAATACCATACCTATGTGTCAT
1 AACTCAGTATGGATAATACCATACCTACGTATCAT
84344079 AACT
1 AACT
84344083 TTTCCATGGA
Statistics
Matches: 128, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
34 4 0.03
35 121 0.95
36 3 0.02
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (35 bp):
AACTCAGTATGGATAATACCATACCTACGTATCAT
Found at i:84347254 original size:37 final size:38
Alignment explanation
Indices: 84347191--84347265 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
84347181 TAGTAATTAA
84347191 ATAATGGTTAATAAAAATAAAACAAAGCCAAATTTGCT
1 ATAATGGTTAATAAAAATAAAACAAAGCCAAATTTGCT
84347229 ATAATGGTTAAT-AAAATAAAACAAAGCCAAATTTGCT
1 ATAATGGTTAATAAAAATAAAACAAAGCCAAATTTGCT
84347266 TCATCTTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 25 0.68
38 12 0.32
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.27
Consensus pattern (38 bp):
ATAATGGTTAATAAAAATAAAACAAAGCCAAATTTGCT
Found at i:84349734 original size:25 final size:25
Alignment explanation
Indices: 84349677--84349752 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
84349667 AAGTGTTATA
84349677 CAGAGAGCAC-AGATGTGCT-A-AA-
1 CAGAGAGCACTA-ATGTGCTAATAAT
*
84349699 CGGAGAGCACTAATGTGCTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
* *
84349724 CAGAGAGCACTAACGTACTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
84349749 CAGA
1 CAGA
84349753 TAGCGCGCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
22 16 0.35
23 2 0.04
24 2 0.04
25 26 0.57
ACGTcount: A:0.41, C:0.18, G:0.22, T:0.18
Consensus pattern (25 bp):
CAGAGAGCACTAATGTGCTAATAAT
Found at i:84350219 original size:53 final size:52
Alignment explanation
Indices: 84350114--84350217 Score: 185
Period size: 53 Copynumber: 2.0 Consensus size: 52
84350104 ACAATAACAC
84350114 TTACCTCATACTTCACTTACCATACACATAATTTAACATTTAACATTTAATAA
1 TTACCTCATACTTCACTTACCATACACATAATTTAACA-TTAACATTTAATAA
84350167 TTACCTCATACTTCACTTACCATACACATAATTTAA-A-TAACATTTAATAA
1 TTACCTCATACTTCACTTACCATACACATAATTTAACATTAACATTTAATAA
84350217 T
1 T
84350218 AAATAATTTG
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
50 14 0.27
52 1 0.02
53 36 0.71
ACGTcount: A:0.40, C:0.22, G:0.00, T:0.38
Consensus pattern (52 bp):
TTACCTCATACTTCACTTACCATACACATAATTTAACATTAACATTTAATAA
Found at i:84352007 original size:27 final size:27
Alignment explanation
Indices: 84351959--84352117 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
84351949 GCGAGGCTAC
* *
84351959 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
84351986 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
84352012 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
84352039 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
84352066 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
84352093 TAGATAATTGTGGCATATCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
84352118 GACGCTTCCT
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 100 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.21, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:84352118 original size:54 final size:54
Alignment explanation
Indices: 84351977--84352120 Score: 236
Period size: 54 Copynumber: 2.7 Consensus size: 54
84351967 GTGACGAAGT
* *
84351977 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
84352031 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
