Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 74 of 175
Found at i:22213832 original size:50 final size:50
Alignment explanation
Indices: 22213760--22214001 Score: 229
Period size: 50 Copynumber: 4.9 Consensus size: 50
22213750 CATTTGGATA
* * *
22213760 AAGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCAGCGAGAT
1 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
*
22213810 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGAT
1 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * * *
22213860 GAGAGGTC-CCTCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCTCAT-GTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * * * *
22213910 GAGAACTCTCATGTAAGACCATATATGGGATATGGCATTGGCA--GTACAA
1 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGAT
* ** * * *
22213959 AAAACATCCCATGTAAGACCATGTTTGGGACATGGCTTTGGCA
1 AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
22214002 TGTTATTATC
Statistics
Matches: 161, Mismatches: 28, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.01
49 38 0.24
50 120 0.75
51 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (50 bp):
AAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:22213939 original size:100 final size:100
Alignment explanation
Indices: 22213761--22213952 Score: 260
Period size: 100 Copynumber: 1.9 Consensus size: 100
22213751 ATTTGGATAA
* * * **
22213761 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCAGCGAGATAAGAGGTCTCATGTAA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCATGGGCACCGAGATAAGAACTCTCATGTAA
* * *
22213826 GACCATGTCTGGGACATGGCGTTGGCACCAAGATG
66 GACCATATATGGGACATGGCATTGGCACCAAGATG
* * *
22213861 AGAGGTCCC-TCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCTCATGTA
1 AGAGGTCCCAT-GTAAGACCATGTCTGGGACATAGCATGGGCACCGAGATAAGAACTCTCATGTA
*
22213925 AGACCATATATGGGATATGGCATTGGCA
65 AGACCATATATGGGACATGGCATTGGCA
22213953 GTACAAAAAA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 1 0.01
100 78 0.99
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (100 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCATGGGCACCGAGATAAGAACTCTCATGTAA
GACCATATATGGGACATGGCATTGGCACCAAGATG
Found at i:22255422 original size:40 final size:40
Alignment explanation
Indices: 22255362--22255548 Score: 329
Period size: 40 Copynumber: 4.7 Consensus size: 40
22255352 AGCATTGGAT
* *
22255362 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
*
22255402 TATATCCGGGCTATGGCCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
22255442 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
22255482 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
* *
22255522 TATATCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTATGACCCGAAGGCAA
22255549 ATGTGTTTGC
Statistics
Matches: 141, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 141 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
Found at i:22264114 original size:40 final size:40
Alignment explanation
Indices: 22264056--22264362 Score: 526
Period size: 40 Copynumber: 7.7 Consensus size: 40
22264046 AGCATTGGAT
22264056 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
22264096 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
22264136 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
22264176 TATACCCGGGCTATA-ACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTA-AGACCCGAAGGCAATTATGCGAGTTGA
22264216 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
22264256 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
22264296 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
22264336 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
22264363 ATGTGTTTGC
Statistics
Matches: 251, Mismatches: 14, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
39 1 0.00
40 249 0.99
41 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:22285269 original size:40 final size:40
Alignment explanation
Indices: 22285211--22285557 Score: 604
Period size: 40 Copynumber: 8.7 Consensus size: 40
22285201 AGCATTGGAT
*
22285211 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
22285251 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
22285291 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
22285331 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
22285371 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
22285411 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
22285451 TATATCCGGGCTATGACCCGAAGGCAATTATGCGAGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
*
22285491 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
* *
22285531 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
22285558 ATGTGTTTGC
Statistics
Matches: 293, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 293 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGATGA
Found at i:22287524 original size:19 final size:19
Alignment explanation
Indices: 22287497--22287533 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
22287487 TTATAACTGA
22287497 TCTTAATTAATTAATTTTT
1 TCTTAATTAATTAATTTTT
*
22287516 TCTTCATTAATTAATTTT
1 TCTTAATTAATTAATTTT
22287534 GTAATTAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (19 bp):
TCTTAATTAATTAATTTTT
Found at i:22289542 original size:6 final size:6
Alignment explanation
Indices: 22289533--22289562 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
22289523 ATGCATGTGC
22289533 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
1 GTGTAT GTGTAT GTGTAT GTGTAT GTGTAT
22289563 TGGAGGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
GTGTAT
Found at i:22297476 original size:120 final size:120
Alignment explanation
Indices: 22297244--22297502 Score: 296
Period size: 120 Copynumber: 2.2 Consensus size: 120
22297234 TTGAATGATG
* * *
22297244 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
22297309 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
* * **
22297364 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
22297427 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAA
* *
22297484 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22297503 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
119 18 0.15
120 91 0.76
121 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:22297483 original size:40 final size:40
Alignment explanation
Indices: 22297244--22297469 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
22297234 TTGAATGATG
* * * *
22297244 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
22297284 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22297324 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22297364 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22297404 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22297445 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22297470 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 160 0.94
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22305571 original size:120 final size:120
Alignment explanation
Indices: 22305339--22305597 Score: 296
Period size: 120 Copynumber: 2.2 Consensus size: 120
22305329 TTGAATGATG
* * *
22305339 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
22305404 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
66 GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
* * **
22305459 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
22305522 TTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATA
64 TTGTACGAGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAA
* *
22305579 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22305598 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
119 18 0.15
120 91 0.76
121 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAA
Found at i:22305578 original size:40 final size:40
Alignment explanation
Indices: 22305339--22305564 Score: 298
Period size: 40 Copynumber: 5.7 Consensus size: 40
22305329 TTGAATGATG
* * * *
22305339 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
22305379 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22305419 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22305459 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22305499 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
22305540 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22305565 AACGAGTAGC
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 1 0.01
40 160 0.94
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22307441 original size:40 final size:40
Alignment explanation
Indices: 22307357--22307482 Score: 110
Period size: 40 Copynumber: 3.1 Consensus size: 40
22307347 ATTACTTACA
* * * * * * *
22307357 GCTTGTCTACATTACGGGCAATTTATATACATTACTGTTA
1 GCTTGTCTACAATACCGGCAGTTTATCTGCATTACTGGTG
* *
22307397 GCTTGTCTACACTACCGGCAGTTTATCTGCATAACTGGTG
1 GCTTGTCTACAATACCGGCAGTTTATCTGCATTACTGGTG
* * * *
22307437 GCTTGAAC-ACAATACTGGCAGCTTGTCTGCATTACTGGTG
1 GCTTG-TCTACAATACCGGCAGTTTATCTGCATTACTGGTG
*
22307477 CCTTGT
1 GCTTGT
22307483 TCACAAATTG
Statistics
Matches: 69, Mismatches: 16, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
40 68 0.99
41 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (40 bp):
GCTTGTCTACAATACCGGCAGTTTATCTGCATTACTGGTG
Found at i:22312298 original size:24 final size:24
Alignment explanation
Indices: 22312266--22312314 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
22312256 ATGTTATGTT
22312266 TAAATATTAGGTGTTTATGTTTAG
1 TAAATATTAGGTGTTTATGTTTAG
22312290 TAAATATTAGGTGTTTATGTTTAG
1 TAAATATTAGGTGTTTATGTTTAG
22312314 T
1 T
22312315 TTAATATGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.20, T:0.51
Consensus pattern (24 bp):
TAAATATTAGGTGTTTATGTTTAG
Found at i:22319105 original size:28 final size:28
Alignment explanation
Indices: 22319042--22319195 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
22319032 ATATTAAGTC
* *
22319042 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
22319069 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22319097 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22319125 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
22319153 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
22319181 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
22319196 GTACAATTTA
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 22 0.18
28 101 0.82
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:22319955 original size:10 final size:10
Alignment explanation
Indices: 22319940--22319964 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22319930 ATGGGCTTAC
22319940 ATATATATGT
