Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 53 of 311
Found at i:15234283 original size:6 final size:6
Alignment explanation
Indices: 15234274--15234307 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
15234264 CATTTTTCAA
15234274 GAAAAC GAAAAC GAAAAC GAAAAC GAAAAC GAAA
1 GAAAAC GAAAAC GAAAAC GAAAAC GAAAAC GAAA
15234308 TTGACATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.68, C:0.15, G:0.18, T:0.00
Consensus pattern (6 bp):
GAAAAC
Found at i:15249345 original size:39 final size:40
Alignment explanation
Indices: 15249300--15249524 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
15249290 GCTCCTCGTT
* * * *
15249300 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
15249340 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
15249379 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
15249419 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
15249459 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
15249500 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
15249525 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:15249393 original size:40 final size:38
Alignment explanation
Indices: 15249267--15249524 Score: 200
Period size: 40 Copynumber: 6.5 Consensus size: 38
15249257 AAATCACGTA
* * *
15249267 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
15249306 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
15249345 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
15249385 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
* *
15249425 CCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
15249465 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
15249505 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
15249525 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 50 0.28
40 116 0.64
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:15249533 original size:41 final size:41
Alignment explanation
Indices: 15249456--15249533 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
15249446 CTTGTATCTC
* * *
15249456 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
15249497 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
15249534 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:15257274 original size:39 final size:40
Alignment explanation
Indices: 15257229--15257453 Score: 224
Period size: 40 Copynumber: 5.7 Consensus size: 40
15257219 GCTCCTCGTT
* * * *
15257229 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
15257269 C-AATGCCTTCGGGACTTAACCCGGATTTAATGACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
15257308 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
15257348 CAAAGGCCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
15257388 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
15257429 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
15257454 CAGCATTCAA
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 37 0.24
40 104 0.67
41 14 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:15257322 original size:40 final size:38
Alignment explanation
Indices: 15257196--15257453 Score: 200
Period size: 40 Copynumber: 6.5 Consensus size: 38
15257186 AAATCACGTA
* * *
15257196 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAG-TACTCG--CACAATG
* * * *
15257235 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCACAATG
*
15257274 CCTTCGGGACTTAACCCGGATTTAATGACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGT-ACTCGCAC-AATG
*
15257314 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGTA-CTCGCAC-AATG
* *
15257354 CCTTCGGGGCTTAACCCGGAACTT-GTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGG-ATTTAGTA-CTCGCAC-AATG
** * * * *
15257394 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTAGT-AC-TCGCACAATG
*
15257434 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
15257454 CAGCATTCAA
Statistics
Matches: 180, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
38 2 0.01
39 50 0.28
40 116 0.64
41 12 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (38 bp):
CCTTCGGGACTTAACCCGGATTTAGTACTCGCACAATG
Found at i:15257462 original size:41 final size:41
Alignment explanation
Indices: 15257385--15257462 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
15257375 CTTGTATCTC
* * *
15257385 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
15257426 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
15257463 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:15259129 original size:28 final size:28
Alignment explanation
Indices: 15259089--15259148 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
15259079 AACAAGTGGA
*
15259089 GAATACTATTCCTAGACAATCTTGACTT
1 GAATACTATTCCTACACAATCTTGACTT
15259117 GAATACTATTCCTACACAATCTTGACTT
1 GAATACTATTCCTACACAATCTTGACTT
15259145 GAAT
1 GAAT
15259149 CTCTCCATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (28 bp):
GAATACTATTCCTACACAATCTTGACTT
Found at i:15261352 original size:6 final size:6
Alignment explanation
Indices: 15261341--15261384 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
15261331 AATTTACCCT
* *
15261341 TTTTTA TTTTTA TTTTAATA TTTTTA TTTTTA ATTTAA TTTTTA
1 TTTTTA TTTTTA TTTT--TA TTTTTA TTTTTA TTTTTA TTTTTA
15261385 CATTCTAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTTTA
Found at i:15261364 original size:20 final size:19
Alignment explanation
Indices: 15261340--15261383 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
15261330 TAATTTACCC
*
15261340 TTTTTTATTTTTATTTTAA
1 TTTTTTATTTTTAATTTAA
15261359 TATTTTTATTTTTAATTTAA
1 T-TTTTTATTTTTAATTTAA
15261379 TTTTT
1 TTTTT
15261384 ACATTCTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTATTTTTAATTTAA
Found at i:15261383 original size:13 final size:14
Alignment explanation
Indices: 15261366--15261397 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15261356 TAATATTTTT
15261366 ATTTTTA-ATT-TA
1 ATTTTTACATTCTA
15261378 ATTTTTACATTCTA
1 ATTTTTACATTCTA
15261392 ATTTTT
1 ATTTTT
15261398 TCTTTTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 3 0.17
14 8 0.44
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTTTACATTCTA
Found at i:15263256 original size:13 final size:13
Alignment explanation
Indices: 15263238--15263262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15263228 GTAAGTGATT
15263238 TTGATGATTTTTC
1 TTGATGATTTTTC
15263251 TTGATGATTTTT
1 TTGATGATTTTT
15263263 GCACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:15264115 original size:46 final size:47