* *
84352085 CACCAGATTAGATAATTGTGGCATATCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
84352121 GCTTCCTCCA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
53 5 0.06
54 80 0.94
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:84355245 original size:20 final size:21
Alignment explanation
Indices: 84355220--84355273 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
84355210 CAATCAGTAT
*
84355220 ACGACACATAAG-TGCCTGAA
1 ACGACACACAAGATGCCTGAA
*
84355240 ACGACACACGAGATGCCTGAAA
1 ACGACACACAAGATGCCTG-AA
84355262 TACGACACACAA
1 -ACGACACACAA
84355274 AGTGCTTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.36
21 6 0.21
22 2 0.07
23 10 0.36
ACGTcount: A:0.43, C:0.28, G:0.19, T:0.11
Consensus pattern (21 bp):
ACGACACACAAGATGCCTGAA
Found at i:84364247 original size:21 final size:22
Alignment explanation
Indices: 84364221--84364261 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
84364211 CTCTTAAAAC
84364221 AGGGGC-ACACACCCGTGTGGG
1 AGGGGCAACACACCCGTGTGGG
*
84364242 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACACCCGTGTG
84364262 ACATTTCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACACCCGTGTGGG
Found at i:84367672 original size:21 final size:21
Alignment explanation
Indices: 84367656--84367698 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
84367646 TGTATGCTAT
*
84367656 ATATGTTCTGTAATATGATAA
1 ATATGCTCTGTAATATGATAA
*
84367677 ATATGCTCTGTAATAAGATAA
1 ATATGCTCTGTAATATGATAA
84367698 A
1 A
84367699 ATTAACCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (21 bp):
ATATGCTCTGTAATATGATAA
Found at i:84373872 original size:279 final size:280
Alignment explanation
Indices: 84373372--84373935 Score: 943
Period size: 279 Copynumber: 2.0 Consensus size: 280
84373362 AGGTATTAGA
* * *
84373372 GTTGACCCAAGCAAGATTTCTGCAATTATAGATTGGAAACCTTCGAGAAATGTATTTGAAGTCTG
1 GTTGACCCAAGCAAGATTTCTGCAATTATAGATTGGAAACCTTCAAGAAATGTATCTGAAGTCTA
*
84373437 AAGTTTTCTACGACTAGCTGGCTATTATTGACATTTTATGAAAGGATTTTCTATGATTGCAACAC
66 AAGTTTTCTACGACTAGCTAGCTATTATTGACATTTTATGAAAGGATTTTCTATGATTGCAACAC
* * *
84373502 CATTGACTCAATTACTTTAGAAAGATGTAAAGTTCGAATGGTCTAAGAAGTGTCAACAGGGTTTC
131 CATTGACTCAATTACTTCAGAAAGATGTAAAGTTCAAATGGTCTAAGAAGTGTCAACAGAGTTTC
*
84373567 GAACAGTTGAAAGCATTATTGACAGAGGCA-CTGGTGTTAGTACAGCCTGAGTCGGGTAAGGAAT
196 GAACAGTTGAAAGCATTATTGACAGAGGCAGC-AGTGTTAGTACAGCCTGAGTCGGGTAAGGAAT
84373631 TC-TAATTTTTAGTGATGCGT
260 TCGTAATTTTTAGTGATGCGT
* *
84373651 GTTGACCCGAGCAAGATTTCTGCAATTATAGATTGGAATCCTTCAAGAAATGTATCTGAAGTCTA
1 GTTGACCCAAGCAAGATTTCTGCAATTATAGATTGGAAACCTTCAAGAAATGTATCTGAAGTCTA
* * * * *
84373716 AAGTTTTCTATGACTAGCTAGCTATTATTGACGTTTTGTGAAATGTTTTTCTATGATTGCAACAC
66 AAGTTTTCTACGACTAGCTAGCTATTATTGACATTTTATGAAAGGATTTTCTATGATTGCAACAC
* *
84373781 CATTGACTCGATTACTTCAGAAAGATGTAAAGTTCAAATGGTCTAAGAAGTGTCAACAGAGTTTG
131 CATTGACTCAATTACTTCAGAAAGATGTAAAGTTCAAATGGTCTAAGAAGTGTCAACAGAGTTTC
*
84373846 GAATAGTTGAAAGCATTATTGACAGAGGCAGCAGTGTTAGTACAGCCTGAGTCGGGTAAGGAATT
196 GAACAGTTGAAAGCATTATTGACAGAGGCAGCAGTGTTAGTACAGCCTGAGTCGGGTAAGGAATT
84373911 CGTAATTTTTAGTGATGCGT
261 CGTAATTTTTAGTGATGCGT
84373931 GTTGA
1 GTTGA
84373936 ACGGTCTGGG
Statistics
Matches: 265, Mismatches: 18, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
279 241 0.91
280 24 0.09