1 ATATATATGT
22319950 ATATATATGT
1 ATATATATGT
22319960 ATATA
1 ATATA
22319965 GCCGAATATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (10 bp):
ATATATATGT
Found at i:22321397 original size:22 final size:23
Alignment explanation
Indices: 22321343--22321397 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
22321333 AAATAAAAAA
*
22321343 ATTATTT-TTTAG-TTTTATTTTT
1 ATTATTTCTTT-GCTTTTATCTTT
*
22321365 ATTCTTTCTTTGCTTTTATCTTT
1 ATTATTTCTTTGCTTTTATCTTT
22321388 -TTATTTCTTT
1 ATTATTTCTTT
22321398 TCTGTTCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 16 0.57
23 12 0.43
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.75
Consensus pattern (23 bp):
ATTATTTCTTTGCTTTTATCTTT
Found at i:22322585 original size:28 final size:28
Alignment explanation
Indices: 22322532--22322586 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
22322522 AGAGAGAAAG
* *
22322532 ATGGGAAAGAGAAGAAGGGAAGAAAAAA
1 ATGGGAAAAAGAAGAAGGGAAAAAAAAA
*
22322560 ATGGGAAAAAG-AGAACGTGAAAAAAAA
1 ATGGGAAAAAGAAGAA-GGGAAAAAAAA
22322587 TGAAAGGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.62, C:0.02, G:0.31, T:0.05
Consensus pattern (28 bp):
ATGGGAAAAAGAAGAAGGGAAAAAAAAA
Found at i:22329069 original size:16 final size:16
Alignment explanation
Indices: 22329048--22329088 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
22329038 ATTTGGTTGA
*
22329048 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
22329064 GAAAATTAATTAATT-
1 GAAAATTAATTAATTG
22329079 -AAAATTAATT
1 GAAAATTAATT
22329089 TGAGATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 10 0.42
16 14 0.58
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:22335436 original size:15 final size:16
Alignment explanation
Indices: 22335402--22335439 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
22335392 CCACATACAT
* *
22335402 ATATATATACTTTACC
1 ATATAAATACTATACC
22335418 ATATAAATACTAT-CC
1 ATATAAATACTATACC
22335433 ATATAAA
1 ATATAAA
22335440 ATTAAACCAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (16 bp):
ATATAAATACTATACC
Found at i:22337083 original size:50 final size:50
Alignment explanation
Indices: 22336972--22337169 Score: 198
Period size: 50 Copynumber: 3.8 Consensus size: 50
22336962 ATTTGGATAA
* *
22336972 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
22337028 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
22337078 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** ** * * * *
22337128 AGAACTCTTATGTAAGACAATATCCGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22337170 GTACAAGAAA
Statistics
Matches: 122, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 78 0.64
53 3 0.02
55 1 0.01
56 40 0.33
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:22337162 original size:100 final size:104
Alignment explanation
Indices: 22336983--22337169 Score: 229
Period size: 100 Copynumber: 1.8 Consensus size: 104
22336973 GAGATCCCAT
* * ** *
22336983 GTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGACTATGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCACT--GACTATGAGAACTCCCATGTAAGACAA
* * *
22337048 TGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
64 TATCCGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
**
22337089 GTAAGACCATGTCTGGGACATGGCATGGGCA-C-CT-A-TATGAGAACTCTTATGTAAGACAATA
1 GTAAGACCATGTCTGGGACATGGCATGGGCATCACTGACTATGAGAACTCCCATGTAAGACAATA
*
22337150 TCCGGGATATGGCATTGGCA
66 TCCGGGACATGGCATTGGCA
22337170 GTACAAGAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
100 37 0.53
101 1 0.01
104 1 0.01
105 1 0.01
106 30 0.43
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (104 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCATCACTGACTATGAGAACTCCCATGTAAGACAATA
TCCGGGACATGGCATTGGCACCGAGATGAGAGGTCCCCC
Found at i:22339279 original size:27 final size:31
Alignment explanation
Indices: 22339241--22339303 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 31
22339231 CACTTAGAAA
22339241 ATTTTTTGGATA-T-AAAATA-AATTATA-T
1 ATTTTTTGGATAGTAAAAATATAATTATATT
*
22339268 ATTTTTAT-GATAGTAAAAATATAATTTTATT
1 ATTTTT-TGGATAGTAAAAATATAATTATATT
22339299 ATTTT
1 ATTTT
22339304 AATAGGTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
27 10 0.33
28 2 0.07
29 6 0.20
30 6 0.20
31 6 0.20
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.52
Consensus pattern (31 bp):
ATTTTTTGGATAGTAAAAATATAATTATATT
Found at i:22340897 original size:16 final size:18
Alignment explanation
Indices: 22340862--22340898 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
22340852 CAAAAATACT
*
22340862 TTTTAAAGACATTTTTTA
1 TTTTAAAGACATTGTTTA
22340880 TTTTAAA-A-ATTGTTTA
1 TTTTAAAGACATTGTTTA
22340896 TTT
1 TTT
22340899 AGTATTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 10 0.56
17 1 0.06
18 7 0.39
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTTAAAGACATTGTTTA
Found at i:22354857 original size:47 final size:49
Alignment explanation
Indices: 22354803--22354906 Score: 131
Period size: 51 Copynumber: 2.1 Consensus size: 49
22354793 TTAGGATTTT
* * *
22354803 ATGTGATGGATGTGAA-C-ATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCCGAATGGCCA
* *
22354850 ATGTGATGAATGTGAACCCGTATATATATGTGTGATAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAA-CCG-ATACATATGTGTGATAAGGCCGAATGGCCA
22354901 ATGTGA
1 ATGTGA
22354907 AATATATGTG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 15 0.31
49 1 0.02
51 32 0.67
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.28
Consensus pattern (49 bp):
ATGTGATGAATGTGAACCGATACATATGTGTGATAAGGCCGAATGGCCA
Found at i:22354952 original size:48 final size:48
Alignment explanation
Indices: 22354874--22355146 Score: 438
Period size: 48 Copynumber: 5.6 Consensus size: 48
22354864 AACCCGTATA
*
22354874 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* * * *
22354924 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
22354972 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* * * *
22355020 TATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
22355068 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
*
22355116 TATATGTGGTAAAGCCGAATGGCCAATGTGA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGA
22355147 TAAATGTGAG
Statistics
Matches: 205, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
48 196 0.96
49 1 0.00
50 8 0.04
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
Found at i:22355001 original size:96 final size:96
Alignment explanation
Indices: 22354874--22355192 Score: 511
Period size: 96 Copynumber: 3.3 Consensus size: 96
22354864 AACCCGTATA
*
22354874 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
22354939 CGAATGGCGAATGTGAAATATGTATGAGATATG
64 CGAATGGCGAATGTGAAATATGTATGAGATATG
22354972 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
22355037 AATGGCGAATGTGAAATATGTATGAGATATG
66 AATGGCGAATGTGAAATATGTATGAGATATG
22355068 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
* *
22355133 AATGGCCAATGTGATAA-ATG--TGAG-CATG
66 AATGGCGAATGTGA-AATATGTATGAGATATG
* * *
22355161 CATATATGTGATAAGGCCGAATGGCCAATGTG
1 --TATATGTGGTAAAGCCGAATGGCTAATGTG
22355193 GTGAATATGA
Statistics
Matches: 212, Mismatches: 6, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
93 3 0.01
94 4 0.02
95 27 0.13
96 167 0.79
97 3 0.01
98 8 0.04
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (96 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCG
AATGGCGAATGTGAAATATGTATGAGATATG
Found at i:22355050 original size:144 final size:146
Alignment explanation
Indices: 22354874--22355245 Score: 456
Period size: 144 Copynumber: 2.6 Consensus size: 146
22354864 AACCCGTATA
* * * *
22354874 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGC
1 TATATGTGTGATAAAGCCGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGC
* *
22354939 CGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
66 CGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTGAA
22355004 ATATATGTGTGATATG
131 ATATATGTGTGATATG
*
22355020 TATATGTG-G-TAAAGCCGAATGGCGAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGC
1 TATATGTGTGATAAAGCCGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGC
* * *
22355083 CGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCCAATGTG--
66 CGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTGAA
* * *
22355146 ATAAATGTGAG-CATG
131 ATATATGTGTGATATG
* * * * * * *
22355161 CATATATGTGATAAGGCCGAATGGCCAATGTG--GTGA-ATATGA-AAATGCATATATGCGGTAA
1 TATATGTGTGATAAAGCCGAATGGCGAATGTGAAAT-ATATATGAGATATG--TATATGTGGTAA
* *
22355222 AGCCGAATGGCTAGTGTGAAATAT
63 AGCCGAATGGCGAATGTGAAATAT
22355246 GTAGGTGATG
Statistics
Matches: 199, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
140 4 0.02
141 15 0.08
142 45 0.23
143 19 0.10
144 107 0.54
145 1 0.01
146 8 0.04
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (146 bp):
TATATGTGTGATAAAGCCGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGC
CGAATGGCGAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCCAATGTGAA
ATATATGTGTGATATG
Found at i:22355445 original size:37 final size:37
Alignment explanation
Indices: 22355395--22355546 Score: 250
Period size: 37 Copynumber: 4.1 Consensus size: 37
22355385 GGAAATATAT
*
22355395 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
22355432 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
22355469 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
22355506 TCCGGGTAAGATCCGATAACTTCGTGTGGAGATTACG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
22355543 TCCG
1 TCCG
22355547 AGCTAAAGGT
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 108 1.00
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:22356309 original size:33 final size:33
Alignment explanation
Indices: 22356267--22356331 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
22356257 AAGAAAAAGT
22356267 TCAAAATTTTACTGTTCTGACATGAGTTACAAA
1 TCAAAATTTTACTGTTCTGACATGAGTTACAAA
22356300 TCAAAATTTTACTGTTCTGACATGAGTTACAA
1 TCAAAATTTTACTGTTCTGACATGAGTTACAA
22356332 GTCCGGTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (33 bp):
TCAAAATTTTACTGTTCTGACATGAGTTACAAA
Found at i:22356897 original size:40 final size:40
Alignment explanation
Indices: 22356842--22357233 Score: 545
Period size: 40 Copynumber: 9.8 Consensus size: 40
22356832 GAGAATTGAG
* *
22356842 AGTGATATACCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
22356882 AGTGACGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
22356922 AGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
22356962 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
22357002 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