Alignment explanation
Indices: 15263971--15264331 Score: 264
Period size: 46 Copynumber: 7.6 Consensus size: 47
15263961 ATTGTGTGCT
*
15263971 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCATATTACGA-G--AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCC-T-TGA-GATGTAAGCC
* * * *
15264017 AGTGTAAGACCATGTCTGGGATATGACATCAGCATTGAGATG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACATG-CATCGGCCTTGAGATGTA-AGCC
15264065 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
* *
15264111 AGTGTAAGA-CATGTCTGGGACATGCATCGG-CTACGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-TGAGATGTAAGCC
* ** * * * *
15264155 AGTGTAAGACCATGTCTGTGACATTGCATTAGCAC-GGATATCTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACA-TGCATCGGC-CTTGAGATGT-A-AGCC
* ** *
15264205 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCCTTGATTTCG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGAT-GTA-AGCC
* * * *
15264254 AGTGTAAGACCATGTCTGGGACATGGGATC-GACTTGATA-GCTGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTTGAGATG-TAAGCC
* *
15264301 AGCGTAAGACCGTGTCTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACAT-GCATCG
15264332 ACATTATACC
Statistics
Matches: 256, Mismatches: 38, Indels: 40
0.77 0.11 0.12
Matches are distributed among these distances:
44 11 0.04
45 16 0.06
46 78 0.30
47 60 0.23
48 26 0.10
49 33 0.13
50 32 0.12
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
Found at i:15264201 original size:140 final size:143
Alignment explanation
Indices: 15263971--15264278 Score: 380
Period size: 140 Copynumber: 2.2 Consensus size: 143
15263961 ATTGTGTGCT
**
15263971 AGTGTAAGACATGTCTGGGACATGCATCGGCCATATTACGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATACGACGAGAGCCAGTGTAAGACCATGTCTGG
* **
15264036 GATATGACATCAGCATTGAGATGAGAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTT
66 GACATGACATCAGCACGGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTT
15264099 GAGAT-G-TAAGCC
131 GAGATCGAT-AGCC
* *
15264111 AGTGTAAGACATGTCTGGGACATGCATCGG-C-TACGA-GATGTGTCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCATACGACGA-GAGCCAGTGTAAGACCATGTCTG
* * * *
15264173 TGACATTG-CATTAGCACGGATATCTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCGG
65 GGACA-TGACATCAGCACGGAGA--TGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
** *
15264237 CCTTGATTTCGATAGTC
127 CCTTGAGATCGATAGCC
15264254 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
15264279 GGATCGACTT
Statistics
Matches: 145, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
137 2 0.01
138 37 0.26
139 3 0.02
140 47 0.32
141 14 0.10
142 13 0.09
143 13 0.09
144 16 0.11
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (143 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCATACGACGAGAGCCAGTGTAAGACCATGTCTGG
GACATGACATCAGCACGGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTT
GAGATCGATAGCC
Found at i:15267396 original size:93 final size:93
Alignment explanation
Indices: 15267284--15267455 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
15267274 GCCCATAAGT
* *
15267284 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
15267349 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* * *
15267377 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
15267442 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
15267456 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:15267451 original size:46 final size:46
Alignment explanation
Indices: 15267276--15267451 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
15267266 TGTAACCCGC
* * *
15267276 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
15267322 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
15267372 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
*
15267415 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
15267452 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 64 0.59
47 27 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:15268531 original size:160 final size:160
Alignment explanation
Indices: 15268267--15268580 Score: 619
Period size: 160 Copynumber: 2.0 Consensus size: 160
15268257 CATTAAAAAT
*
15268267 GAGGCTAGAACGGACTTAGAATCGAGCTTGGAAGCTTGAAAAACCCTAGCCATGGTTTCTCCTTG
1 GAGGCTAGAACGGACTTACAATCGAGCTTGGAAGCTTGAAAAACCCTAGCCATGGTTTCTCCTTG
15268332 CTATATTCGGCCATGGGGTTGAAGATGAGCAAAATTGGCTTTTAATTTTGTATTTTAATTCATTT
66 CTATATTCGGCCATGGGGTTGAAGATGAGCAAAATTGGCTTTTAATTTTGTATTTTAATTCATTT
15268397 TACCCCTAAATGACCAAAATGCCCCTAAAC
131 TACCCCTAAATGACCAAAATGCCCCTAAAC
15268427 GAGGCTAGAACGGACTTACAATCGAGCTTGGAAGCTTGAAAAACCCTAGCCATGGTTTCTCCTTG
1 GAGGCTAGAACGGACTTACAATCGAGCTTGGAAGCTTGAAAAACCCTAGCCATGGTTTCTCCTTG
15268492 CTATATTCGGCCATGGGGTTGAAGATGAGCAAAATTGGCTTTTAATTTTGTATTTTAATTCATTT
66 CTATATTCGGCCATGGGGTTGAAGATGAGCAAAATTGGCTTTTAATTTTGTATTTTAATTCATTT
15268557 TACCCCTAAATGACCAAAATGCCC
131 TACCCCTAAATGACCAAAATGCCC
15268581 TTACTATTAA
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 153 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (160 bp):
GAGGCTAGAACGGACTTACAATCGAGCTTGGAAGCTTGAAAAACCCTAGCCATGGTTTCTCCTTG
CTATATTCGGCCATGGGGTTGAAGATGAGCAAAATTGGCTTTTAATTTTGTATTTTAATTCATTT
TACCCCTAAATGACCAAAATGCCCCTAAAC
Found at i:15277645 original size:13 final size:13
Alignment explanation
Indices: 15277627--15277651 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15277617 GTAAGTGATT
15277627 TTGATGATTTTTC
1 TTGATGATTTTTC
15277640 TTGATGATTTTT
1 TTGATGATTTTT
15277652 GCACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:15278483 original size:46 final size:47
Alignment explanation
Indices: 15278384--15278747 Score: 260
Period size: 46 Copynumber: 7.7 Consensus size: 47
15278374 TGGCCACATT
* *
15278384 ACGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAG
1 ACGAGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAG
15278432 ACGAGAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCATTGAG
1 ACGAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAG
* * * * *
15278478 ACGAGAGCTAGTGTAAGA-CATGTTTAGGACATGCATTGGCCTCGAG
1 ACGAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAG
* * * * *
15278524 ATGTA-AGCCAGTGTAAGA-CATGTGTGGCACATGCATCGGC-TACGAG
1 ACG-AGAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-TGAG
* * * * * ** *
15278570 ATGTG-TC-AGTGTAAGACCATGTCTGTGACATTGCATTGGCAAGGAT
1 ACGAGAGCTAGTGTAAGACCATGTCTGGGACA-TGCATCGGCATTGAG
* * * * * * *
15278616 ATGTGAGAGCTAGTGTAAGACCATGTCTGGTACATGGCGTCGACCTCGATT