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.33
Consensus pattern (280 bp):
GTTGACCCAAGCAAGATTTCTGCAATTATAGATTGGAAACCTTCAAGAAATGTATCTGAAGTCTA
AAGTTTTCTACGACTAGCTAGCTATTATTGACATTTTATGAAAGGATTTTCTATGATTGCAACAC
CATTGACTCAATTACTTCAGAAAGATGTAAAGTTCAAATGGTCTAAGAAGTGTCAACAGAGTTTC
GAACAGTTGAAAGCATTATTGACAGAGGCAGCAGTGTTAGTACAGCCTGAGTCGGGTAAGGAATT
CGTAATTTTTAGTGATGCGT
Found at i:84382076 original size:11 final size:11
Alignment explanation
Indices: 84382060--84382089 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
84382050 TACCCAGGAA
84382060 AGATTTCACCT
1 AGATTTCACCT
84382071 AGATTTCACCT
1 AGATTTCACCT
84382082 AGATTTCA
1 AGATTTCA
84382090 TATGTCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (11 bp):
AGATTTCACCT
Found at i:84383712 original size:13 final size:13
Alignment explanation
Indices: 84383696--84383720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
84383686 TCAATCAAAT
84383696 ATATATTTTTTTG
1 ATATATTTTTTTG
84383709 ATATATTTTTTT
1 ATATATTTTTTT
84383721 CTTTTTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATATATTTTTTTG
Found at i:84386316 original size:5 final size:5
Alignment explanation
Indices: 84386269--84386327 Score: 55
Period size: 5 Copynumber: 10.8 Consensus size: 5
84386259 AACGATAATA
* *
84386269 AAAAT AAAACT GAATAT AAAACT AATAAT AATAAT AAAGT AAAAT AAAAT
1 AAAAT AAAA-T -AAAAT AAAA-T AA-AAT AA-AAT AAAAT AAAAT AAAAT
84386319 AAAAT AAAA
1 AAAAT AAAA
84386328 AATTGTAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 27 0.59
6 14 0.30
7 5 0.11
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:84386316 original size:10 final size:10
Alignment explanation
Indices: 84386269--84386327 Score: 55
Period size: 12 Copynumber: 5.4 Consensus size: 10
84386259 AACGATAATA
84386269 AAAATAAAACT
1 AAAATAAAA-T
*
84386280 GAATATAAAACT
1 -AAAATAAAA-T
84386292 AATAATAATAAT
1 AA-AATAA-AAT
*
84386304 AAAGTAAAAT
1 AAAATAAAAT
84386314 AAAATAAAAT
1 AAAATAAAAT
84386324 AAAA
1 AAAA
84386328 AATTGTAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 16 0.39
11 6 0.15
12 17 0.41
13 2 0.05
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:84386319 original size:15 final size:16
Alignment explanation
Indices: 84386263--84386327 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 16
84386253 TATACTAACG
84386263 ATAATAAAAATAAAACTGA
1 ATAAT-AAAATAAAA-T-A
84386282 AT-ATAAAACTAATAATA
1 ATAATAAAA-TAA-AATA
*
84386299 ATAATAAAGTAAAATA
1 ATAATAAAATAAAATA
84386315 A-AATAAAATAAAA
1 ATAATAAAATAAAA
84386328 AATTGTAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
15 11 0.27
16 5 0.12
17 10 0.24
18 11 0.27
19 4 0.10
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (16 bp):
ATAATAAAATAAAATA
Found at i:84397493 original size:20 final size:20
Alignment explanation
Indices: 84397464--84397518 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
84397454 ATTAGAATGT
84397464 AAAA-ATTAAATTAAAAACA
1 AAAATATTAAATTAAAAACA
* *
84397483 AAAATATTAAAGTAAAAATA
1 AAAATATTAAATTAAAAACA
*
84397503 AAAATGGTTAAATTAA
1 AAAAT-ATTAAATTAA
84397519 TAGAAATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 4 0.13
20 18 0.60
21 8 0.27
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAATATTAAATTAAAAACA
Found at i:84399639 original size:25 final size:25
Alignment explanation