22357042 AGTGATATATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
22357082 AGTGGTGTATCCGGGCTAA-ATCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTC-CGAAGAGCATTCGTGCT
22357122 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *** *
22357162 AGTGATATATCCGTG-CTAAACCCCGAAGAGCATTCATGCT
1 AGTGATGTATCCG-GACTAAGTTCCGAAGAGCATTCGTGCT
* * * * * *
22357202 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
22357234 ATCATGCTGG
Statistics
Matches: 318, Mismatches: 30, Indels: 8
0.89 0.08 0.02
Matches are distributed among these distances:
39 3 0.01
40 312 0.98
41 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:22359460 original size:36 final size:35
Alignment explanation
Indices: 22359412--22359542 Score: 124
Period size: 36 Copynumber: 3.7 Consensus size: 35
22359402 TACTCTCTGT
*
22359412 TTTGGTGTGTTTCGGTTGGATTAGCTTTTCGAAGCGA
1 TTTGGTGTGTTTCGGATGGATTAGCTTTT-GAAGC-A
*
22359449 -TTGGTGTGTTTCGGATGGATTTGCTCTTAT-AAGCA
1 TTTGGTGTGTTTCGGATGGATTAGCT-TT-TGAAGCA
* * *
22359484 TTTGGTGTGTTTTGGATGGACTAGATCTTATG-AGCA
1 TTTGGTGTGTTTCGGATGGATTAG--CTTTTGAAGCA
* *
22359520 TTTGGTGTGTTTCAGTTGGATTA
1 TTTGGTGTGTTTCGGATGGATTA
22359543 TCGATTTACT
Statistics
Matches: 78, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
35 1 0.01
36 71 0.91
37 3 0.04
38 3 0.04
ACGTcount: A:0.16, C:0.09, G:0.31, T:0.44
Consensus pattern (35 bp):
TTTGGTGTGTTTCGGATGGATTAGCTTTTGAAGCA
Found at i:22360496 original size:8 final size:8
Alignment explanation
Indices: 22360472--22360510 Score: 53
Period size: 8 Copynumber: 4.8 Consensus size: 8
22360462 GACTTATGAT
22360472 ATGTTTCAA
1 ATGTTT-AA
22360481 AT-TATTAA
1 ATGT-TTAA
22360489 ATGTTTAA
1 ATGTTTAA
22360497 ATGTTTAA
1 ATGTTTAA
22360505 ATGTTT
1 ATGTTT
22360511 TGATTGATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 23 0.82
9 5 0.18
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (8 bp):
ATGTTTAA
Found at i:22361134 original size:9 final size:9
Alignment explanation
Indices: 22361120--22361151 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
22361110 ACGACAGACA
22361120 AATGAAAAG
1 AATGAAAAG
22361129 AATGAAAAG
1 AATGAAAAG
22361138 AATGAAAAG
1 AATGAAAAG
22361147 AATGA
1 AATGA
22361152 TATGGCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.22, T:0.12
Consensus pattern (9 bp):
AATGAAAAG
Found at i:22365794 original size:19 final size:18
Alignment explanation
Indices: 22365748--22365796 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
22365738 GATGGATTTT
*
22365748 TTGTCATAAAATAATTAAT
1 TTGT-ATAAAATAATTAAA
*
22365767 TTTTATAAAATAATTAAA
1 TTGTATAAAATAATTAAA
22365785 TTGTATTAAAAT
1 TTGTA-TAAAAT
22365797 TTTGAACATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 17 0.65
19 9 0.35
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
TTGTATAAAATAATTAAA
Found at i:22365854 original size:20 final size:21
Alignment explanation
Indices: 22365810--22365857 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
22365800 GAACATGTTA
22365810 ATTTTTAGTCAATTTTACAATT
1 ATTTTTAGTCAATTTTA-AATT
* *
22365832 ATTTTTAGTGAATTTT-GATT
1 ATTTTTAGTCAATTTTAAATT
22365852 ATTTTT
1 ATTTTT
22365858 TCCAAATTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 9 0.38
22 15 0.62
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTCAATTTTAAATT
Found at i:22366480 original size:161 final size:161
Alignment explanation
Indices: 22366215--22366539 Score: 587
Period size: 161 Copynumber: 2.0 Consensus size: 161
22366205 CCACAAGATT
*
22366215 AGATGATGCTTTATGGGCTTACAGAATAGCATACGAGGCACCTTTAGGAATGTCACCCTATAGGT
1 AGATGATGCTTTATGGGCTTACAGAATAGCATACGAGACACCTTTAGGAATGTCACCCTATAGGT
22366280 TGGTCTTTGGGAAAGCCTGTCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTAGGCTCTTCAA
66 TGGTCTTTGGGAAAGCCTGTCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTAGGCTCTTCAA
22366345 CGACTCAACCTGGATCTTAAGCTTGCTAGAG
131 CGACTCAACCTGGATCTTAAGCTTGCTAGAG
*
22366376 AGATGATGCTTTATGGGCTTACAGAATAGCATATGAGACACCTTTAGGAATGTCACCCTATAGGT
1 AGATGATGCTTTATGGGCTTACAGAATAGCATACGAGACACCTTTAGGAATGTCACCCTATAGGT
* * * *
22366441 TGGTCTTTGGGAAAGCCTGTCATCTAGTTCTGGAGTTAGAGCTCAAAGCTTACTGGGCTCTTCGA
66 TGGTCTTTGGGAAAGCCTGTCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTAGGCTCTTCAA
*
22366506 CGACTGAACCTGGATCTTAAGCTTGCTAGAG
131 CGACTCAACCTGGATCTTAAGCTTGCTAGAG
22366537 AGA
1 AGA
22366540 AACGGGTGCT
Statistics
Matches: 157, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
161 157 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (161 bp):
AGATGATGCTTTATGGGCTTACAGAATAGCATACGAGACACCTTTAGGAATGTCACCCTATAGGT
TGGTCTTTGGGAAAGCCTGTCATCTAGCTCTGGAGTTAGAGCACAAAGCTTACTAGGCTCTTCAA
CGACTCAACCTGGATCTTAAGCTTGCTAGAG
Found at i:22367301 original size:22 final size:21
Alignment explanation
Indices: 22367276--22367319 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
22367266 TGATAAACTT
22367276 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
22367298 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
22367319 T
1 T
22367320 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:22368303 original size:17 final size:16
Alignment explanation
Indices: 22368281--22368312 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22368271 GAGTCTAGGG
22368281 TTTTTTTTAAACCTAA
1 TTTTTTTTAAACCTAA
22368297 TTTTTTTTAAACCTAA
1 TTTTTTTTAAACCTAA
22368313 AATTATCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTTTTTTAAACCTAA
Found at i:22369509 original size:14 final size:14
Alignment explanation
Indices: 22369486--22369515 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22369476 CATCCCTCAT
*
22369486 TCACATCTCTTCTC
1 TCACAACTCTTCTC
22369500 TCACAACTCTTCTC
1 TCACAACTCTTCTC
22369514 TC
1 TC
22369516 CTCTCTCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.43, G:0.00, T:0.40
Consensus pattern (14 bp):
TCACAACTCTTCTC
Found at i:22371015 original size:13 final size:14
Alignment explanation
Indices: 22370994--22371044 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
22370984 TATATATTTT
*
22370994 TTATATTATTAATA
1 TTATATTATAAATA
22371008 TTAT-TTATAAATA
1 TTATATTATAAATA
* **
22371021 TTATAATAATGTATA
1 TTAT-ATTATAAATA
22371036 TTATATTAT
1 TTATATTAT
22371045 TATGATATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 12 0.40
14 8 0.27
15 10 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TTATATTATAAATA
Found at i:22372077 original size:41 final size:41
Alignment explanation
Indices: 22371972--22372114 Score: 135
Period size: 41 Copynumber: 3.5 Consensus size: 41
22371962 TCGGGCTCTG
* * * * ** *
22371972 TGCCTAGCAGGCTTTATGCCAGTGAATTATAGCAGGCTTTA
1 TGCCTAGAAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
*
22372013 TGCCTAGTAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
1 TGCCTAGAAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
* * * * *
22372054 TGCCTAGCAGGCTTCGTGTCGGTGTATCATATCTA-GCTTTG
1 TGCCTAGAAGGCTTCATGCCGGTGTACCATATC-AGGCTTTA
* *
22372095 TGGCTAGAAGGCTTTATGCC
1 TGCCTAGAAGGCTTCATGCC
22372115 ATTGTATTTT
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
41 83 0.99
42 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.33
Consensus pattern (41 bp):
TGCCTAGAAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
Found at i:22384527 original size:106 final size:106
Alignment explanation
Indices: 22384342--22384557 Score: 423
Period size: 106 Copynumber: 2.0 Consensus size: 106
22384332 GAATGATGCT
*
22384342 AAGCCCGGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTTGAGGTTAGAGATAGGAA
1 AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTTGAGGTTAGAGATAGGAA
22384407 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
66 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
22384448 AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTTGAGGTTAGAGATAGGAA
1 AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTTGAGGTTAGAGATAGGAA
22384513 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
66 GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
22384554 AAGC
1 AAGC
22384558 AGGGAATGAA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 109 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (106 bp):
AAGCCCAGATTAATTTGATAGATATTGCTACTGTAGGAATTTGATCTTGAGGTTAGAGATAGGAA
GGCCACAGAAGATCAAGTGGTTGATCATTTATCAAGCTTGG
Found at i:22401236 original size:22 final size:22
Alignment explanation
Indices: 22401211--22401255 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
22401201 TAGTCATGCA
22401211 TTAGGGTCTTGGCCCGTTACAT
1 TTAGGGTCTTGGCCCGTTACAT
22401233 TTAGGGTCTTGGCCCGTTACAT
1 TTAGGGTCTTGGCCCGTTACAT
22401255 T
1 T
22401256 AGCAATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.13, C:0.22, G:0.27, T:0.38
Consensus pattern (22 bp):
TTAGGGTCTTGGCCCGTTACAT
Found at i:22411066 original size:15 final size:15
Alignment explanation
Indices: 22411046--22411078 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
22411036 GAAAGGATAC
22411046 TTAAAGATACAGTAG
1 TTAAAGATACAGTAG
*
22411061 TTAAAGATATAGTAG
1 TTAAAGATACAGTAG
22411076 TTA
1 TTA
22411079 TAACTTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (15 bp):
TTAAAGATACAGTAG
Found at i:22412094 original size:24 final size:24
Alignment explanation
Indices: 22412046--22412092 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
22412036 ACTGGTCATA
*
22412046 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
22412070 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
22412093 GGGATTTAGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:22412616 original size:27 final size:26
Alignment explanation
Indices: 22412572--22412703 Score: 113
Period size: 27 Copynumber: 4.9 Consensus size: 26
22412562 TATATGATTG
* * *
22412572 AAATGCCCCAATAGGGTAAAATGATCA
1 AAATACCCC-ATAAGGTAAAATGACCA
*
22412599 AAATACCCTCATAAGGTAAAATGACCG
1 AAATACCC-CATAAGGTAAAATGACCA
* * **
22412626 AAATACCCCATAGGGTAAAACGATAA
1 AAATACCCCATAAGGTAAAATGACCA
* *
22412652 AAATACCCC-TATAGGATAAAGTGACCG
1 AAATACCCCATA-AGG-TAAAATGACCA
*
22412679 AAATACCCCCATACGGTAAAATGAC
1 AAATA-CCCCATAAGGTAAAATGAC
22412704 TGTTATACCT
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
25 2 0.02
26 24 0.29
27 48 0.58
28 7 0.08
29 2 0.02
ACGTcount: A:0.45, C:0.22, G:0.16, T:0.17
Consensus pattern (26 bp):
AAATACCCCATAAGGTAAAATGACCA
Found at i:22412655 original size:53 final size:53
Alignment explanation
Indices: 22412571--22412699 Score: 163
Period size: 53 Copynumber: 2.4 Consensus size: 53
22412561 ATATATGATT
* * *
22412571 GAAATGCCCCAATAGGGTAAAATGATCAAAATA-CCCTCATAAGG-TAAAATGACC
1 GAAATACCCC-ATAGGGTAAAACGATAAAAATACCCCT-AT-AGGATAAAATGACC