1 A--CGAGAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGA-G
* * ** *
15278667 TCGATAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCAAC-TTGAT
1 ACGAGAGCT-AGTGTAAGACCATGTCTGGGACAT-GCATCGGCATTGAG
* * *
15278714 AGGTGAGCCAGTGTAAGACCATGTCTGGGACATG
1 ACGAGAGCTAGTGTAAGACCATGTCTGGGACATG
15278748 GCGTCGACCT
Statistics
Matches: 258, Mismatches: 44, Indels: 30
0.78 0.13 0.09
Matches are distributed among these distances:
44 9 0.03
45 12 0.05
46 105 0.41
47 42 0.16
48 25 0.10
49 36 0.14
50 28 0.11
51 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (47 bp):
ACGAGAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATTGAG
Found at i:15278693 original size:49 final size:49
Alignment explanation
Indices: 15278627--15278804 Score: 227
Period size: 49 Copynumber: 3.7 Consensus size: 49
15278617 TGTGAGAGCT
* * *
15278627 AGTGTAAGACCATGTCTGGTACATGGCGTCGACCTCGATTTCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATTTAGATAGTC
* * * *
15278676 AGTGTAAGACCATGTCTGGGACATGGCATC-AACTTGA--TAGGTGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATTTAGAT-AGTC
* * *
15278723 AGTGTAAGACCATGTCTGGGACATGGCGTCGACCTCAATTTTGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATTTAGATAGTC
*
15278772 AGTGTAAGACCATGTTTGGGACATGGCATCGAC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC
15278805 ATTATGCCTT
Statistics
Matches: 109, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 3 0.03
47 32 0.29
48 9 0.08
49 62 0.57
50 3 0.03
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.26
Consensus pattern (49 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCTCGATTTAGATAGTC
Found at i:15278749 original size:96 final size:96
Alignment explanation
Indices: 15278574--15278801 Score: 316
Period size: 96 Copynumber: 2.3 Consensus size: 96
15278564 TACGAGATGT
* * *
15278574 GTCAGTGTAAGACCATGTCTGTGACATTGCATTGGCAAGGATATGTGAGAGCTAGTGTAAGACCA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCA-T--CAAGGATATGTGAGAGCCAGTGTAAGACCA
* *
15278639 TGTCTGGTACATGGCGTCGACCTCGATTTCGATA
63 TGTCTGGGACATGGCGTCGACCTCAATTTCGATA
* *
15278673 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGATA-G-GTGAGCCAGTGTAAGACCAT
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATCAA--GGATATGTGAGAGCCAGTGTAAGACCAT
*
15278736 GTCTGGGACATGGCGTCGACCTCAATTTTGATA
64 GTCTGGGACATGGCGTCGACCTCAATTTCGATA
*
15278769 GTCAGTGTAAGACCATGTTTGGGACATGGCATC
1 GTCAGTGTAAGACCATGTCTGGGACATGGCATC
15278802 GACATTATGC
Statistics
Matches: 118, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
96 83 0.70
97 1 0.01
98 5 0.04
99 29 0.25
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (96 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCATCAAGGATATGTGAGAGCCAGTGTAAGACCATGT
CTGGGACATGGCGTCGACCTCAATTTCGATA
Found at i:15280949 original size:20 final size:19
Alignment explanation
Indices: 15280921--15281009 Score: 72
Period size: 20 Copynumber: 4.5 Consensus size: 19
15280911 TTTTAAAATA
* *
15280921 AAGTTAAAATTATTTTAATC
1 AAGTCAAAATGATTTTAA-C
*
15280941 AAGTCAAAATGATTTCAACC
1 AAGTCAAAATGATTTTAA-C
* *
15280961 AAGTTAAAATCATTTTAAC
1 AAGTCAAAATGATTTTAAC
15280980 ACA-TCAAAATGATTTTCAAAC
1 A-AGTCAAAATGATTTT--AAC
*
15281001 AAGCCAAAA
1 AAGTCAAAA
15281010 AGTATCAATA
Statistics
Matches: 55, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
19 13 0.24
20 33 0.60
21 9 0.16
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (19 bp):
AAGTCAAAATGATTTTAAC
Found at i:15280965 original size:40 final size:40
Alignment explanation
Indices: 15280921--15281003 Score: 116
Period size: 40 Copynumber: 2.1 Consensus size: 40
15280911 TTTTAAAATA
* *
15280921 AAGTTAAAATTATTTTAATCA-AGTCAAAATGA-TTTCAACC
1 AAGTTAAAATCATTTTAA-CACA-TCAAAATGATTTTCAAAC
15280961 AAGTTAAAATCATTTTAACACATCAAAATGATTTTCAAAC
1 AAGTTAAAATCATTTTAACACATCAAAATGATTTTCAAAC
15281001 AAG
1 AAG
15281004 CCAAAAAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
39 11 0.28
40 28 0.72
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (40 bp):
AAGTTAAAATCATTTTAACACATCAAAATGATTTTCAAAC
Found at i:15287146 original size:18 final size:18
Alignment explanation
Indices: 15287120--15287154 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15287110 GTTCTTAAAA
*
15287120 AAAAGGAAAAGGAAAATG
1 AAAAGGAAAAAGAAAATG
*
15287138 AAAATGAAAAAGAAAAT
1 AAAAGGAAAAAGAAAAT
15287155 TGATTGAGTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (18 bp):
AAAAGGAAAAAGAAAATG
Found at i:15287759 original size:83 final size:83
Alignment explanation
Indices: 15287659--15287820 Score: 288
Period size: 83 Copynumber: 2.0 Consensus size: 83
15287649 CATTTGAAAT
15287659 TTTAAGGAAAAAGTTAGAAAAATTCAACTGCAGGGGTCACACGGCTGATACACACAGCCGTGTCC
1 TTTAAGGAAAAAGTTAGAAAAATTCAACTGCAGGGGTCACACGGCTGATACACACAGCCGTGTCC
15287724 CAGCCCGTGTCCGTAAAA
66 CAGCCCGTGTCCGTAAAA
* *
15287742 TTTAAGGAAAAAGTTAGAAAAATTCAACTGCAGGTGTCACACGGCTGATACACACGGCCGTGTCC
1 TTTAAGGAAAAAGTTAGAAAAATTCAACTGCAGGGGTCACACGGCTGATACACACAGCCGTGTCC
* *
15287807 CAGCCTGTTTCCGT
66 CAGCCCGTGTCCGT
15287821 GCCCATGTAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 75 1.00
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (83 bp):
TTTAAGGAAAAAGTTAGAAAAATTCAACTGCAGGGGTCACACGGCTGATACACACAGCCGTGTCC
CAGCCCGTGTCCGTAAAA
Found at i:15288902 original size:22 final size:24
Alignment explanation
Indices: 15288866--15288911 Score: 62
Period size: 22 Copynumber: 2.0 Consensus size: 24
15288856 ATCAATCCAC
15288866 TTTTCCATTTCCAAT-TC-ATATA
1 TTTTCCATTTCCAATATCGATATA
15288888 TTTTGCCATTT-CAATATCGATATA
1 TTTT-CCATTTCCAATATCGATATA
15288912 GAACTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 8 0.38
23 8 0.38
24 5 0.24
ACGTcount: A:0.28, C:0.20, G:0.04, T:0.48
Consensus pattern (24 bp):
TTTTCCATTTCCAATATCGATATA
Found at i:15295939 original size:27 final size:27
Alignment explanation
Indices: 15295899--15295951 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
15295889 TCTCCCTTTC
*
15295899 CATTAGATTTTCTAGTTCCTTTGTGAA
1 CATTAGATTATCTAGTTCCTTTGTGAA
*
15295926 CATTAGATTATCTAGTTCTTTTGTGA
1 CATTAGATTATCTAGTTCCTTTGTGA
15295952 GCTTACTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.49
Consensus pattern (27 bp):
CATTAGATTATCTAGTTCCTTTGTGAA
Found at i:15309952 original size:63 final size:63
Alignment explanation
Indices: 15309872--15310000 Score: 249
Period size: 63 Copynumber: 2.0 Consensus size: 63
15309862 TTATTTTTAA
*
15309872 ATTTTTTTCAATTGAATTAATGACCATTTAATTCGTAACACGAATTTAATTATAAACTTAGAT
1 ATTTTTTTCAATTGAATTAATGACCATTTAATTCGTAACACAAATTTAATTATAAACTTAGAT