Indices: 84399610--84399682 Score: 137
Period size: 25 Copynumber: 2.9 Consensus size: 25
84399600 TAAATAACAT
*
84399610 TATTTATTTATATAAAACATTATTA
1 TATTTATTTATATAAAATATTATTA
84399635 TATTTATTTATATAAAATATTATTA
1 TATTTATTTATATAAAATATTATTA
84399660 TATTTATTTATATAAAATATTAT
1 TATTTATTTATATAAAATATTAT
84399683 GATGTTACTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 47 1.00
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.55
Consensus pattern (25 bp):
TATTTATTTATATAAAATATTATTA
Found at i:84410815 original size:48 final size:47
Alignment explanation
Indices: 84410759--84410850 Score: 148
Period size: 48 Copynumber: 1.9 Consensus size: 47
84410749 GACATCGGAG
* *
84410759 GAGATCTCAGTAGCAGTCGTCGCGAATCAGGTGTGTACCGAACANGAA
1 GAGATCTCAGTAGCAGTCGTCCCGAATCAAGTGTGTACCGAACA-GAA
*
84410807 GAGATCTCAGTAGCAGTCGTCCCGAATTAAGTGTGTACCGAACA
1 GAGATCTCAGTAGCAGTCGTCCCGAATCAAGTGTGTACCGAACA
84410851 CCCTTTCTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.21
Consensus pattern (47 bp):
GAGATCTCAGTAGCAGTCGTCCCGAATCAAGTGTGTACCGAACAGAA
Found at i:84412453 original size:23 final size:23
Alignment explanation
Indices: 84412427--84412477 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 23
84412417 ATATATTTTT
84412427 GACTTAATATTTGTAT-TATGCCA
1 GACTTAATATTT-TATATATGCCA
84412450 GACTTAATATTTTATACTATGCCA
1 GACTTAATATTTTATA-TATGCCA
84412474 -ACTT
1 GACTT
84412478 GATAATTACG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 3 0.12
23 16 0.62
24 7 0.27
ACGTcount: A:0.31, C:0.16, G:0.10, T:0.43
Consensus pattern (23 bp):
GACTTAATATTTTATATATGCCA
Found at i:84414516 original size:18 final size:19
Alignment explanation
Indices: 84414493--84414533 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
84414483 CATGAGTTTC
84414493 TTTGTTT-TATTTTT-TTTA
1 TTTGTTTCT-TTTTTCTTTA
84414511 TTTGTTTCTTTTTTCTTTA
1 TTTGTTTCTTTTTTCTTTA
84414530 TTTG
1 TTTG
84414534 ATTGGGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (19 bp):
TTTGTTTCTTTTTTCTTTA
Found at i:84427148 original size:21 final size:21
Alignment explanation
Indices: 84427124--84427164 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
84427114 AGGAAAAAAC
84427124 AATTAAAGAAG-AGAAAGATTG
1 AATTAAA-AAGAAGAAAGATTG
*
84427145 AATTAAAAAGAATAAAGATT
1 AATTAAAAAGAAGAAAGATT
84427165 ACGAAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (21 bp):
AATTAAAAAGAAGAAAGATTG
Found at i:84431865 original size:18 final size:18
Alignment explanation
Indices: 84431828--84431891 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
84431818 TATGCGGCAA
*
84431828 AAAAATAA-AAAA-TAAT
1 AAAAATAATAAAATTTAT
84431844 -AAAATAATAAAATTTAT
1 AAAAATAATAAAATTTAT
* *
84431861 AAAAATGACTAAATTTTAAT
1 AAAAAT-AATAAAATTT-AT
84431881 AAAAAT-ATAAA
1 AAAAATAATAAA
84431892 TATATGCTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
15 7 0.18
16 4 0.10
17 3 0.08
18 9 0.23
19 8 0.21
20 8 0.21
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAAATAATAAAATTTAT
Found at i:84431892 original size:18 final size:19
Alignment explanation
Indices: 84431840--84431892 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 19
84431830 AAATAAAAAA
*
84431840 TAAT-AAAATAATAAAATT
1 TAATAAAAATAATAAATTT
*
84431858 T-ATAAAAATGACTAAATTT
1 TAATAAAAAT-AATAAATTT
84431877 TAATAAAAAT-ATAAAT