*
22412625 GAAATACCCCATAGGGTAAAACGATAAAAATACCCCTATAGGATAAAGTGACC
1 GAAATACCCCATAGGGTAAAACGATAAAAATACCCCTATAGGATAAAATGACC
*
22412678 GAAATACCCCCATACGGTAAAA
1 GAAATA-CCCCATAGGGTAAAA
22412700 TGACTGTTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
52 3 0.04
53 37 0.55
54 27 0.40
ACGTcount: A:0.45, C:0.22, G:0.16, T:0.17
Consensus pattern (53 bp):
GAAATACCCCATAGGGTAAAACGATAAAAATACCCCTATAGGATAAAATGACC
Found at i:22414441 original size:51 final size:50
Alignment explanation
Indices: 22414383--22415010 Score: 381
Period size: 51 Copynumber: 12.6 Consensus size: 50
22414373 CCAGTTCACA
* * * *
22414383 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATTAT-ATTCGGTACACG
** * * *** * *
22414434 TAGTAGCCACCACATAGTACTATACACGTGATCGAAGCTATTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATTATATTCGGTACACG
* ** * *
22414485 TAGTAGCCTGCACATAGTACTACACATGCAACTGATCAT-TTCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGAC-CATTATATTCGGTACACG
* * ** *
22414535 TAGTAGCCTACACATAGTACTACACATGTGACCTAGGA-ACTTC---ACTCG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATTATA-TTCGGTACACG
* *** * *
22414583 TAGTAG-CTAGCACATAGTACTACACACGTGATCGAAGCTATTCGGTACGCA
1 TAGTAGCCT-GCACATAGTACTACACACGTGA-CCATTATATTCGGTACACG
* * *
22414634 TAGTAGCCTGCACATAGTACTACACATGTGACCGATCAT-TTTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATTATATTCGGTACACG
* ** *
22414684 TAGTAGCCTACACATAGTACTACACACGTGACCTAGCA-ACTTC---ACTCG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATTATA-TTCGGTACACG
* * ** *** * *
22414732 TAGTAGCCAGCACATAGTACTACACACATGATTGAAGCTATTCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATTATATTCGGTACACG
* * * *
22414783 TAGTAGCCTGCACATAGTACTACACATGCGACCGATCAT-TTTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATTATATTCGGTACACG
* ** *
22414833 TAGTAGCCTACACATAGTACTACACACGTGACCTAGCA-ACTTC---ACTCG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATTATA-TTCGGTACACG
* * ** *** ***
22414881 TAGTAGCCAGCACATAGTACTACACACATGATTGAAGCTATTCGGTACGTA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATTATATTCGGTACACG
* * * *
22414932 TAGTAGCCTGCACATAGTACTACACATGCGACCGATCAT-TTTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATTATATTCGGTACACG
*
22414982 TAGTAGCCTACACATAGTACTACACACGT
1 TAGTAGCCTGCACATAGTACTACACACGT
22415011 TACCTAGAAC
Statistics
Matches: 441, Mismatches: 107, Indels: 59
0.73 0.18 0.10
Matches are distributed among these distances:
47 2 0.00
48 107 0.24
49 4 0.01
50 158 0.36
51 165 0.37
52 5 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATTATATTCGGTACACG
Found at i:22414601 original size:48 final size:49
Alignment explanation
Indices: 22414533--22415031 Score: 328
Period size: 50 Copynumber: 10.1 Consensus size: 49
22414523 TTTCGGTACA
* *
22414533 CGTAGTAGCCTA-CACATAGTACTACACATGTGACCTAGGAACTTCACT
1 CGTAGTAGCCTAGCACATAGTACTACACACGTGACCTAGCAACTTCACT
** * *
22414581 CGTAGTAG-CTAGCACATAGTACTACACACGTGATCGAAGCTA-TTCGGTACG
1 CGTAGTAGCCTAGCACATAGTACTACACACGTGA-CCTAGCAACTTC---ACT
* * * * ** * *
22414632 CATAGTAGCCT-GCACATAGTACTACACATGTGACCGATCATTTTGGTACA
1 CGTAGTAGCCTAGCACATAGTACTACACACGTGACCTAGCAACTT--CACT
22414682 CGTAGTAGCCTA-CACATAGTACTACACACGTGACCTAGCAACTTCACT
1 CGTAGTAGCCTAGCACATAGTACTACACACGTGACCTAGCAACTTCACT
* * * *
22414730 CGTAGTAGCC-AGCACATAGTACTACACACATGA-TTGAAGCTA-TTCGGTACG
1 CGTAGTAGCCTAGCACATAGTACTACACACGTGACCT--AGCAACTTC---ACT
* * * * * ** * *
22414781 CATAGTAGCCT-GCACATAGTACTACACATGCGACCGATCATTTTGGTACA
1 CGTAGTAGCCTAGCACATAGTACTACACACGTGACCTAGCAACTT--CACT
22414831 CGTAGTAGCCTA-CACATAGTACTACACACGTGACCTAGCAACTTCACT
1 CGTAGTAGCCTAGCACATAGTACTACACACGTGACCTAGCAACTTCACT
* * * **
22414879 CGTAGTAGCC-AGCACATAGTACTACACACATGA-TTGAAGCTA-TTCGGT
1 CGTAGTAGCCTAGCACATAGTACTACACACGTGACCT--AGCAACTTCACT
* * * * ** * *
22414927 ACGTATAGTAGCCT-GCACATAGTACTACACATGCGACCGATCATTTTGGTACA
1 -CG--TAGTAGCCTAGCACATAGTACTACACACGTGACCTAGCAACTT--CACT
*
22414980 CGTAGTAGCCTA-CACATAGTACTACACACGTTACCTAG-AACCTTCACT
1 CGTAGTAGCCTAGCACATAGTACTACACACGTGACCTAGCAA-CTTCACT
22415028 CGTA
1 CGTA
22415032 TCTCTTTCAT
Statistics
Matches: 343, Mismatches: 73, Indels: 70
0.71 0.15 0.14
Matches are distributed among these distances:
47 7 0.02
48 108 0.31
49 15 0.04
50 116 0.34
51 93 0.27
52 4 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (49 bp):
CGTAGTAGCCTAGCACATAGTACTACACACGTGACCTAGCAACTTCACT
Found at i:22414648 original size:99 final size:101
Alignment explanation
Indices: 22414524--22415010 Score: 419
Period size: 99 Copynumber: 4.9 Consensus size: 101
22414514 AACTGATCAT
* *
22414524 TTCGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACCTAGGAACTTCACTCGTAGTAG
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCTAGCAACTTCACTCGTAGTAG
22414589 -CTAGCACATAGTACTACACACGTGATCGAAGCTA-
66 CCTAGCACATAGTACTACACACGTGATCGAAGCTAC
* * * * ** * *
22414623 TTCGGTACGCATAGTAGCCTGCACATAGTACTACACATGTGACCGATCATTTTGGTACACGTAGT
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCTAGCAACTT--CACTCGTAGT
** *
22414688 AGCCTA-CACATAGTACTACACACGTGA-CCTAGCAAC
64 AGCCTAGCACATAGTACTACACACGTGATCGAAGCTAC
* * ** * * * *
22414724 TTC---ACTCGTAGTAGCCAGCACATAGTACTACACACATGA-TTGAAGCTA-TTCGGTACGCAT
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCT--AGCAACTTC---ACTCGT
* * * * *
22414784 AGTAGCCT-GCACATAGTACTACACATGCGACCG-ATC-AT
61 AGTAGCCTAGCACATAGTACTACACACGTGATCGAAGCTAC
* * *
22414822 TTTGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCTAGCAACTTCACTCGTAGTAG
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCTAGCAACTTCACTCGTAGTAG
* *
22414887 CC-AGCACATAGTACTACACACATGATTGAAGCTA-
66 CCTAGCACATAGTACTACACACGTGATCGAAGCTAC
*** * * * ** * *
22414921 TTCGGTACGTATAGTAGCCTGCACATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGT
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCTAGCAACTT--CACTCGTAGT
22414986 AGCCTA-CACATAGTACTACACACGT
64 AGCCTAGCACATAGTACTACACACGT
22415011 TACCTAGAAC
Statistics
Matches: 306, Mismatches: 60, Indels: 42
0.75 0.15 0.10
Matches are distributed among these distances:
98 67 0.22
99 124 0.41
100 11 0.04
101 99 0.32
102 5 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACATGTGACCTAGCAACTTCACTCGTAGTAG
CCTAGCACATAGTACTACACACGTGATCGAAGCTAC
Found at i:22414656 original size:149 final size:149
Alignment explanation
Indices: 22414432--22415031 Score: 1049
Period size: 149 Copynumber: 4.0 Consensus size: 149
22414422 ATCCGATACA
* * *
22414432 CGTAGTAGCCACCACATAGTACTATACACGTGATCGAAGCTATTCGGTACGCATAGTAGCCTGCA
1 CGTAGTAGCCAGCACATAGTACTACACACATGATCGAAGCTATTCGGTACGCATAGTAGCCTGCA
* * * *
22414497 CATAGTACTACACATGCAACTGATCATTTCGGTACACGTAGTAGCCTACACATAGTACTACACAT
66 CATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACACATAGTACTACACAC
*
22414562 GTGACCTAGGAACTTCACT
131 GTGACCTAGCAACTTCACT
* *
22414581 CGTAGTAGCTAGCACATAGTACTACACACGTGATCGAAGCTATTCGGTACGCATAGTAGCCTGCA
1 CGTAGTAGCCAGCACATAGTACTACACACATGATCGAAGCTATTCGGTACGCATAGTAGCCTGCA
*
22414646 CATAGTACTACACATGTGACCGATCATTTTGGTACACGTAGTAGCCTACACATAGTACTACACAC
66 CATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACACATAGTACTACACAC
22414711 GTGACCTAGCAACTTCACT
131 GTGACCTAGCAACTTCACT
*
22414730 CGTAGTAGCCAGCACATAGTACTACACACATGATTGAAGCTATTCGGTACGCATAGTAGCCTGCA
1 CGTAGTAGCCAGCACATAGTACTACACACATGATCGAAGCTATTCGGTACGCATAGTAGCCTGCA
22414795 CATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACACATAGTACTACACAC
66 CATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACACATAGTACTACACAC
22414860 GTGACCTAGCAACTTCACT
131 GTGACCTAGCAACTTCACT
* *
22414879 CGTAGTAGCCAGCACATAGTACTACACACATGATTGAAGCTATTCGGTACGTATAGTAGCCTGCA
1 CGTAGTAGCCAGCACATAGTACTACACACATGATCGAAGCTATTCGGTACGCATAGTAGCCTGCA
22414944 CATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACACATAGTACTACACAC
66 CATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACACATAGTACTACACAC
*
22415009 GTTACCTAG-AACCTTCACT
131 GTGACCTAGCAA-CTTCACT
22415028 CGTA
1 CGTA
22415032 TCTCTTTCAT
Statistics
Matches: 435, Mismatches: 15, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
148 2 0.00
149 433 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (149 bp):
CGTAGTAGCCAGCACATAGTACTACACACATGATCGAAGCTATTCGGTACGCATAGTAGCCTGCA
CATAGTACTACACATGCGACCGATCATTTTGGTACACGTAGTAGCCTACACATAGTACTACACAC
GTGACCTAGCAACTTCACT
Found at i:22416205 original size:26 final size:26
Alignment explanation
Indices: 22416169--22416223 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
22416159 TTTGCCACAT
*
22416169 ATACTGTTACTGACAGCTTTGCTGCG
1 ATACTATTACTGACAGCTTTGCTGCG
*
22416195 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGACAGCTTTGCTGCG
22416221 ATA
1 ATA
22416224 TTGGTGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (26 bp):
ATACTATTACTGACAGCTTTGCTGCG
Found at i:22416402 original size:28 final size:28
Alignment explanation
Indices: 22416333--22416493 Score: 222
Period size: 28 Copynumber: 5.8 Consensus size: 28
22416323 TGCATTGTTA
22416333 CTGTATTGGGCTAAGGCCCACACTGA-T
1 CTGTATTGGGCTAAGGCCCACACTGATT
* *
22416360 CTGTATTGGGTTAAGGCCCAAACTGATT
1 CTGTATTGGGCTAAGGCCCACACTGATT
22416388 CTGTATTGGGCTAAGGCCCACACTGATT
1 CTGTATTGGGCTAAGGCCCACACTGATT
*
22416416 CTGTATTGGGCTAAGGCCCACATTG-TT
1 CTGTATTGGGCTAAGGCCCACACTGATT
* *
22416443 ACTGT-TTGGGCAAAGGCCCACACT-CTT
1 -CTGTATTGGGCTAAGGCCCACACTGATT
*
22416470 ACTATATTGGGCTAAGGCCCACAC
1 -CTGTATTGGGCTAAGGCCCACAC
22416494 AGTACTATTG
Statistics
Matches: 121, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
27 49 0.40
28 72 0.60
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (28 bp):
CTGTATTGGGCTAAGGCCCACACTGATT
Found at i:22416452 original size:55 final size:56
Alignment explanation
Indices: 22416325--22416492 Score: 236
Period size: 55 Copynumber: 3.0 Consensus size: 56
22416315 TATTGGACTG
*
22416325 CATTGTTACTGTATTGGGCTAAGGCCCACACTGA-TCTGTATTGGGTTAAGGCCCA
1 CATTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCA
* *
22416380 AACTGATT-CTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCA
1 CATTG-TTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCA
* * *
22416436 CATTGTTACTGT-TTGGGCAAAGGCCCACACT-CTTACTATATTGGGCTAAGGCCCA
1 CATTGTTACTGTATTGGGCTAAGGCCCACACTGATT-CTGTATTGGGCTAAGGCCCA
22416491 CA
1 CA
22416493 CAGTACTATT
Statistics
Matches: 101, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
54 2 0.02
55 70 0.69
56 29 0.29
ACGTcount: A:0.23, C:0.24, G:0.24, T:0.29
Consensus pattern (56 bp):
CATTGTTACTGTATTGGGCTAAGGCCCACACTGATTCTGTATTGGGCTAAGGCCCA
Found at i:22416478 original size:83 final size:83
Alignment explanation
Indices: 22416333--22416493 Score: 227