15309935 ATTTTTTTCAATTGAATTAATGACCATTTAATTCGTAACACAAATTTAATTATAAACTTAGAT
1 ATTTTTTTCAATTGAATTAATGACCATTTAATTCGTAACACAAATTTAATTATAAACTTAGAT
15309998 ATT
1 ATT
15310001 ATAATGATTG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (63 bp):
ATTTTTTTCAATTGAATTAATGACCATTTAATTCGTAACACAAATTTAATTATAAACTTAGAT
Found at i:15313156 original size:94 final size:95
Alignment explanation
Indices: 15313049--15313264 Score: 253
Period size: 94 Copynumber: 2.3 Consensus size: 95
15313039 GTGCCGATGT
* * *
15313049 CATGTCCTAGACATGGTCTTACACTGGCATCTCTAT-AC-ATGCCGATTCCATGTCCCAAACAT-
1 CATGTCCCAGACAT-GTCTTACACTGGCATCTC-ATCACAATGCCAATGCCATGTCCCAAACATG
* **
15313111 GTCTTACACTGG-TTTACATTTTGAGGCCGATA
64 GTCTTACACTGGCTGT-CATAATGAGGCCGATA
* * *
15313143 CATGTCCCAGACATGTCTTACACTGG-TTCTCATCTCAATGCCAATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATGTCTTACACTGGCATCTCATCACAATGCCAATGCCATGTCCCAAACATGGT
* *
15313207 CTTACACTGGCTGTCATAATGTGGCCGATG
66 CTTACACTGGCTGTCATAATGAGGCCGATA
* *
15313237 CATGTTCCAGACATATCTTACACTGGCA
1 CATGTCCCAGACATGTCTTACACTGGCA
15313265 CACAAATAAC
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
91 2 0.02
92 5 0.05
93 33 0.32
94 61 0.59
95 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (95 bp):
CATGTCCCAGACATGTCTTACACTGGCATCTCATCACAATGCCAATGCCATGTCCCAAACATGGT
CTTACACTGGCTGTCATAATGAGGCCGATA
Found at i:15313241 original size:47 final size:43
Alignment explanation
Indices: 15313040--15313263 Score: 171
Period size: 46 Copynumber: 4.8 Consensus size: 43
15313030 CACGTATCTG
*
15313040 TGCCGATGTCATGTCCTAGACATGGTCTTACACTGGCATCTCTATACA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGC-TCTC-ATA-A
* * * *
15313088 TGCCGATTCCATGTCCCAAACATGTCTTACACTGG-TTTACATTTTGA
1 TGCCGA-TGCATGTCCCAGACATGTCTTACACTGGCTCT-CA---TAA
* * *
15313135 GGCCGATACATGTCCCAGACATGTCTTACACTGGTTCTCATCTCAA
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCA--T-AA
* *
15313181 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTGTCATAA
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAA
* *
15313226 TGTGGCCGATGCATGTTCCAGACATATCTTACACTGGC
1 --T-GCCGATGCATGTCCCAGACATGTCTTACACTGGC
15313264 ACACAAATAA
Statistics
Matches: 145, Mismatches: 19, Indels: 26
0.76 0.10 0.14
Matches are distributed among these distances:
45 7 0.05
46 48 0.33
47 48 0.33
48 41 0.28
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (43 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAA
Found at i:15320349 original size:20 final size:18
Alignment explanation
Indices: 15320311--15320349 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 18
15320301 AGTTTTGAGG
*
15320311 GTTTTGAGAGAAGTAAAA
1 GTTTTGAGAGAACTAAAA
15320329 GTTTTGAGGAGAAACTAAAA
1 GTTTTGA-GAG-AACTAAAA
15320349 G
1 G
15320350 GAAAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.44, C:0.03, G:0.28, T:0.26
Consensus pattern (18 bp):
GTTTTGAGAGAACTAAAA
Found at i:15325234 original size:18 final size:19
Alignment explanation
Indices: 15325189--15325234 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
15325179 TCATCAAAAC
15325189 TGAAA-GTGAAAGTGAAAT
1 TGAAATGTGAAAGTGAAAT
*
15325207 TGAAAT-TGAAAGTGATA-
1 TGAAATGTGAAAGTGAAAT
*
15325224 TGAATTGTGAA
1 TGAAATGTGAA
15325235 TTGAAAATCC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.46, C:0.00, G:0.26, T:0.28
Consensus pattern (19 bp):
TGAAATGTGAAAGTGAAAT
Found at i:15327114 original size:9 final size:9
Alignment explanation
Indices: 15327100--15327167 Score: 82
Period size: 9 Copynumber: 7.6 Consensus size: 9
15327090 ATAAGTATAA
*
15327100 AATTAACTG
1 AATTAACCG
*
15327109 AATTAATCG
1 AATTAACCG
*
15327118 AATTAATCG
1 AATTAACCG
*
15327127 AATTACCCG
1 AATTAACCG
* *
15327136 AATTACCCA
1 AATTAACCG
15327145 AATTAACCG
1 AATTAACCG
15327154 AATTAACCG
1 AATTAACCG
15327163 AATTA
1 AATTA
15327168 TTTGTATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:15327199 original size:6 final size:6
Alignment explanation
Indices: 15327188--15327246 Score: 73
Period size: 6 Copynumber: 9.5 Consensus size: 6
15327178 ATTATATGTT
* * *
15327188 TTTTTA TTTTTA TTTTTA TTTTTA GTTTTA GTTTTA GTTTTAGA TTTTTA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA
15327238 TTTTTA TTT
1 TTTTTA TTT
15327247 ATTAAATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
6 39 0.83
7 7 0.15
8 1 0.02
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:15328159 original size:29 final size:30
Alignment explanation
Indices: 15328114--15328184 Score: 83
Period size: 29 Copynumber: 2.3 Consensus size: 30
15328104 TGTAACAATA
*
15328114 AAATTAATTT-CTAAAATAATAT-AAGTTAT
1 AAATT-ATTTACTAAAATAATATAAACTTAT
*
15328143 AAATTATTTACTCAAATAATATGAAACTTAT
1 AAATTATTTACTAAAATAATAT-AAACTTAT
15328174 ATAATTATTTA
1 A-AATTATTTA
15328185 ATAATAATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
28 4 0.11
29 16 0.44
31 7 0.19
32 9 0.25
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (30 bp):
AAATTATTTACTAAAATAATATAAACTTAT
Found at i:15328285 original size:29 final size:29
Alignment explanation
Indices: 15328248--15328315 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
15328238 TGTAACTTTC
15328248 ATATTATTTTGATAAA-TAATT-TATAATTT
1 ATATTATTTTGA-AAATTAATTCTAT-ATTT
* *
15328277 ATATCATTTTGAAAATTAATTCTATTTTT
1 ATATTATTTTGAAAATTAATTCTATATTT
15328306 ATATTATTTT
1 ATATTATTTT
15328316 AATATTTTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 3 0.09
29 28 0.82
30 3 0.09
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (29 bp):
ATATTATTTTGAAAATTAATTCTATATTT
Found at i:15328574 original size:32 final size:29
Alignment explanation
Indices: 15328506--15328582 Score: 82
Period size: 32 Copynumber: 2.5 Consensus size: 29
15328496 ATAGTTCTTG
* *
15328506 TATTATTTTGATAAATAATTTATAATTTA
1 TATTATTTTAAAAAATAATTTATAATTTA
* *
15328535 TAATATTTTAAAAAATTAATTTTATATTTTTA
1 TATTATTTTAAAAAA-TAA-TTTATA-ATTTA
15328567 TATTATTTTAATAAAA
1 TATTATTTTAA-AAAA
15328583 ATCTATTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
29 12 0.31
30 3 0.08
31 6 0.15
32 14 0.36
33 4 0.10
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (29 bp):
TATTATTTTAAAAAATAATTTATAATTTA
Found at i:15328633 original size:32 final size:32
Alignment explanation
Indices: 15328561--15328635 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
15328551 TAATTTTATA
* *
15328561 TTTTTATA-TT-ATTTTAATAAAAATCTATTT
1 TTTTTATATTTAAATTTAATAAAAATCAATTT
*
15328591 TATTTATATTTAAATTTAATAATAAAT-AATTT
1 TTTTTATATTTAAATTTAATAA-AAATCAATTT