1 TAATAAAAATAATAAAT
84431893 ATATGCTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
17 2 0.07
18 11 0.38
19 8 0.28
20 8 0.28
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
TAATAAAAATAATAAATTT
Found at i:84431916 original size:12 final size:12
Alignment explanation
Indices: 84431901--84431925 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84431891 ATATATGCTT
84431901 AAAATTAGAAAA
1 AAAATTAGAAAA
84431913 AAAATTAGAAAA
1 AAAATTAGAAAA
84431925 A
1 A
84431926 TCGTAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAATTAGAAAA
Found at i:84431937 original size:22 final size:22
Alignment explanation
Indices: 84431909--84431955 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
84431899 TTAAAATTAG
*
84431909 AAAAAAAATTA-GAAAAATCGT
1 AAAAAAAATTATAAAAAATCGT
*
84431930 AAAAAAAATTATAAAAAATTGT
1 AAAAAAAATTATAAAAAATCGT
84431952 AAAA
1 AAAA
84431956 TTTTATAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.21
Consensus pattern (22 bp):
AAAAAAAATTATAAAAAATCGT
Found at i:84432404 original size:9 final size:9
Alignment explanation
Indices: 84432388--84432448 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
84432378 GGTATTTTTC
84432388 GGTAATTCG
1 GGTAATTCG
*
84432397 GTTAATTCG
1 GGTAATTCG
*
84432406 GTTAATTCG
1 GGTAATTCG
84432415 GGTAATTCG
1 GGTAATTCG
84432424 GGTAATTCG
1 GGTAATTCG
*
84432433 GGTAATTCA
1 GGTAATTCG
84432442 GGTAATT
1 GGTAATT
84432449 TTTAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.25, C:0.10, G:0.28, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:84432589 original size:12 final size:12
Alignment explanation
Indices: 84432572--84432596 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84432562 AGTAATTTCG
84432572 GGTCGGTTAACC
1 GGTCGGTTAACC
84432584 GGTCGGTTAACC
1 GGTCGGTTAACC
84432596 G
1 G
84432597 AATGAACACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:84445894 original size:7 final size:7
Alignment explanation
Indices: 84445884--84445908 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
84445874 AAAATTGGAA
84445884 ATTGAGG
1 ATTGAGG
84445891 ATTGAGG
1 ATTGAGG
84445898 ATTGAGG
1 ATTGAGG
84445905 ATTG
1 ATTG
84445909 GGAATTTAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.40, T:0.32
Consensus pattern (7 bp):
ATTGAGG
Found at i:84445894 original size:14 final size:14
Alignment explanation
Indices: 84445855--84445919 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 14
84445845 ATTTAAAAAT
*
84445855 AATTGAGGATTGAA
1 AATTGAGGATTGGA
* **
84445869 AATTCAAAATTGGA
1 AATTGAGGATTGGA
84445883 AATTGAGGATT-GA
1 AATTGAGGATTGGA
* *
84445896 GGATTGAGGATTGGG
1 -AATTGAGGATTGGA
*
84445911 AATTTAGGA
1 AATTGAGGA
84445920 CATAAGAATG
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
13 2 0.05
14 35 0.92
15 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.31, T:0.29
Consensus pattern (14 bp):
AATTGAGGATTGGA
Found at i:84446339 original size:30 final size:31
Alignment explanation
Indices: 84446290--84446352 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
84446280 ACTTATTTTA
*
84446290 TTATTAATTTTTTTTATTATTTTAAAGACAT
1 TTATTAATTTTTGTTATTATTTTAAAGACAT
*
84446321 TTATTAA-TTTTGTTATTATTTTAGAGACAT
1 TTATTAATTTTTGTTATTATTTTAAAGACAT
84446351 TT
1 TT
84446353 GCTTGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 23 0.77