Period size: 83 Copynumber: 1.9 Consensus size: 83
22416323 TGCATTGTTA
** *
22416333 CTGTATTGGGCTAAGGCCCACACTGATCTGTATTGGGTTAAGGCCCAAACTGATTCTGTATTGGG
1 CTGTATTGGGCTAAGGCCCACACTGATCTGTATTGGGCAAAGGCCCAAACTGATTCTATATTGGG
22416398 CTAAGGCCCACACTGATT
66 CTAAGGCCCACACTGATT
* * * *
22416416 CTGTATTGGGCTAAGGCCCACATTGTTACTGT-TTGGGCAAAGGCCCACACT-CTTACTATATTG
1 CTGTATTGGGCTAAGGCCCACACTGAT-CTGTATTGGGCAAAGGCCCAAACTGATT-CTATATTG
22416479 GGCTAAGGCCCACAC
64 GGCTAAGGCCCACAC
22416494 AGTACTATTG
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
82 2 0.03
83 63 0.91
84 4 0.06
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.28
Consensus pattern (83 bp):
CTGTATTGGGCTAAGGCCCACACTGATCTGTATTGGGCAAAGGCCCAAACTGATTCTATATTGGG
CTAAGGCCCACACTGATT
Found at i:22429550 original size:16 final size:18
Alignment explanation
Indices: 22429524--22429558 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
22429514 CATACTTCGA
22429524 AGGTCACATGG-CGTGTG
1 AGGTCACATGGCCGTGTG
22429541 AGGT-ACATGGCCGTGTG
1 AGGTCACATGGCCGTGTG
22429558 A
1 A
22429559 CCCCTGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.20, C:0.17, G:0.40, T:0.23
Consensus pattern (18 bp):
AGGTCACATGGCCGTGTG
Found at i:22429985 original size:14 final size:15
Alignment explanation
Indices: 22429955--22429985 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
22429945 TTAGGTTTTT
22429955 TATAATAAAACGAAA
1 TATAATAAAACGAAA
22429970 TATAATAAAA-GAAA
1 TATAATAAAACGAAA
22429984 TA
1 TA
22429986 AATTTCAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (15 bp):
TATAATAAAACGAAA
Found at i:22437548 original size:20 final size:19
Alignment explanation
Indices: 22437518--22437559 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
22437508 CATCGAAGAT
*
22437518 GTGTAACAGAGGTACCGAA
1 GTGTAACAGAGGCACCGAA
22437537 GTGTAGACAGAGGCACCGAA
1 GTGTA-ACAGAGGCACCGAA
22437557 GTG
1 GTG
22437560 CAATCCGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.33, C:0.17, G:0.36, T:0.14
Consensus pattern (19 bp):
GTGTAACAGAGGCACCGAA
Found at i:22439977 original size:69 final size:67
Alignment explanation
Indices: 22439867--22440014 Score: 199
Period size: 69 Copynumber: 2.2 Consensus size: 67
22439857 TTCTCTATAC
* * * *
22439867 CTCGTGTGAGCAGCATAGTAGCTTAACATCCTGACCTACATCTCTTGTGAGCAAGCCCACTTCAC
1 CTCGTGTGAGCAGCATAGTAGCTTAACATCCTGACCCACATCTCGTGTAAGCAAGCCCACGTCAC
22439932 AG
66 AG
* * *
22439934 CTCGTGTGAGCAGCATCGTGTAGCTTAACAT-CTCGACCCACATCTCGTGTAAGTAGGCCCACGT
1 CTCGTGTGAGCAGCAT--AGTAGCTTAACATCCT-GACCCACATCTCGTGTAAGCAAGCCCACGT
22439998 CACAG
63 CACAG
22440003 CTCGTGTGAGCA
1 CTCGTGTGAGCA
22440015 TTTTAGATAC
Statistics
Matches: 71, Mismatches: 7, Indels: 4
0.87 0.09 0.05
Matches are distributed among these distances:
67 16 0.23
68 2 0.03
69 53 0.75
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (67 bp):
CTCGTGTGAGCAGCATAGTAGCTTAACATCCTGACCCACATCTCGTGTAAGCAAGCCCACGTCAC
AG
Found at i:22442019 original size:17 final size:17
Alignment explanation
Indices: 22441997--22442036 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
22441987 GAAAAGTTAG
* * *
22441997 GGTTTTAAGTGTTTTTA
1 GGTTTTAAGAGGTTTAA
22442014 GGTTTTAAGAGGTTTAA
1 GGTTTTAAGAGGTTTAA
22442031 GGTTTT
1 GGTTTT
22442037 TGGAGAGGAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (17 bp):
GGTTTTAAGAGGTTTAA
Found at i:22444246 original size:17 final size:17
Alignment explanation
Indices: 22444224--22444258 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
22444214 AAGAACTTCT
22444224 TTAGCTCCAACCAATCC
1 TTAGCTCCAACCAATCC
22444241 TTAGCTCCAACCAATCC
1 TTAGCTCCAACCAATCC
22444258 T
1 T
22444259 GACCTTGCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.40, G:0.06, T:0.26
Consensus pattern (17 bp):
TTAGCTCCAACCAATCC
Found at i:22457688 original size:26 final size:26
Alignment explanation
Indices: 22457626--22457701 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
22457616 TTCACTCACT
* *
22457626 TTTTCTTTTTCATCTCTCTCTTTTATCG
1 TTTTCTTTTTCA-CTCTCT-TTTTTTAG
**
22457654 CATTC-TTTTCACTCTCTTTTTTTAG
1 TTTTCTTTTTCACTCTCTTTTTTTAG
*
22457679 TTTTCTTTTTTC-TTCTCTTTTTT
1 TTTTC-TTTTTCACTCTCTTTTTT
22457702 CTTTTTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
25 9 0.23
26 16 0.41
27 11 0.28
28 3 0.08
ACGTcount: A:0.07, C:0.22, G:0.03, T:0.68
Consensus pattern (26 bp):
TTTTCTTTTTCACTCTCTTTTTTTAG
Found at i:22457718 original size:18 final size:17
Alignment explanation
Indices: 22457679--22457733 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
22457669 CTTTTTTTAG
22457679 TTTTCTTTTTTCTTCTCTT
1 TTTTCTTTTTT-TTCTC-T
*
22457698 TTTTCTTTTTTTT-TGT
1 TTTTCTTTTTTTTCTCT
*
22457714 GTTTTCATTTTTTTCT-T
1 -TTTTCTTTTTTTTCTCT
22457731 TTT
1 TTT
22457734 CCCTCATTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
16 4 0.12
17 14 0.44
18 3 0.09
19 11 0.34
ACGTcount: A:0.02, C:0.13, G:0.04, T:0.82
Consensus pattern (17 bp):
TTTTCTTTTTTTTCTCT
Found at i:22459867 original size:17 final size:17
Alignment explanation
Indices: 22459847--22459890 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
22459837 ATGTATATAT
22459847 ATTTTTTTAATTTCAAA
1 ATTTTTTTAATTTCAAA
**
22459864 ATTTTCTTTTTTTTCAAA
1 ATTTT-TTTAATTTCAAA
*
22459882 CTTTTTTTA
1 ATTTTTTTA
22459891 CAACTTCGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (17 bp):
ATTTTTTTAATTTCAAA
Found at i:22461886 original size:42 final size:43
Alignment explanation
Indices: 22461819--22461902 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 43
22461809 AAATTTGAAA
* * **
22461819 AAAATAAGAGTTTTGAAAAGGAGAAGATAATTTTGGGTTGTTC
1 AAAATAAGAATTTTAAAAAGGAGAAGATAAACTTGGGTTGTTC
*
22461862 AAAA-AAGAATTTTAAAAAGTAGAAGATAAACTTGGGTTGTT
1 AAAATAAGAATTTTAAAAAGGAGAAGATAAACTTGGGTTGTT
22461903 GGATTTACCC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 32 0.89
43 4 0.11
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.31
Consensus pattern (43 bp):
AAAATAAGAATTTTAAAAAGGAGAAGATAAACTTGGGTTGTTC
Found at i:22474246 original size:25 final size:26
Alignment explanation
Indices: 22474201--22474254 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
22474191 TTCCCCTAAA
*
22474201 TTTCAATTTTATTTAACTATTTAAT-T
1 TTTCAATTTTATTGAACTA-TTAATAT
*
22474227 TTTCAA-TTTATTGAATTATTAATAT
1 TTTCAATTTTATTGAACTATTAATAT
22474252 TTT
1 TTT
22474255 ATACTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 14 0.56
26 6 0.24
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTCAATTTTATTGAACTATTAATAT
Found at i:22482296 original size:18 final size:18
Alignment explanation
Indices: 22482273--22482311 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
22482263 GAGAGTAAAC
*
22482273 TCTAATTAGTATTTGGAG
1 TCTAATTAGTATTCGGAG
*
22482291 TCTAATTATTATTCGGAG
1 TCTAATTAGTATTCGGAG
22482309 TCT
1 TCT
22482312 GTGTATGCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.46
Consensus pattern (18 bp):
TCTAATTAGTATTCGGAG
Found at i:22496801 original size:27 final size:28
Alignment explanation
Indices: 22496663--22496788 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
22496653 TAAATTGTAC
*
22496663 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
22496691 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
22496719 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
22496747 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
22496774 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22496789 GACTTAATAT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
27 24 0.25
28 71 0.75
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:22503410 original size:12 final size:12
Alignment explanation
Indices: 22503395--22503420 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22503385 CAATCTGTGA
22503395 CTAATTCTGATT
1 CTAATTCTGATT
22503407 CTAATTCTGATT
1 CTAATTCTGATT
22503419 CT
1 CT
22503421 GATTGGAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (12 bp):
CTAATTCTGATT
Found at i:22503862 original size:30 final size:30
Alignment explanation
Indices: 22503828--22503898 Score: 124
Period size: 30 Copynumber: 2.3 Consensus size: 30
22503818 CAGGACTTAG
22503828 TTTAATTTTGGTTGTAACTAGACTTGGACA
1 TTTAATTTTGGTTGTAACTAGACTTGGACA
22503858 TTTAATTTTGGTTGTAACTAGACTTGGACA
1 TTTAATTTTGGTTGTAACTAGACTTGGACA
22503888 TTGTACATTTT
1 TT-TA-ATTTT
22503899 TTATTTTGGA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 32 0.82
31 2 0.05
32 5 0.13
ACGTcount: A:0.25, C:0.10, G:0.18, T:0.46
Consensus pattern (30 bp):
TTTAATTTTGGTTGTAACTAGACTTGGACA
Found at i:22512221 original size:52 final size:53
Alignment explanation
Indices: 22512143--22512249 Score: 148
Period size: 52 Copynumber: 2.0 Consensus size: 53
22512133 CTCATTTTCA
*
22512143 TTTCTATTTTGAGAAAATCACAATCATTTCC-AAATGATTT-CATTTTCTCCAT
1 TTTCTATTTTGAGAAAACCACAATCATTTCCTAAATGATTTCCA-TTTCTCCAT
* *
22512195 TTTC-ATTTTGGAGAAAACCATAATCATTTCCTAAATGTTTTCCATTTCTCCAT
1 TTTCTATTTT-GAGAAAACCACAATCATTTCCTAAATGATTTCCATTTCTCCAT
22512248 TT
1 TT
22512250 GTATTCATTC
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
51 5 0.10
52 23 0.47
53 19 0.39
54 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.07, T:0.45
Consensus pattern (53 bp):
TTTCTATTTTGAGAAAACCACAATCATTTCCTAAATGATTTCCATTTCTCCAT
Found at i:22522878 original size:20 final size:21
Alignment explanation
Indices: 22522853--22522904 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
22522843 AGGAAGACAG
22522853 AAAAAGAAATTGAAAAAG-AA
1 AAAAAGAAATTGAAAAAGTAA
*
22522873 AAAAAG-AA-TGAAAAAGTAC
1 AAAAAGAAATTGAAAAAGTAA
*
22522892 AAAAAGAGATTGA
1 AAAAAGAAATTGA
22522905 GAGTGAAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 8 0.30
19 9 0.33
20 7 0.26
21 3 0.11
ACGTcount: A:0.69, C:0.02, G:0.17, T:0.12
Consensus pattern (21 bp):
AAAAAGAAATTGAAAAAGTAA
Found at i:22527573 original size:28 final size:27
Alignment explanation
Indices: 22527518--22527667 Score: 237
Period size: 27 Copynumber: 5.5 Consensus size: 27
22527508 AATTGTGCAC
*
22527518 CACTAAGTGTGCGAATTGACTATGTAG
1 CACTAAGTGTGCGAGTTGACTATGTAG
22527545 CACTAAGTGTGCGAGTTTGACTATGTAG
1 CACTAAGTGTGCGAG-TTGACTATGTAG
22527573 CACTAAGTGTGCGAGTTGACTATGTAG
1 CACTAAGTGTGCGAGTTGACTATGTAG
*
22527600 CACTAAGTGTGCGAGTTTGATTATGTAG
1 CACTAAGTGTGCGAG-TTGACTATGTAG
* *
22527628 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGAGTTGACTATGTAG
*
22527655 CACTGAGTGTGCG
1 CACTAAGTGTGCG
22527668 GACTTAATAT
Statistics
Matches: 117, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 64 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
CACTAAGTGTGCGAGTTGACTATGTAG
Found at i:22527582 original size:55 final size:55
Alignment explanation