15328623 TTTTTATATTTAA
1 TTTTTATATTTAA
15328636 GGTTTGTGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 7 0.18
31 2 0.05
32 25 0.66
33 4 0.11
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTTTATATTTAAATTTAATAAAAATCAATTT
Found at i:15339995 original size:53 final size:53
Alignment explanation
Indices: 15339839--15340004 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
15339829 GACGAAAAAT
* **
15339839 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
15339891 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
15339944 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
15339998 TATGTGA
1 -ATGTGA
15340005 ACGTGTAAGA
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:15347495 original size:53 final size:53
Alignment explanation
Indices: 15347339--15347504 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
15347329 GACGAAAAAT
* **
15347339 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
15347391 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
15347444 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
15347498 TATGTGA
1 -ATGTGA
15347505 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:15349755 original size:27 final size:27
Alignment explanation
Indices: 15349702--15349756 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
15349692 GAACTAATGT
* *
15349702 CGCCTACAAGATTGGCACCAGTAGTGC
1 CGCCTACAAAATTGGCACCACTAGTGC
*
15349729 CGCCTACAAAATTGGCACCACTGGTGC
1 CGCCTACAAAATTGGCACCACTAGTGC
15349756 C
1 C
15349757 ACTTATAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.33, G:0.24, T:0.18
Consensus pattern (27 bp):
CGCCTACAAAATTGGCACCACTAGTGC
Found at i:15354914 original size:18 final size:18
Alignment explanation
Indices: 15354867--15354917 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
15354857 AGCTCTCAGG
15354867 CATTCTTCTCCCTTCATC
1 CATTCTTCTCCCTTCATC
***
15354885 CAGTAAGT-TCCCTTCATC
1 CA-TTCTTCTCCCTTCATC
15354903 CATTCTTCTCCCTTC
1 CATTCTTCTCCCTTC
15354918 CTTCATTCCT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
17 2 0.08
18 21 0.84
19 2 0.08
ACGTcount: A:0.14, C:0.41, G:0.04, T:0.41
Consensus pattern (18 bp):
CATTCTTCTCCCTTCATC
Found at i:15357756 original size:20 final size:20
Alignment explanation
Indices: 15357718--15357757 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15357708 AATATTTTCC
* *
15357718 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTACAGAAA
*
15357738 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
15357758 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:15357772 original size:34 final size:35
Alignment explanation
Indices: 15357706--15357772 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
15357696 CAAACACCAG
* *
15357706 AAAATATTTTCCAGTAAATCATTTTATAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
15357741 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
15357773 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:15357779 original size:14 final size:14
Alignment explanation
Indices: 15357741--15357780 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
15357731 ATAGAAAAGT
*
15357741 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
15357755 AAATCATTTTACGG
1 AAAACATTTTACAG
15357769 AAAACATTTTAC
1 AAAACATTTTAC
15357781 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:15357991 original size:15 final size:15
Alignment explanation
Indices: 15357952--15358004 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 15
15357942 GAACATTTGG
15357952 AATTTAATTAGATAAAA
1 AATTT-ATTA-ATAAAA
15357969 AACTTTTATTAATAAAA
1 AA--TTTATTAATAAAA
*
15357986 AATTTATTTATAAATA
1 AATTTATTAATAAA-A
15358002 AAT
1 AAT
15358005 CATTGCAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 11 0.34
16 4 0.12
17 10 0.31
18 4 0.12
19 3 0.09
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (15 bp):
AATTTATTAATAAAA
Found at i:15358078 original size:22 final size:20
Alignment explanation
Indices: 15358035--15358073 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15358025 TAATTTAAAA
15358035 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
15358055 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
15358074 ATGTAAAAAC
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:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:15359613 original size:168 final size:169
Alignment explanation
Indices: 15359328--15359690 Score: 511
Period size: 168 Copynumber: 2.2 Consensus size: 169
15359318 TGGTCTTGAA
*
15359328 TGATTTTAGGAAACACG-TTTGTTTAAATTAAGACTTCAATTTACAACTTAATAAATTAGACTTT
1 TGATTTTAGGAAACA-GATTTGTTTAAATTAAGACTTCAATTTACAACATAATAAATTAGACTTT
**
15359392 GTGATGACATGTAATTTGAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGG
65 GTGATGACATGTAACATGAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGG
*
15359457 AATATAAGTAAATAGTAATGAAACCTTGGGTCTT-AAATTT
130 AATATAAGTAAATAGTAATAAAACCTT-GGTCTTAAAATTT
* * * *
15359497 TGATTCTAGGAAACAGATTTGTTTAAA-TAAGACTTCAATTTTACAGCATGATAAATTAGATTTT
1 TGATTTTAGGAAACAGATTTGTTTAAATTAAGACTTCAA-TTTACAACATAATAAATTAGACTTT
* * * ** *
15359561 GTGATGACAT-TCACATGAGTGCTTTCTTGTCCTTTATTTATATGGTTTTCCAATTTCACAATGG
65 GTGATGACATGTAACATGAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGG
*
15359625 AATATACGTAAATAGTAATAAAACCTTGGTCTTAAAATTT
130 AATATAAGTAAATAGTAATAAAACCTTGGTCTTAAAATTT
* *
15359665 T-ATTTTAGGAAACTGATTTGCTTAAA
1 TGATTTTAGGAAACAGATTTGTTTAAA
15359691 ATTATATCTT
Statistics
Matches: 173, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
167 28 0.16
168 90 0.52
169 55 0.32
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.40
Consensus pattern (169 bp):
TGATTTTAGGAAACAGATTTGTTTAAATTAAGACTTCAATTTACAACATAATAAATTAGACTTTG
TGATGACATGTAACATGAATGCTTTCTTGTCCTTGATTTATATGGTTTTCCAATCACACAAAGGA
ATATAAGTAAATAGTAATAAAACCTTGGTCTTAAAATTT
Found at i:15360068 original size:15 final size:15
Alignment explanation
Indices: 15360048--15360077 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15360038 AGAACATGCT
15360048 ACATATGCAATTTAA
1 ACATATGCAATTTAA
15360063 ACATATGCAATTTAA
1 ACATATGCAATTTAA
15360078 CTAGTTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (15 bp):
ACATATGCAATTTAA
Found at i:15361463 original size:18 final size:18
Alignment explanation
Indices: 15361442--15361484 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
15361432 ATAATTTAAA
15361442 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
15361460 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