31 7 0.23
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.60
Consensus pattern (31 bp):
TTATTAATTTTTGTTATTATTTTAAAGACAT
Found at i:84446507 original size:12 final size:12
Alignment explanation
Indices: 84446477--84446509 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
84446467 AATGTATTTT
84446477 AAAATT-ATATA
1 AAAATTAATATA
84446488 AAAA-TAATATA
1 AAAATTAATATA
84446499 AAAATTAATAT
1 AAAATTAATAT
84446510 GGGCGGGACG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:84455016 original size:58 final size:57
Alignment explanation
Indices: 84454915--84455032 Score: 157
Period size: 58 Copynumber: 2.1 Consensus size: 57
84454905 AGGGAAAGTG
* * * *
84454915 ATTGGACGGAAAAACGTTCCTCTCATCAGGTTTTTCTCCATAGAGTTTTTGAAAAAA
1 ATTGGGCGGAAAAACGCTCCTCCCATCAGGTTTTTCTCCATAGAATTTTTGAAAAAA
* *
84454972 ATTNGGGCGGAAAAACGCTCTTCCCATCAGGTTCTTT-TCTATAGAATTTTTGAAAAAA
1 ATT-GGGCGGAAAAACGCTCCTCCCATCAGGTT-TTTCTCCATAGAATTTTTGAAAAAA
84455030 ATT
1 ATT
84455033 TGTTGCTTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
57 3 0.06
58 47 0.89
59 3 0.06
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (57 bp):
ATTGGGCGGAAAAACGCTCCTCCCATCAGGTTTTTCTCCATAGAATTTTTGAAAAAA
Found at i:84461325 original size:17 final size:17
Alignment explanation
Indices: 84461303--84461338 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
84461293 AAATAGGTTA
84461303 CTTTTTTTTAGTCGTGC
1 CTTTTTTTTAGTCGTGC
84461320 CTTTTTTTTAGTCGTGC
1 CTTTTTTTTAGTCGTGC
84461337 CT
1 CT
84461339 ACCTGACAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.06, C:0.19, G:0.17, T:0.58
Consensus pattern (17 bp):
CTTTTTTTTAGTCGTGC
Found at i:84461377 original size:12 final size:11
Alignment explanation
Indices: 84461359--84461410 Score: 70
Period size: 11 Copynumber: 4.6 Consensus size: 11
84461349 CGCGACATAT
84461359 TATTTTATTAA
1 TATTTTATTAA
84461370 TAATTTTATTAA
1 T-ATTTTATTAA
*
84461382 TATTTTATTAT
1 TATTTTATTAA
84461393 TATTATTATT-A
1 TATT-TTATTAA
84461404 TATTTTA
1 TATTTTA
84461411 AAAAAATTTC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
10 3 0.08
11 18 0.49
12 16 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:84461386 original size:23 final size:22
Alignment explanation
Indices: 84461359--84461410 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
84461349 CGCGACATAT
84461359 TATTTTATTAATAATT-TTATTAA
1 TATTTTATT-ATAATTATTATT-A
*
84461382 TATTTTATTATTATTATTATTA
1 TATTTTATTATAATTATTATTA
84461404 TATTTTA
1 TATTTTA
84461411 AAAAAATTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 13 0.48
23 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TATTTTATTATAATTATTATTA
Found at i:84461392 original size:3 final size:3
Alignment explanation
Indices: 84461356--84461404 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
84461346 AGGCGCGACA
* *
84461356 TAT TAT T-T TAT TAAT AAT T-T TAT TAA TAT T-T TAT TAT TAT TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
84461399 TAT TAT
1 TAT TAT
84461405 ATTTTAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
2 6 0.16
3 30 0.79
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:84463540 original size:13 final size:13
Alignment explanation
Indices: 84463522--84463553 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
84463512 AAGATCATCA