Indices: 22527518--22527667 Score: 255
Period size: 55 Copynumber: 2.7 Consensus size: 55
22527508 AATTGTGCAC
*
22527518 CACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAG
1 CACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAG
*
22527573 CACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAG
1 CACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAG
* * *
22527628 CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 CACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
22527668 GACTTAATAT
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 90 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
CACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAG
Found at i:22530185 original size:28 final size:27
Alignment explanation
Indices: 22530128--22530279 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
22530118 TAAATTGTGC
*
22530128 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
22530155 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
22530183 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
22530210 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
22530238 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
22530265 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
22530280 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:22530192 original size:55 final size:55
Alignment explanation
Indices: 22530128--22530279 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
22530118 TAAATTGTGC
*
22530128 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
22530183 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
22530238 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
22530280 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:22534501 original size:39 final size:38
Alignment explanation
Indices: 22534453--22534539 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
22534443 TGTAATTGCC
* *
22534453 ATAACTATAATAATGTTTGACCA-AAAAATTACAATTACA
1 ATAATTATAATAATATTTGA--ATAAAAATTACAATTACA
** *
22534492 ATAATTATAATAATATTTGAATGTAAATTATAATTACA
1 ATAATTATAATAATATTTGAATAAAAATTACAATTACA
22534530 ATAATTATAA
1 ATAATTATAA
22534540 CAAAGATTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 1 0.02
38 23 0.55
39 18 0.43
ACGTcount: A:0.52, C:0.07, G:0.05, T:0.37
Consensus pattern (38 bp):
ATAATTATAATAATATTTGAATAAAAATTACAATTACA
Found at i:22540735 original size:56 final size:50
Alignment explanation
Indices: 22540639--22540878 Score: 184
Period size: 50 Copynumber: 4.7 Consensus size: 50
22540629 ATTTGTGTAA
*
22540639 AGAGATCCCATGTAAGACCATGTCT-TGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGT-GACATGGCATTGGCA-CC--GAG---ATG
22540695 AGAGGTCCCATGTAAGACCATGTCTGTGACATGG-AGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCA-TTGGCACCGAGATG
** * * * *
22540745 AGAGGTCCCCCGTAAGACCATGTCTGGGACATAGCA-TGAGCACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCATTG-GCACCGAGATG
** * * * * *
22540795 AGAACTCCCATGTAAGACCATATATGGGATATGGCATTGGCA--GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCATTGGCACCG-AGATG
* ** * *
22540844 AAACATCCCATGTAAGACCATGCCTGGGACATGGC
1 AGAGGTCCCATGTAAGACCATGTCTGTGACATGGC
22540879 TTTAGCATGT
Statistics
Matches: 155, Mismatches: 23, Indels: 19
0.79 0.12 0.10
Matches are distributed among these distances:
48 1 0.01
49 34 0.22
50 73 0.47
51 3 0.02
53 3 0.02
55 3 0.02
56 37 0.24
57 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGTGACATGGCATTGGCACCGAGATG
Found at i:22548602 original size:27 final size:27
Alignment explanation
Indices: 22548571--22548639 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
22548561 TTCTGACCCA
*
22548571 TAGCTCGTGTAAGTAGGACCAATTTCAC
1 TAGCTCGTGTAAGCAGGACCAATTTC-C
* * *
22548599 -AGCTCGTGTGAGCAGGCCCATTTTCC
1 TAGCTCGTGTAAGCAGGACCAATTTCC
*
22548625 TAGCTCGTGTGAGCA
1 TAGCTCGTGTAAGCA
22548640 TACACTTTTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.28
Consensus pattern (27 bp):
TAGCTCGTGTAAGCAGGACCAATTTCC
Found at i:22548655 original size:26 final size:27
Alignment explanation
Indices: 22548593--22548667 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
22548583 GTAGGACCAA
** *
22548593 TTTCACAGCTCGTGTGAGCAGGCCCAT
1 TTTCACAGCTCGTGTGAGCATACACAT
22548620 TTTC-CTAGCTCGTGTGAGCATACAC-T
1 TTTCAC-AGCTCGTGTGAGCATACACAT
22548646 TTTCACAGCTTC-TGTGAGCATA
1 TTTCACAGC-TCGTGTGAGCATA
22548668 TATGTAAAGG
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
26 19 0.45
27 23 0.55
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (27 bp):
TTTCACAGCTCGTGTGAGCATACACAT
Found at i:22549529 original size:16 final size:16
Alignment explanation
Indices: 22549510--22549543 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
22549500 GGAAAAGTTA
22549510 AAAATTTTCATACTGC
1 AAAATTTTCATACTGC
22549526 AAAATTTTCATACTGC
1 AAAATTTTCATACTGC
22549542 AA
1 AA
22549544 TGCCTTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (16 bp):
AAAATTTTCATACTGC
Found at i:22551515 original size:21 final size:20
Alignment explanation
Indices: 22551487--22551525 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22551477 TTTACCCTAT
*
22551487 TTTTAACCCTAAAAATACCC
1 TTTTAAACCTAAAAATACCC
22551507 TTTTAAACCTAAAAATACC
1 TTTTAAACCTAAAAATACC
22551526 TTCTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.00, T:0.31
Consensus pattern (20 bp):
TTTTAAACCTAAAAATACCC
Found at i:22572362 original size:27 final size:26
Alignment explanation
Indices: 22572328--22572553 Score: 162
Period size: 27 Copynumber: 8.5 Consensus size: 26
22572318 GGGCAAAATA
22572328 GTCA-TTTACCTTCTAAGGGCATTACG
1 GTCATTTTACC-TCTAAGGGCATTACG
* * * *
22572354 GTTATTTTACC-CTATTGGGGTATTATG
1 GTCATTTTACCTCTA--AGGGCATTACG
*
22572381 GTCATTTTACC-CTAAGGGGTATTACG
1 GTCATTTTACCTCTAA-GGGCATTACG
22572407 GTCATTTTACC-CTATAGGGGCATTACG
1 GTCATTTTACCTCTA-A-GGGCATTACG
* **
22572434 GTCATTTTACC-CTATAGAGGTATTATA
1 GTCATTTTACCTCTA-AG-GGCATTACG
22572461 GTCATTTTACCATGC-AAGGGCATTACG
1 GTCATTTTACC-T-CTAAGGGCATTACG
22572488 GTCATTTTACC-CTACAGGGGCATTACG
1 GTCATTTTACCTCTA-A-GGGCATTACG
* *
22572515 GCCTTTTTACC-CTATAGGGGCATTACG
1 GTCATTTTACCTCTA-A-GGGCATTACG
* *
22572542 GTTATTATACCT
1 GTCATTTTACCT
22572554 ATTTTAAGGT
Statistics
Matches: 166, Mismatches: 21, Indels: 24
0.79 0.10 0.11
Matches are distributed among these distances:
24 1 0.01
25 4 0.02
26 28 0.17
27 129 0.78
28 2 0.01
29 1 0.01
30 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (26 bp):
GTCATTTTACCTCTAAGGGCATTACG
Found at i:22572515 original size:81 final size:80
Alignment explanation
Indices: 22572344--22572531 Score: 270
Period size: 81 Copynumber: 2.3 Consensus size: 80
22572334 TACCTTCTAA
* * * * * *
22572344 GGGCATTACGGTTATTTTACCCTATTGGGGTATTATGGTCATTTTACCCTAAGGGGTATTACGGT
1 GGGCATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTACCATAAGGGGCATTACGGT
*
22572409 CATTTTACCCTATAG
66 CATTTTACCCTACAG
22572424 GGGCATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTACCATGCAA-GGGCATTACG
1 GGGCATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTACCAT--AAGGGGCATTACG
22572488 GTCATTTTACCCTACAG
64 GTCATTTTACCCTACAG
* *
22572505 GGGCATTACGGCCTTTTTACCCTATAG
1 GGGCATTACGGTCATTTTACCCTATAG
22572532 GGGCATTACG
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 45 0.46
81 50 0.52
82 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (80 bp):
GGGCATTACGGTCATTTTACCCTATAGAGGTATTATAGTCATTTTACCATAAGGGGCATTACGGT
CATTTTACCCTACAG
Found at i:22574828 original size:44 final size:44
Alignment explanation
Indices: 22574765--22574852 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
22574755 GATTCTTGAA
* *
22574765 GCTAACTTTAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
1 GCTAACCTCAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
**
22574809 GCTAACCTCAGTGCAATGGCAATACTCAATAATGTGTAAAGTGG
1 GCTAACCTCAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
22574853 CAATGTGTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (44 bp):
GCTAACCTCAGTGCAATGGCAATACTCAATAATGAATAAAGTGG
Found at i:22585619 original size:21 final size:23
Alignment explanation
Indices: 22585575--22585619 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
22585565 ACAATTTATC
*
22585575 TTAATTCTATAACAAGTATTCAA
1 TTAATTCTATAACAAGTATACAA
*
22585598 TTAATT-TATAA-ACGTATACAA
1 TTAATTCTATAACAAGTATACAA
22585619 T
1 T
22585620 ATCATAGAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 5 0.25
23 6 0.30
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.40
Consensus pattern (23 bp):
TTAATTCTATAACAAGTATACAA
Found at i:22586158 original size:56 final size:56
Alignment explanation
Indices: 22586072--22586247 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
22586062 ACAAGGGATG
*
22586072 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
22586128 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
22586184 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
22586240 ATGGGCAA
1 ATGGGCAA
22586248 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:22587607 original size:40 final size:40
Alignment explanation
Indices: 22587376--22587600 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
22587366 TCGAATGATG
* * * *
22587376 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
22587416 TCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22587456 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22587495 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
22587535 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
22587576 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
22587601 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:22587607 original size:80 final size:79
Alignment explanation
Indices: 22587376--22587633 Score: 256
Period size: 79 Copynumber: 3.3 Consensus size: 79
22587366 TCGAATGATG
* * * * * * * *
22587376 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCAAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
*
22587439 TTGTGCGAGATACTAAT
64 TTGTGCGAG-TACTAAA
* *
22587456 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
22587520 GTGCGAGTTACTAAA
66 GTGCGAG-TACTAAA
* * *
22587535 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CTGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
** *
22587599 TGAACGAGTAGCTATA
65 TGTGCGAGTA-CTAAA
* *
22587615 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
22587634 TACGTGATTT
Statistics
Matches: 153, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 75 0.49
80 75 0.49
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGTACTAAA
Found at i:22589111 original size:42 final size:42
Alignment explanation
Indices: 22589059--22589153 Score: 100
Period size: 42 Copynumber: 2.3 Consensus size: 42
22589049 AGGCCGTGTA
* * * *
22589059 ACTCTCTGACTAAATACACACGTTCGTACCACAGACTGTGTG
1 ACTCACTGACTAAATACACACGGTCGTACCACACACTGTCTG
* ** * * *
22589101 ACTCATTGACTTGATAGACACGGTCGTGCCATACACTGTCTG
1 ACTCACTGACTAAATACACACGGTCGTACCACACACTGTCTG
22589143 ACTCACTGACT
1 ACTCACTGACT
22589154 TGATATGCAC
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.27
Consensus pattern (42 bp):
ACTCACTGACTAAATACACACGGTCGTACCACACACTGTCTG
Found at i:22602881 original size:20 final size:19
Alignment explanation
Indices: 22602858--22602900 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
22602848 ACACCCATTC
*
22602858 CATATGCATAACACACAAGT
1 CATAAGCATAACACACAA-T
* *
22602878 CATAAGCATATCATACAAT
1 CATAAGCATAACACACAAT
22602897 CATA
1 CATA
22602901 GCCACAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (19 bp):
CATAAGCATAACACACAAT
Found at i:22604532 original size:20 final size:19
Alignment explanation
Indices: 22604503--22604542 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
22604493 TAAAAGATGA
*
22604503 TATCTTTAATGTATTTTAT
1 TATCTTTAATATATTTTAT
*
22604522 TATCATTTAATATGTTTTAT
1 TATC-TTTAATATATTTTAT
22604542 T
1 T
22604543 TTAATTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TATCTTTAATATATTTTAT
Found at i:22618430 original size:18 final size:20
Alignment explanation
Indices: 22618404--22618440 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
22618394 ACACATCAAA
22618404 TAAACATAT-CCAA-TTCAT
1 TAAACATATACCAACTTCAT
*
22618422 TAAATATATACCAACTTCA
1 TAAACATATACCAACTTCA
22618441 CAGAAATCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 4 0.25
20 4 0.25
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAACATATACCAACTTCAT
Found at i:22621632 original size:28 final size:28
Alignment explanation
Indices: 22621594--22621738 Score: 150
Period size: 28 Copynumber: 5.1 Consensus size: 28
22621584 AATGCAACAT
22621594 TTTAAAAGAGATAGCCACAGAA-GCTTCC
1 TTTAAAAGAGATAGCCACA-AAGGCTTCC
* * *
22621622 TTTAACAGAGATCGCCACAAAGGGTTCC
1 TTTAAAAGAGATAGCCACAAAGGCTTCC
* * * *
22621650 TTTTAATAGAAATAGCCACAATGGCTTCAA
1 -TTTAAAAGAGATAGCCACAAAGGCTTC-C
* *
22621680 TTTATCAA-AGATAGCCACAAAGGCTTCA
1 TTTA-AAAGAGATAGCCACAAAGGCTTCC
*
22621708 TTTAAAAGAGATAGTCACAAAGGCTTCC
1 TTTAAAAGAGATAGCCACAAAGGCTTCC
22621736 TTT
1 TTT
22621739 TAGCCTTCAA
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
27 4 0.04
28 48 0.50
29 43 0.45
30 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (28 bp):
TTTAAAAGAGATAGCCACAAAGGCTTCC
Found at i:22621641 original size:57 final size:56
Alignment explanation
Indices: 22621565--22621738 Score: 170
Period size: 57 Copynumber: 3.1 Consensus size: 56
22621555 AACGCATTAA
* * * **
22621565 TTTAACTAAGATATCCACAAATGCAACATTTTAAAAGAGATAGCCACAGAAGCTTCC
1 TTTAACAAAGATAGCCACAAAGGCTTCATTTTAAAAGAGATAGCCACA-AAGCTTCC
* * * * * * * *
22621622 TTTAACAGAGATCGCCACAAAGGGTTCCTTTTAATAGAAATAGCCACAATGGCTTCAA
1 TTTAACAAAGATAGCCACAAAGGCTTCATTTTAAAAGAGATAGCCACAA-AGCTTC-C
* *
22621680 TTTATCAAAGATAGCCACAAAGGCTTCA-TTTAAAAGAGATAGTCACAAAGGCTTCC
1 TTTAACAAAGATAGCCACAAAGGCTTCATTTTAAAAGAGATAGCCACAAA-GCTTCC
22621736 TTT
1 TTT
22621739 TAGCCTTCAA
Statistics
Matches: 91, Mismatches: 23, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
56 4 0.04
57 64 0.70
58 23 0.25
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (56 bp):
TTTAACAAAGATAGCCACAAAGGCTTCATTTTAAAAGAGATAGCCACAAAGCTTCC
Found at i:22622851 original size:16 final size:16
Alignment explanation
Indices: 22622827--22622864 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
22622817 TTTGGTTCGC
*
22622827 TGTATTGGAATAGAGG
1 TGTAATGGAATAGAGG
22622843 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
22622859 TGTAAT
1 TGTAAT
22622865 AGCAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:22623058 original size:14 final size:15
Alignment explanation
Indices: 22623019--22623060 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
22623009 TAACAACATA
*
22623019 ATTATTATTAAATAT
1 ATTATAATTAAATAT
22623034 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
22623048 A-TATAATTTAATA
1 ATTATAATTAAATA
22623061 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:22623162 original size:119 final size:119
Alignment explanation
Indices: 22623013--22623423 Score: 725
Period size: 119 Copynumber: 3.4 Consensus size: 119
22623003 GAGGTGTAAC
22623013 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
**
22623078 TATTCTTATATGAATTTCTCAAATCATAATATAAAATACTATAAAATATAAATT
66 TATTCTTATATGAATTTCTCAAATCATAATATATGATACTATAAAATATAAATT
22623132 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
22623197 TATTCTTATATGAATTTCTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATGAATTTCTCAAATCATAATATATGATACTATAAAATATAAATT
*
22623251 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
* *
22623316 TATTCTTATATGAATTTACTCAATTCATAATATATGATACTATAAAATATAATTT
66 TATTCTTATATGAATTT-CTCAAATCATAATATATGATACTATAAAATATAAATT
* * *
22623371 GAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
22623424 TAAAATAATT
Statistics
Matches: 282, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
119 198 0.70
120 82 0.29
121 2 0.01
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.43
Consensus pattern (119 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAA
TATTCTTATATGAATTTCTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:22623177 original size:14 final size:15
Alignment explanation
Indices: 22623128--22623179 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22623118 ATAAAATATA
22623128 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
22623143 TATTAAATATATTAT
1 AATTAAATATATTAT
22623158 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
22623171 AATTTAATA
1 AATTAAATA
22623180 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:22623296 original size:14 final size:15
Alignment explanation
Indices: 22623247--22623298 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
22623237 ATAAAATATA
22623247 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
22623262 TATTAAATATATTAT
1 AATTAAATATATTAT
22623277 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
22623290 AATTTAATA
1 AATTAAATA
22623299 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:22623469 original size:101 final size:93
Alignment explanation
Indices: 22623362--22623646 Score: 321
Period size: 91 Copynumber: 3.0 Consensus size: 93
22623352 ATACTATAAA
* * * *
22623362 ATATAATTTGAAATAATTAATATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAA-TAATAATATATAATTTCATAAAATTT-
22623426 AAATAATTATAACTAATAAATTATCTTATATGAATTT
64 ---T-A-T-TAA-TAATAAATTATCTTATATGAATTT
* * *
22623463 GTATAATTTAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCATAAAA--TTA
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTA
* *
22623526 TTGATAATAAATTTTCTTATATGAATTT
66 TTAATAATAAATTATCTTATATGAATTT
* * *
22623554 ATACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTC
1 ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTA
22623617 TTAATAATAAAATGT-TCTTATATGAATTT
66 TTAATAAT-AAAT-TATCTTATATGAATTT
22623646 A
1 A
22623647 CTAAAATCAA
Statistics
Matches: 165, Mismatches: 16, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
91 87 0.53
92 21 0.13
93 2 0.01
94 1 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 49 0.30
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (93 bp):
ATATAATTTAAAATAATTAATATTAAATATAATTTAATAATAATATATAATTTCATAAAATTTTA
TTAATAATAAATTATCTTATATGAATTT
Found at i:22623471 original size:47 final size:46
Alignment explanation
Indices: 22623405--22623646 Score: 148
Period size: 47 Copynumber: 5.3 Consensus size: 46
22623395 TTAATTAAAA
*
22623405 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATCT
* * * * * *
22623452 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
* * * *
22623497 TA-AT-AATAATATATAATTTCATAA-AATTATTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTA-TAATAATAAATTATCT
* *
22623543 TATATGAATTTATACAATTTAAAATAA-T-TAATATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-ATCT
* * *
22623588 TA-AT-AATGATATATAATTTCATAA-AATTCTTAATAATAAAATGT-TCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAAT-AAAT-TATCT
22623635 TATATGAATTTA
1 TATATGAATTTA
22623647 CTAAAATCAA
Statistics
Matches: 148, Mismatches: 28, Indels: 37
0.69 0.13 0.17
Matches are distributed among these distances:
43 6 0.04
44 38 0.26
45 22 0.15
46 16 0.11
47 47 0.32
48 16 0.11
49 3 0.02
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
Found at i:22623493 original size:26 final size:28
Alignment explanation
Indices: 22623464--22623524 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
22623454 TATGAATTTG
*
22623464 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
22623490 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
22623518 TAAAATT
1 TATAATT
22623525 ATTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:22623527 original size:44 final size:43
Alignment explanation
Indices: 22623464--22623606 Score: 130
Period size: 44 Copynumber: 3.2 Consensus size: 43
22623454 TATGAATTTG
22623464 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTATTATTA-ATATAATTTAATAATAATA
* **
22623508 TATAATTTCATAA-AATTATTGA-TAATA-AATTTTCTTATATGAATTTA
1 TATAATTT-AAAATAATTATT-ATTAATATAA-TTTAATA-AT-AA--TA
* * *
22623555 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTATTATT-AATATAATTTAATAATAATA
22623599 TATAATTT
1 TATAATTT
22623607 CATAAAATTC
Statistics
Matches: 78, Mismatches: 10, Indels: 22
0.71 0.09 0.20
Matches are distributed among these distances:
42 2 0.03
43 8 0.10
44 28 0.36
45 6 0.08
46 5 0.06
47 18 0.23
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTATTATTAATATAATTTAATAATAATA
Found at i:22638811 original size:124 final size:123
Alignment explanation
Indices: 22638571--22638804 Score: 405
Period size: 124 Copynumber: 1.9 Consensus size: 123
22638561 CCGTGTACCG
*
22638571 GGCCTGTGAAAAATATTAAGCATTCTTTTTTTGATTTTAATGATGCAGGGGAACACGGCCAGATC
1 GGCCTGTGAAAAATATTAAGCATTCTTTTTTGGATTTTAATGATGCAGGGGAACACGGCCAGATC
*
22638636 ACACGCCTATGTGCTAGGTCGTGTGTCACACACGGCTGACACACAAGCCCGTATGTCA
66 ACACGCCTATGTGCTAGGTCATGTGTCACACACGGCTGACACACAAGCCCGTATGTCA
* * *
22638694 GGCCTGTGAAAAATATTAGGTATTCTTTTTTGGATTTTAATGATGCAGGGGACACACGGCTAGAT
1 GGCCTGTGAAAAATATTAAGCATTCTTTTTTGGATTTTAATGATGCAGGGGA-ACACGGCCAGAT
*
22638759 CACACGCCTATGTGCTAGGTCATGTGTCACACACGGCTGAGACACA
65 CACACGCCTATGTGCTAGGTCATGTGTCACACACGGCTGACACACA
22638805 CACCCGTTTC