15361478 ATGTAAA
1 ATATAAA
15361485 AATAACTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:15361604 original size:20 final size:19
Alignment explanation
Indices: 15361559--15361604 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
15361549 CATCCAAATA
15361559 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
15361578 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
15361597 CTCAGAAA
1 C-CAGAAA
15361605 TCATTTTCCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:15366142 original size:27 final size:27
Alignment explanation
Indices: 15366111--15366218 Score: 76
Period size: 27 Copynumber: 4.0 Consensus size: 27
15366101 TAAGACCCCA
*
15366111 ATTTGTAAAATTATCGAAATACCCCTG
1 ATTTGTAAAATTATCAAAATACCCCTG
* * * *
15366138 ATTTGTGAAGTTA-CTAAAATACTCTTG
1 ATTTGTAAAATTATC-AAAATACCCCTG
* * *
15366165 ATTTGTGAAATTACCAAAATA-CCTTCG
1 ATTTGTAAAATTATCAAAATACCCCT-G
* * **
15366192 GTTTGTAAAATAATCGTAATACCCCTG
1 ATTTGTAAAATTATCAAAATACCCCTG
15366219 TAGGGTAAAA
Statistics
Matches: 63, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
26 4 0.06
27 55 0.87
28 4 0.06
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (27 bp):
ATTTGTAAAATTATCAAAATACCCCTG
Found at i:15366226 original size:27 final size:27
Alignment explanation
Indices: 15366196--15366283 Score: 79
Period size: 27 Copynumber: 3.3 Consensus size: 27
15366186 CCTTCGGTTT
15366196 GTAAAATAA-TCGTAATACCCCTGTAGG
1 GTAAAATAACT-GTAATACCCCTGTAGG
* **
15366223 GTAAAATGACTGTAATGGCCCTGTAGG
1 GTAAAATAACTGTAATACCCCTGTAGG
* * * ** *
15366250 GTAAAATGACAGTGATACATCTGTATG
1 GTAAAATAACTGTAATACCCCTGTAGG
15366277 GTAAAAT
1 GTAAAAT
15366284 GATGATTATG
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (27 bp):
GTAAAATAACTGTAATACCCCTGTAGG
Found at i:15366311 original size:23 final size:24
Alignment explanation
Indices: 15366285--15366329 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
15366275 TGGTAAAATG
15366285 ATGATT-ATGCCCTTATGTTTTGT
1 ATGATTGATGCCCTTATGTTTTGT
**
15366308 ATGATTGATGTGCTTATGTTTT
1 ATGATTGATGCCCTTATGTTTT
15366330 ACACATATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.18, C:0.09, G:0.20, T:0.53
Consensus pattern (24 bp):
ATGATTGATGCCCTTATGTTTTGT
Found at i:15366478 original size:26 final size:26
Alignment explanation
Indices: 15366422--15366503 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
15366412 ATAGAGGAAG
*
15366422 TACTGTACTGGTGACTATGTCAC-AT
1 TACTGTACTGGTGGCTATGTCACAAT
15366447 TCACTGTTAC-GGTGGCTATGTCACAAT
1 T-ACTG-TACTGGTGGCTATGTCACAAT
* *
15366474 TACTGATACTGGTGGCT-TGCCACATT
1 TACTG-TACTGGTGGCTATGTCACAAT
15366500 TACT
1 TACT
15366504 ATTTTTAGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
25 1 0.02
26 35 0.71
27 13 0.27
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (26 bp):
TACTGTACTGGTGGCTATGTCACAAT
Found at i:15366721 original size:28 final size:28
Alignment explanation
Indices: 15366662--15366727 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 28
15366652 ATTACACTGT
* * * * *
15366662 ACTGATACTGTATTGGGCTTAGGCCCAT
1 ACTGTTACTGTATAGGGCTAAAGCCCAG
*
15366690 ACTGTTACTGTATAGGGCTAAAGCTCAG
1 ACTGTTACTGTATAGGGCTAAAGCCCAG
15366718 ACTGTT-CTGT
1 ACTGTTACTGT
15366728 TATTGTATAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (28 bp):
ACTGTTACTGTATAGGGCTAAAGCCCAG
Found at i:15366728 original size:33 final size:32
Alignment explanation
Indices: 15366691--15366788 Score: 106
Period size: 33 Copynumber: 3.0 Consensus size: 32
15366681 TAGGCCCATA
*
15366691 CTGTTACTGTATAGGGCTAAAGCTCAGACTGTT
1 CTGTTACTGTATAGGGCTAAAGC-CAGAATGTT
* * *
15366724 CTGTTATTGTATAGGGCTAAGGCCAGAATGTA
1 CTGTTACTGTATAGGGCTAAAGCCAGAATGTT
* * * *
15366756 CTGATACTGGATAGGGCTCAAGCCCAGATTGTT
1 CTGTTACTGTATAGGGCTAAAG-CCAGAATGTT
15366789 ACTGCATGCA
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
32 24 0.45
33 29 0.55
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (32 bp):
CTGTTACTGTATAGGGCTAAAGCCAGAATGTT
Found at i:15370266 original size:17 final size:19
Alignment explanation
Indices: 15370239--15370277 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
15370229 TCGGTTGTAC
*
15370239 TGGGCCTTATGGTCCCA-A
1 TGGGCCTTATGGGCCCACA
15370257 TGGG-CTTATGGGCCCACA
1 TGGGCCTTATGGGCCCACA
15370275 TGG
1 TGG
15370278 ATAAAATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.15, C:0.26, G:0.33, T:0.26
Consensus pattern (19 bp):
TGGGCCTTATGGGCCCACA
Found at i:15370807 original size:27 final size:27
Alignment explanation
Indices: 15370721--15370800 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
15370711 GTTAAGACCT
* * **
15370721 TGATTTGTAAAATTACCGAAATATTCC
1 TGATTTGTGAAATTACCAAAATACCCC
* *
15370748 TGATTTGTGAAGTTACTAAAATACCCC
1 TGATTTGTGAAATTACCAAAATACCCC
15370775 TGATTTGTGAAATTACCAAAATACCC
1 TGATTTGTGAAATTACCAAAATACCC
15370801 TAAATTTATA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (27 bp):
TGATTTGTGAAATTACCAAAATACCCC
Found at i:15370843 original size:27 final size:27
Alignment explanation
Indices: 15370813--15371030 Score: 251
Period size: 27 Copynumber: 8.1 Consensus size: 27
15370803 AATTTATAAT
15370813 ATGACCGTAATACCCTTGTAGGGTAAA
1 ATGACCGTAATACCCTTGTAGGGTAAA
*
15370840 ATGACCGTAATACCAC-TGTAGGGTAAG
1 ATGACCGTAATACC-CTTGTAGGGTAAA
* * *
15370867 ATGACCATAATGCCCCTGTAGGGTAAA
1 ATGACCGTAATACCCTTGTAGGGTAAA
*
15370894 ATGACCGTAATA-TCTCTGTAGGGTAAA
1 ATGACCGTAATACCCT-TGTAGGGTAAA
* *
15370921 ATGACTGTAATACCCCTGTAGGGTAAA
1 ATGACCGTAATACCCTTGTAGGGTAAA
* * * * *
15370948 ATGGCCATAATGCCCCTGTGGGGTAAA
1 ATGACCGTAATACCCTTGTAGGGTAAA
* **
15370975 ATAATAGTAATACCCTTGTAGGGTAAA
1 ATGACCGTAATACCCTTGTAGGGTAAA
* *
15371002 ATGATCGTAATACCCTTGTATGGTAAA
1 ATGACCGTAATACCCTTGTAGGGTAAA
15371029 AT
1 AT
15371031 AACAATTATA
Statistics
Matches: 160, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 2 0.01
27 156 0.98
28 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (27 bp):
ATGACCGTAATACCCTTGTAGGGTAAA
Found at i:15370920 original size:81 final size:81
Alignment explanation
Indices: 15370813--15371030 Score: 305
Period size: 81 Copynumber: 2.7 Consensus size: 81
15370803 AATTTATAAT
*
15370813 ATGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATACCACTGTAGGGTAAGATGACCATAAT
1 ATGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATACCACTGTAGGGTAAAATGACCATAAT
15370878 GCCCCTGTAGGGTAAA
66 GCCCCTGTAGGGTAAA
* * * *
15370894 ATGACCGTAATA-TCTCTGTAGGGTAAAATGACTGTAATACCCCTGTAGGGTAAAATGGCCATAA
1 ATGACCGTAATACCCT-TGTAGGGTAAAATGACCGTAATACCACTGTAGGGTAAAATGACCATAA