84463522 AAAACTTGATTCG
1 AAAACTTGATTCG
84463535 AAAACTTGATTCG
1 AAAACTTGATTCG
84463548 AAAACT
1 AAAACT
84463554 ATTTGTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (13 bp):
AAAACTTGATTCG
Found at i:84465461 original size:19 final size:19
Alignment explanation
Indices: 84465399--84465453 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
84465389 AATATAATGC
84465399 AAAAAAA-TAATTTACATA
1 AAAAAAAGTAATTTACATA
84465417 AAAATAAAGTAATTTACATA
1 AAAA-AAAGTAATTTACATA
84465437 AAAAAAAGTAATTTACA
1 AAAAAAAGTAATTTACA
84465454 ATACAAAACC
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.11
19 16 0.46
20 15 0.43
ACGTcount: A:0.64, C:0.05, G:0.04, T:0.27
Consensus pattern (19 bp):
AAAAAAAGTAATTTACATA
Found at i:84465765 original size:18 final size:18
Alignment explanation
Indices: 84465728--84465767 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
84465718 CCGGGGTGTA
* *
84465728 GCTCCGGCTCTGGCTCTG
1 GCTCCGGCTCCGACTCTG
*
84465746 GCTCCGGCTCCGACTTTG
1 GCTCCGGCTCCGACTCTG
84465764 GCTC
1 GCTC
84465768 TAGGTCTACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.40, G:0.30, T:0.28
Consensus pattern (18 bp):
GCTCCGGCTCCGACTCTG
Found at i:84471924 original size:27 final size:27
Alignment explanation
Indices: 84471894--84472064 Score: 182
Period size: 27 Copynumber: 6.3 Consensus size: 27
84471884 TACTGCAATG
** *
84471894 CCCTCGATTTGTAGAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * * * *
84471921 CCCTTGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTACAAAATTACCATTTTA
* *
84471948 CCCTTGATTTATAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
* * *
84471975 CCCTCGATTTACAGAGTTATCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
*
84472002 CCTTCGATTTACAAAATTACCATTTTA
1 CCCTCGATTTACAAAATTACCATTTTA
**
84472029 CCCTC-AGTTTACAAAATTATTATTTTA
1 CCCTCGA-TTTACAAAATTACCATTTTA
84472056 CCCTCGATT
1 CCCTCGATT
84472065 GTGAAATTAC
Statistics
Matches: 123, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 121 0.98
28 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (27 bp):
CCCTCGATTTACAAAATTACCATTTTA
Found at i:84472020 original size:81 final size:81
Alignment explanation
Indices: 84471894--84472064 Score: 202
Period size: 81 Copynumber: 2.1 Consensus size: 81
84471884 TACTGCAATG
** * * * *
84471894 CCCTCGATTTGTAGAATTACCATTTTACCCTTGATTTATAGAATTACCGTTTCACCCT-TGATTT
1 CCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAAAATTACCATTTCACCCTCAG-TTT
*
84471958 ATAAAATTACCATTTTA
65 ACAAAATTACCATTTTA
* * *
84471975 CCCTCGATTTACAGAGTTATCATTTTA-CCTTCGATTTACAAAATTACCATTTTACCCTCAGTTT
1 CCCTCGATTTACAGAATTACCATTTTACCCTT-GATTTACAAAATTACCATTTCACCCTCAGTTT
**
84472039 ACAAAATTATTATTTTA
65 ACAAAATTACCATTTTA
84472056 CCCTCGATT
1 CCCTCGATT
84472065 GTGAAATTAC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 4 0.05
81 71 0.93
82 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (81 bp):
CCCTCGATTTACAGAATTACCATTTTACCCTTGATTTACAAAATTACCATTTCACCCTCAGTTTA
CAAAATTACCATTTTA
Found at i:84472086 original size:27 final size:27
Alignment explanation
Indices: 84472056--84472219 Score: 95
Period size: 27 Copynumber: 6.1 Consensus size: 27
84472046 TATTATTTTA
* *
84472056 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCTCGATTGTAAAATTACCGAAATAC
* * **
84472083 CCCT-G-TAAGATAGAATTACTAAAATAC