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
123 49 0.47
124 55 0.53
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (123 bp):
GGCCTGTGAAAAATATTAAGCATTCTTTTTTGGATTTTAATGATGCAGGGGAACACGGCCAGATC
ACACGCCTATGTGCTAGGTCATGTGTCACACACGGCTGACACACAAGCCCGTATGTCA
Found at i:22640010 original size:24 final size:24
Alignment explanation
Indices: 22639983--22640047 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 24
22639973 GATGCTCCGA
22639983 AGAGCTATTAATGGGAAGCTCATG
1 AGAGCTATTAATGGGAAGCTCATG
* * * *
22640007 AGAGCCAAATATTGGGATGCTCATG
1 AGAG-CTATTAATGGGAAGCTCATG
*
22640032 AGAGCTATTAACGGGA
1 AGAGCTATTAATGGGA
22640048 CACTCTTTCG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
24 12 0.38
25 20 0.62
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (24 bp):
AGAGCTATTAATGGGAAGCTCATG
Found at i:22645731 original size:21 final size:19
Alignment explanation
Indices: 22645697--22645752 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 19
22645687 GCTAAATATT
**
22645697 ATAAAAATAATATATTGATTA
1 ATAAAAATGTTATATT-A-TA
22645718 ATAAAAATGTTATAATTATA
1 ATAAAAATGTTAT-ATTATA
*
22645738 A-AAATATGTTATATT
1 ATAAAAATGTTATATT
22645753 TTTTTATCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 3 0.10
21 12 0.39
22 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
ATAAAAATGTTATATTATA
Found at i:22650451 original size:22 final size:22
Alignment explanation
Indices: 22650426--22650471 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
22650416 ATGGAAATGT
22650426 ATATGTTATGTGCAAATATGAC
1 ATATGTTATGTGCAAATATGAC
*
22650448 ATATGTTATGTGGAAATATGAC
1 ATATGTTATGTGCAAATATGAC
22650470 AT
1 AT
22650472 GGAAAACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (22 bp):
ATATGTTATGTGCAAATATGAC
Found at i:22661955 original size:18 final size:19
Alignment explanation
Indices: 22661909--22661955 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
22661899 TATTCTAATT
* **
22661909 TTAATCATTTAAAAAATTTG
1 TTAA-CATTAAAAAAATTAA
22661929 TTAACATTAAAAAAATTAA
1 TTAACATTAAAAAAATTAA
22661948 TTAA-ATTA
1 TTAACATTA
22661956 TTCACTCTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.17
19 16 0.67
20 4 0.17
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (19 bp):
TTAACATTAAAAAAATTAA
Found at i:22664835 original size:2 final size:2
Alignment explanation
Indices: 22664823--22664884 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
22664813 TTCACTATAA
22664823 TC TC T- TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
22664864 TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC T
22664885 TTAACTTTAT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:22675995 original size:10 final size:12
Alignment explanation
Indices: 22675965--22675989 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22675955 CATGTGTATC
22675965 AATGAAATGTTT
1 AATGAAATGTTT
22675977 AATGAAATGTTT
1 AATGAAATGTTT
22675989 A
1 A
22675990 GAAATGAATG
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
AATGAAATGTTT
Found at i:22676193 original size:38 final size:38
Alignment explanation
Indices: 22676134--22676317 Score: 215
Period size: 38 Copynumber: 4.8 Consensus size: 38
22676124 ACATGGGCAA
* *
22676134 TAAGCCTACTAGGCACTAAGCCTGAATAACATCGACAC
1 TAAGCCTACTAGACACAAAGCCTGAATAACATCGACAC
* *
22676172 TAAGCCTACTAGACACAAAGCCTGAATAACACCGGCAC
1 TAAGCCTACTAGACACAAAGCCTGAATAACATCGACAC
* * * *
22676210 TAATCCTACTAGAAACAAAGCCTGAATAGCAGCGACAC
1 TAAGCCTACTAGACACAAAGCCTGAATAACATCGACAC
* * * * * *
22676248 TAAGCTTGCTAGAGACAAAGCCTGAATAACATAGGCAT
1 TAAGCCTACTAGACACAAAGCCTGAATAACATCGACAC
* * *
22676286 TAAGCCTGCTAGGCACAAAGCCTTAATAACAT
1 TAAGCCTACTAGACACAAAGCCTGAATAACAT
22676318 TCTGATTCAA
Statistics
Matches: 124, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 124 1.00
ACGTcount: A:0.39, C:0.26, G:0.17, T:0.18
Consensus pattern (38 bp):
TAAGCCTACTAGACACAAAGCCTGAATAACATCGACAC
Found at i:22676304 original size:76 final size:76
Alignment explanation
Indices: 22676124--22676316 Score: 242
Period size: 76 Copynumber: 2.5 Consensus size: 76
22676114 AACCTTTATT
* * *
22676124 ACATGGGCAATAAGCCTACTAGGCACTAAGCCTGAATAACATCGACACTAAGCCTACTAGACACA
1 ACATAGGCAATAAGCCTACTAGGCACAAAGCCTGAATAACAGCGACACTAAGCCTACTAGACACA
22676189 AAGCCTGAATA
66 AAGCCTGAATA
** * * ** * * * *
22676200 ACACCGGCACTAATCCTACTAGAAACAAAGCCTGAATAGCAGCGACACTAAGCTTGCTAGAGACA
1 ACATAGGCAATAAGCCTACTAGGCACAAAGCCTGAATAACAGCGACACTAAGCCTACTAGACACA
22676265 AAGCCTGAATA
66 AAGCCTGAATA
* * *
22676276 ACATAGGCATTAAGCCTGCTAGGCACAAAGCCTTAATAACA
1 ACATAGGCAATAAGCCTACTAGGCACAAAGCCTGAATAACA
22676317 TTCTGATTCA
Statistics
Matches: 96, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
76 96 1.00
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.17
Consensus pattern (76 bp):
ACATAGGCAATAAGCCTACTAGGCACAAAGCCTGAATAACAGCGACACTAAGCCTACTAGACACA
AAGCCTGAATA
Found at i:22689281 original size:9 final size:9
Alignment explanation
Indices: 22689254--22689290 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
22689244 TGAGTTTTCG
22689254 AATTCGAAT
1 AATTCGAAT
* *
22689263 AACTCTAAT
1 AATTCGAAT
22689272 AATTCGAAT
1 AATTCGAAT
22689281 AATTCGAAT
1 AATTCGAAT
22689290 A
1 A
22689291 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:22689696 original size:19 final size:21
Alignment explanation
Indices: 22689669--22689708 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
22689659 TTATTCCTCA
*
22689669 AAACTTTTTA-TTTTCCCCCT
1 AAACTTTTTACTTTTCACCCT
22689689 AAAC-TTTTACTTTTCACCCT
1 AAACTTTTTACTTTTCACCCT
22689709 TTACTCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (21 bp):
AAACTTTTTACTTTTCACCCT
Found at i:22693899 original size:29 final size:28
Alignment explanation
Indices: 22693867--22694101 Score: 186
Period size: 29 Copynumber: 8.1 Consensus size: 28
22693857 CTTTTGACTT
* * **
22693867 TCAACTATGGAAAGTGATGGTGACGACCA
1 TCAA-TATGAAAAGGGATGGTTTCGACCA
* * * **
22693896 TCAAATACGAAAAGGGATAGTTTTGAGTA
1 TC-AATATGAAAAGGGATGGTTTCGACCA
**
22693925 TCAACTATGAAAAGGGATGGTCACGACCA
1 TCAA-TATGAAAAGGGATGGTTTCGACCA
*
22693954 TCAACTATGAAAAGCGATGGTTTCGACCA
1 TCAA-TATGAAAAGGGATGGTTTCGACCA
* *
22693983 TCGATATGAAAAGGGATGGTTTCGACCCT
1 TCAATATGAAAAGGGATGGTTTCGA-CCA
* *
22694012 TGAATATGAAAAGGGATGGTGAT-GACCA
1 TCAATATGAAAAGGGATGGT-TTCGACCA
22694040 TCGAATATGGAAAAGGGATGGTTTCGACCA
1 TC-AATAT-GAAAAGGGATGGTTTCGACCA
* * *
22694070 TTGATTAAAGAAAAGGGATGGTTAT-GACCA
1 -TCAAT-ATGAAAAGGGATGGTT-TCGACCA
22694100 TC
1 TC
22694102 GTTTGACAAG
Statistics
Matches: 164, Mismatches: 32, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
28 25 0.15
29 94 0.57
30 42 0.26
31 3 0.02
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.24
Consensus pattern (28 bp):
TCAATATGAAAAGGGATGGTTTCGACCA
Found at i:22694099 original size:60 final size:57
Alignment explanation
Indices: 22693930--22694102 Score: 206
Period size: 57 Copynumber: 3.0 Consensus size: 57
22693920 GAGTATCAAC
** * * *
22693930 TATGAAAAGGGATGGTCACGACCA-TCAACTATGAAAAGCGATGGTT-TCGACCATCGA
1 TATGAAAAGGGATGGTTTCGACCATTGAA-TAAGAAAAGGGATGGTTAT-GACCATCGA
* * *
22693987 TATGAAAAGGGATGGTTTCGACCCTTGAATATGAAAAGGGATGGTGATGACCATCGAA
1 TATGAAAAGGGATGGTTTCGACCATTGAATAAGAAAAGGGATGGTTATGACCATCG-A
*
22694045 TATGGAAAAGGGATGGTTTCGACCATTGATTAAAGAAAAGGGATGGTTATGACCATCG
1 TAT-GAAAAGGGATGGTTTCGACCATTGAAT-AAGAAAAGGGATGGTTATGACCATCG
22694103 TTTGACAAGC
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
57 44 0.44
58 8 0.08
59 25 0.25
60 24 0.24
ACGTcount: A:0.35, C:0.14, G:0.28, T:0.24
Consensus pattern (57 bp):
TATGAAAAGGGATGGTTTCGACCATTGAATAAGAAAAGGGATGGTTATGACCATCGA
Found at i:22697721 original size:29 final size:28
Alignment explanation
Indices: 22697689--22697786 Score: 135
Period size: 29 Copynumber: 3.3 Consensus size: 28
22697679 TATCGATTAG
22697689 GAAAACGGATGGTGACGACCATCAATAAT
1 GAAAA-GGATGGTGACGACCATCAATAAT
22697718 GAAAATGGATGGTGACGACCATCAATAAT
1 GAAAA-GGATGGTGACGACCATCAATAAT
22697747 GAAAAGGTATGGTGACGACCATCGAA-ATAT
1 GAAAAGG-ATGGTGACGACCATC-AATA-AT
22697777 GAAAAAGGAT
1 G-AAAAGGAT
22697787 AGCTTCGGCT
Statistics
Matches: 64, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
28 2 0.03
29 49 0.77
30 7 0.11
31 6 0.09
ACGTcount: A:0.43, C:0.13, G:0.26, T:0.18
Consensus pattern (28 bp):
GAAAAGGATGGTGACGACCATCAATAAT
Found at i:22697917 original size:149 final size:149
Alignment explanation
Indices: 22697716--22698037 Score: 391
Period size: 149 Copynumber: 2.2 Consensus size: 149
22697706 ACCATCAATA
* * * *
22697716 ATGAAAATGGATGGTGACGACCATCAATAATGAAAAGGTATGGTGACGACCATCGAAATATGAAA
1 ATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACAACCATCGAAATATGAAA
* * * *
22697781 AAGGATAGCTTCGGCTATTGAAAT-ATGGAAACGGATAGCTTCA-G-CTATCGAAATATGAAAAG
66 AAGGATAGCTTCGACTA-TCAAATAATGAAAACGGAT-G-GTCACGACTATCGAAATATGAAAAG
* * *
22697843 GTATTGCTTCGGCTATCGAATT
128 GGATAGCTTCGGCTATCGAACT
*
22697865 ATGAACAA-GGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACAACCATCGAATTATGAA
1 ATGAA-AAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACAACCATCGAAATATGAA
** * * * *
22697929 ATGGGATAGCTTTGACTATCAAATAATGAAAAGGGATGGTGACGACTATCGAATTATGAAAAGGG
65 AAAGGATAGCTTCGACTATCAAATAATGAAAACGGATGGTCACGACTATCGAAATATGAAAAGGG
22697994 ATAGCTTCGGCTATCGAACT
130 ATAGCTTCGGCTATCGAACT
* * *
22698014 AGGAAAAGGGATGGTTACTACCAT
1 ATGAAAAGGGATGGTGACGACCAT
22698038 TGGGATTCCA
Statistics
Matches: 148, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
147 2 0.01
148 9 0.06
149 135 0.91
150 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (149 bp):
ATGAAAAGGGATGGTGACGACCATCAACAATGAAAAGGGATGGTGACAACCATCGAAATATGAAA
AAGGATAGCTTCGACTATCAAATAATGAAAACGGATGGTCACGACTATCGAAATATGAAAAGGGA
TAGCTTCGGCTATCGAACT
Found at i:22697948 original size:89 final size:90
Alignment explanation
Indices: 22697827--22697995 Score: 216
Period size: 89 Copynumber: 1.9 Consensus size: 90
22697817 AGCTTCAGCT
* * * * *
22697827 ATCGAAATATGAAAAGGTATTGCTTCGGCTATCGAATTATGAACAA-GGATGGTGACGACCATC-
1 ATCGAAATATGAAAAGGGATAGCTTCGACTATCAAATAATGAA-AAGGGATGGTGACGACCATCG
22697890 AACAATGAAAAGGGATGGTGACAACC
65 AACAATGAAAAGGGATGGTGACAACC
* * * *
22697916 ATCGAATTATGAAATGGGATAGCTTTGACTATCAAATAATGAAAAGGGATGGTGACGACTATCGA
1 ATCGAAATATGAAAAGGGATAGCTTCGACTATCAAATAATGAAAAGGGATGGTGACGACCATCGA
**
22697981 ATTATGAAAAGGGAT
66 ACAATGAAAAGGGAT
22697996 AGCTTCGGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
88 2 0.03
89 51 0.76
90 14 0.21
ACGTcount: A:0.39, C:0.12, G:0.25, T:0.24
Consensus pattern (90 bp):
ATCGAAATATGAAAAGGGATAGCTTCGACTATCAAATAATGAAAAGGGATGGTGACGACCATCGA
ACAATGAAAAGGGATGGTGACAACC
Done.