*
15370958 TGCCCCTGTGGGGTAAA
65 TGCCCCTGTAGGGTAAA
* ** * *
15370975 ATAATAGTAATACCCTTGTAGGGTAAAATGATCGTAATACC-CTTGTATGGTAAAAT
1 ATGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATACCAC-TGTAGGGTAAAAT
15371031 AACAATTATA
Statistics
Matches: 121, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
80 3 0.02
81 116 0.96
82 2 0.02
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.27
Consensus pattern (81 bp):
ATGACCGTAATACCCTTGTAGGGTAAAATGACCGTAATACCACTGTAGGGTAAAATGACCATAAT
GCCCCTGTAGGGTAAA
Found at i:15371240 original size:27 final size:26
Alignment explanation
Indices: 15371170--15371260 Score: 148
Period size: 27 Copynumber: 3.5 Consensus size: 26
15371160 TGGAGGAAGT
15371170 ACTGTATTGGTGACTATGTCACATT-
1 ACTGTATTGGTGACTATGTCACATTA
*
15371195 ACTGTACTGGTGACTATGTCACATTA
1 ACTGTATTGGTGACTATGTCACATTA
15371221 ACTGTTATTGGTGACTATGTCACATTA
1 ACTG-TATTGGTGACTATGTCACATTA
15371248 ACTGTTATTGGTG
1 ACTG-TATTGGTG
15371261 GCTGTGCCAC
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
25 24 0.39
26 4 0.06
27 34 0.55
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ACTGTATTGGTGACTATGTCACATTA
Found at i:15371271 original size:27 final size:26
Alignment explanation
Indices: 15371169--15371306 Score: 147
Period size: 27 Copynumber: 5.3 Consensus size: 26
15371159 ATGGAGGAAG
15371169 TACTG-TATTGGTGACTATGTCACAT
1 TACTGTTATTGGTGACTATGTCACAT
*
15371194 TACTG-TACTGGTGACTATGTCACAT
1 TACTGTTATTGGTGACTATGTCACAT
15371219 TAACTGTTATTGGTGACTATGTCACAT
1 T-ACTGTTATTGGTGACTATGTCACAT
* * *
15371246 TAACTGTTATTGGTGGCTGTGCCACAAT
1 T-ACTGTTATTGGTGACTATGTCAC-AT
* * * *
15371274 TACTGATACTGGTGGCT-TGCCACATT
1 TACTGTTATTGGTGACTATGTCACA-T
15371300 TACTGTT
1 TACTGTT
15371307 TCTGGCAGCT
Statistics
Matches: 101, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
25 26 0.26
26 17 0.17
27 55 0.54
28 3 0.03
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.38
Consensus pattern (26 bp):
TACTGTTATTGGTGACTATGTCACAT
Found at i:15371536 original size:33 final size:34
Alignment explanation
Indices: 15371494--15371589 Score: 101
Period size: 33 Copynumber: 2.9 Consensus size: 34
15371484 GCCTACACTG
15371494 TTACTGTATAGGGCTAGAGCCCAGACTGTTCT-A
1 TTACTGTATAGGGCTAGAGCCCAGACTGTTCTGA
* *
15371527 TTACTGTATAGGGCTA-AGGCCTAGACTGTACTGA
1 TTACTGTATAGGGCTAGA-GCCCAGACTGTTCTGA
* * *
15371561 -TATTGGATAGGGCTCAGA-CCCAAACTGTT
1 TTACTGTATAGGGCT-AGAGCCCAGACTGTT
15371590 ACTGCATGCA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
32 1 0.02
33 48 0.92
34 2 0.04
35 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (34 bp):
TTACTGTATAGGGCTAGAGCCCAGACTGTTCTGA
Found at i:15381904 original size:13 final size:13
Alignment explanation
Indices: 15381886--15381911 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15381876 GGATTATTAT
15381886 GATGTAATTTTTA
1 GATGTAATTTTTA
15381899 GATGTAATTTTTA
1 GATGTAATTTTTA
15381912 TTATATATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
GATGTAATTTTTA
Found at i:15382304 original size:17 final size:16
Alignment explanation
Indices: 15382274--15382310 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
15382264 TTTTATACCT
*
15382274 CTTTTTTTTGTTTTTG
1 CTTTTTTTTATTTTTG
15382290 CTTTTATTTTATTTTTG
1 CTTTT-TTTTATTTTTG
15382307 CTTT
1 CTTT
15382311 CCCTCATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.05, C:0.08, G:0.08, T:0.78
Consensus pattern (16 bp):
CTTTTTTTTATTTTTG
Found at i:15382335 original size:6 final size:6
Alignment explanation
Indices: 15382320--15382366 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
15382310 TCCCTCATTC
*
15382320 TTTTCAT TTTTC- TTTTCTT TTATTCT TTTGCT TTTTCT TTTTCT TTT
1 TTTTC-T TTTTCT TTTTC-T TT-TTCT TTTTCT TTTTCT TTTTCT TTT
15382367 CTTCTACACT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
5 5 0.14
6 17 0.49
7 10 0.29
8 3 0.09
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTCT
Found at i:15382336 original size:25 final size:25
Alignment explanation
Indices: 15382296--15382360 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
15382286 TTTGCTTTTA
15382296 TTTT-ATTTTTGC-TTTCCCTCATTC
1 TTTTCATTTTT-CTTTTCCCTCATTC
** *
15382320 TTTTCATTTTTCTTTTCTTTTATTC
1 TTTTCATTTTTCTTTTCCCTCATTC
15382345 TTTTGC-TTTTTCTTTT
1 TTTT-CATTTTTCTTTT
15382361 TCTTTTCTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 5 0.14
25 29 0.83
26 1 0.03
ACGTcount: A:0.06, C:0.18, G:0.03, T:0.72
Consensus pattern (25 bp):
TTTTCATTTTTCTTTTCCCTCATTC
Found at i:15388971 original size:29 final size:29
Alignment explanation
Indices: 15388927--15388986 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
15388917 AATACTTTTT
*
15388927 TCCATAGAGATACTTTTAAGAATATTCTA
1 TCCATAGAGATACTTTTAAGAATACTCTA
* * *
15388956 TCCATGGAGATTCTTTTAGGAATACTCTA
1 TCCATAGAGATACTTTTAAGAATACTCTA
15388985 TC
1 TC
15388987 TCCTACTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (29 bp):
TCCATAGAGATACTTTTAAGAATACTCTA
Found at i:15392303 original size:28 final size:27
Alignment explanation
Indices: 15392261--15392358 Score: 97
Period size: 28 Copynumber: 3.5 Consensus size: 27
15392251 ATATTATATG
** *
15392261 TGGCACTTAACGTGCGAAGTATCGGGGA
1 TGGCACTTAGTGTGCGAA-TATCGAGGA
* * *
15392289 TGGCACTTAGTGTGCGATACATCCAGAA
1 TGGCACTTAGTGTGCGA-ATATCGAGGA
*
15392317 TGGCACTTAGTGTGCGAATTAACGAGGA
1 TGGCACTTAGTGTGCGAA-TATCGAGGA
*
15392345 TGGTACTTAGTGTG
1 TGGCACTTAGTGTG
15392359 TGAAACATCC
Statistics
Matches: 57, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
27 1 0.02
28 55 0.96
29 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.27
Consensus pattern (27 bp):
TGGCACTTAGTGTGCGAATATCGAGGA
Found at i:15392347 original size:56 final size:55
Alignment explanation
Indices: 15392261--15392422 Score: 175
Period size: 56 Copynumber: 2.9 Consensus size: 55
15392251 ATATTATATG
** *
15392261 TGGCACTTAACGTGCGAAGTATCGGGGATGGCACTTAGTGTGCGATACATCCAGAA
1 TGGCACTTAGTGTGCGAAGTATC-GGGATGGCACTTAGTGTGCGATACATCCAAAA
* * * * *
15392317 TGGCACTTAGTGTGCGAATTAACGAGGATGGTACTTAGTGTGTGAAACATCCAAAA
1 TGGCACTTAGTGTGCGAAGTATCG-GGATGGCACTTAGTGTGCGATACATCCAAAA
* *
15392373 CGACACTTAGTGTGC-AAGGTATCGGGTATGGCA-TCTAGTGTGCGATACAT
1 TGGCACTTAGTGTGCGAA-GTATCGGG-ATGGCACT-TAGTGTGCGATACAT
15392423 TGAATATTCA
Statistics
Matches: 87, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
55 6 0.07
56 81 0.93
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (55 bp):
TGGCACTTAGTGTGCGAAGTATCGGGATGGCACTTAGTGTGCGATACATCCAAAA
Found at i:15398808 original size:40 final size:40