1 CCCTCGAT-TG-TAAAATTACCGAAATAC
* *
84472110 CCCTAGTTTGTAAAATTACCGAAATAC
1 CCCTCGATTGTAAAATTACCGAAATAC
* * * *
84472137 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCTCGATTGTAAAATTACCGAAATAC
* * *
84472163 CTCTCAATTTGTAAAATTACCAAAATAC
1 CCCTCGA-TTGTAAAATTACCGAAATAC
* *
84472191 CCCT-AATT-TACAAAATTACAGAAATAC
1 CCCTCGATTGT--AAAATTACCGAAATAC
84472218 CC
1 CC
84472220 TTGACTTTCT
Statistics
Matches: 109, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
25 2 0.02
26 7 0.06
27 94 0.86
28 5 0.05
29 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (27 bp):
CCCTCGATTGTAAAATTACCGAAATAC
Found at i:84472271 original size:27 final size:27
Alignment explanation
Indices: 84472197--84472282 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
84472187 ATACCCCTAA
* * *
84472197 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTACAAAATTACTGAAATACCATTG-G
*
84472225 TTT-CTAAAAATTA-TAAAAATACCATTGG
1 TTTAC--AAAATTACT-GAAATACCATTGG
*
84472253 TTTACAAAATTACTGAAATACCGTTGG
1 TTTACAAAATTACTGAAATACCATTGG
84472280 TTT
1 TTT
84472283 GTAGATTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
27 22 0.47
28 7 0.15
29 18 0.38
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTGAAATACCATTGG
Found at i:84473146 original size:20 final size:20
Alignment explanation
Indices: 84473123--84473173 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
84473113 TTGATATGAT
*
84473123 ATGCACTTGATATGTATAAA
1 ATGCACATGATATGTATAAA
*
84473143 ATGCACATGATATGTATGAA
1 ATGCACATGATATGTATAAA
84473163 ATGCACATGAT
1 ATGCACATGAT
84473174 GTATTCATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (20 bp):
ATGCACATGATATGTATAAA
Found at i:84473285 original size:52 final size:51
Alignment explanation
Indices: 84473223--84473335 Score: 208
Period size: 52 Copynumber: 2.2 Consensus size: 51
84473213 GAGGAAGTGC
*
84473223 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCG
84473275 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
84473326 AAAAGGGCTT
1 AAAAGGGCTT
84473336 TACCCTAGTT
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
51 24 0.40
52 36 0.60
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:84473345 original size:25 final size:26
Alignment explanation
Indices: 84473223--84473335 Score: 174
Period size: 26 Copynumber: 4.4 Consensus size: 26
84473213 GAGGAAGTGC
**
84473223 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
84473249 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
84473275 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
84473301 AAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
84473326 AAAAGGGCTT
1 AAAAGGGCTT
84473336 TACCCTAGTT
Statistics
Matches: 79, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 23 0.29
26 56 0.71
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:84473550 original size:42 final size:42
Alignment explanation
Indices: 84473491--84473582 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
84473481 TAGTCTCCCC
* * ** *
84473491 AAATGGGATTGCATACATTCATTGGTATTTCATATGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
*
84473533 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
84473575 AAATGGGC
1 AAATGGGC
84473583 CTATGGGCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATATGATATTG
Done.