Alignment explanation
Indices: 15398571--15398794 Score: 287
Period size: 40 Copynumber: 5.6 Consensus size: 40
15398561 TGAATGATGT
* * * *
15398571 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
15398611 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
15398651 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
15398689 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
15398730 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
15398770 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
15398795 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
39 35 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:15398816 original size:119 final size:119
Alignment explanation
Indices: 15398570--15398827 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
15398560 TTGAATGATG
* *
15398570 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
* * **
15398635 GTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGTCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * *
15398689 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
* * *
15398752 TTGTGCGAGTCACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGTCACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
15398809 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
15398828 TACGTGATTT
Statistics
Matches: 119, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
118 3 0.03
119 85 0.71
120 31 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GTGCGAGTCACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:15406757 original size:39 final size:40
Alignment explanation
Indices: 15406656--15406898 Score: 300
Period size: 40 Copynumber: 6.1 Consensus size: 40
15406646 TTGAATGATG
* * *
15406656 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
*
15406696 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
*
15406735 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
15406775 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
15406814 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* * **
15406854 ACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATA
15406894 TCCGG
1 TCCGG
15406899 TTAAATTCTG
Statistics
Matches: 179, Mismatches: 16, Indels: 16
0.85 0.08 0.08
Matches are distributed among these distances:
39 72 0.40
40 99 0.55
41 8 0.04
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:15406846 original size:79 final size:79
Alignment explanation
Indices: 15406657--15406879 Score: 299
Period size: 79 Copynumber: 2.8 Consensus size: 79
15406647 TGAATGATGT
* * * *
15406657 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTATATCCGGGCTAAG-TCCGAAGGCATTT
*
15406721 GTGCGAGTTACTAATT
64 GTGCGAGTTACTAATA
* * *
15406737 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATATCCGGGCTAAGTCCGAAGGCATTTGT
15406801 GCGAGTTACT-ATAA
66 GCGAGTTACTAAT-A
* *
15406815 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATATCCGGGCTAAGT-CCGAAGGCATTTG
15406880 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
77 2 0.02
78 35 0.28
79 61 0.48
80 29 0.23
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATATCCGGGCTAAGTCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:15409979 original size:28 final size:28
Alignment explanation
Indices: 15409948--15410103 Score: 181
Period size: 28 Copynumber: 5.6 Consensus size: 28
15409938 AATAATGGGG
* *
15409948 ATGGCACTTAGTATGCGATACATCTAGA
1 ATGGCACTTAGTGTGCGATACATCCAGA
15409976 ATGGCACTTAGTGTGCGATACATCCAGA
1 ATGGCACTTAGTGTGCGATACATCCAGA
* * *
15410004 ATGGCACTTAGTGTGTGGAGTA-A-CGAGG
1 ATGGCACTTAGTGTG-CGA-TACATCCAGA
* *
15410032 ATGGCACTTAGTGTACGAAACATCCAGA
1 ATGGCACTTAGTGTGCGATACATCCAGA
* * *
15410060 ACGGCACTTAGTGTACGAAACATCCAGA
1 ATGGCACTTAGTGTGCGATACATCCAGA
*
15410088 ACGGCACTTAGTGTGC
1 ATGGCACTTAGTGTGC
15410104 AAGGTATCGG
Statistics
Matches: 112, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.01
27 3 0.03
28 103 0.92
29 3 0.03
30 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGATACATCCAGA
Found at i:15410066 original size:84 final size:84
Alignment explanation
Indices: 15409946--15410102 Score: 242
Period size: 84 Copynumber: 1.9 Consensus size: 84
15409936 AAAATAATGG
* * * * * * *
15409946 GGATGGCACTTAGTATGCGATACATCTAGAATGGCACTTAGTGTGCGATACATCCAGAATGGCAC
1 GGATGGCACTTAGTATACGAAACATCCAGAACGGCACTTAGTGTACGAAACATCCAGAACGGCAC
15410011 TTAGTGTGTGGAGTAACGA
66 TTAGTGTGTGGAGTAACGA
*
15410030 GGATGGCACTTAGTGTACGAAACATCCAGAACGGCACTTAGTGTACGAAACATCCAGAACGGCAC
1 GGATGGCACTTAGTATACGAAACATCCAGAACGGCACTTAGTGTACGAAACATCCAGAACGGCAC
15410095 TTAGTGTG
66 TTAGTGTG
15410103 CAAGGTATCG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
84 65 1.00
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (84 bp):
GGATGGCACTTAGTATACGAAACATCCAGAACGGCACTTAGTGTACGAAACATCCAGAACGGCAC
TTAGTGTGTGGAGTAACGA
Found at i:15410120 original size:84 final size:84
Alignment explanation
Indices: 15409946--15410138 Score: 230
Period size: 84 Copynumber: 2.3 Consensus size: 84
15409936 AAAATAATGG
* * * * * *
15409946 GGATGGCACTTAGTATGCGATACATCTAGAATGGCACTTAGTGTGCGATACATCCAGAATGGCAC
1 GGATGGCACTTAGTGTGCGATACATCCAGAACGGCACTTAGTGTACGAAACATCCAGAACGGCAC
**
15410011 TTAGTGTGTGGAGTAACGA
66 TTAGTGTGAAGAGTAACGA
* *
15410030 GGATGGCACTTAGTGTACGAAACATCCAGAACGGCACTTAGTGTACGAAACATCCAGAACGGCAC
1 GGATGGCACTTAGTGTGCGATACATCCAGAACGGCACTTAGTGTACGAAACATCCAGAACGGCAC
*
15410095 TTAGTGTGCAAG-GTATCG-
66 TTAGTGTG-AAGAGTAACGA
*
15410113 GCTATGGCA-TCTAGTGTGCGATACAT
1 G-GATGGCACT-TAGTGTGCGATACAT
15410139 TGAATATTCA
Statistics
Matches: 92, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
83 2 0.02
84 89 0.97
85 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.24
Consensus pattern (84 bp):
GGATGGCACTTAGTGTGCGATACATCCAGAACGGCACTTAGTGTACGAAACATCCAGAACGGCAC
TTAGTGTGAAGAGTAACGA
Found at i:15417389 original size:47 final size:48
Alignment explanation
Indices: 15417335--15417443 Score: 123
Period size: 49 Copynumber: 2.3 Consensus size: 48
15417325 TTCCAAACAT
* *
15417335 GGTCTTACACTGGC-TCACACATCTAAGTCGATGCCATGTC-CTAGACA
1 GGTCTTACACTGGCTTCACACATCGAAGCCGATGCCATGTCAC-AGACA
* * * * *
15417382 GGTCTTACACTGACTTTCATATATCGAGGCCGATGCCATGTCACAGATA
1 GGTCTTACACTGGC-TTCACACATCGAAGCCGATGCCATGTCACAGACA
15417431 GGTCTTACACTGG
1 GGTCTTACACTGG
15417444 TTCTCATCTA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
47 13 0.25
49 37 0.73
50 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.28
Consensus pattern (48 bp):
GGTCTTACACTGGCTTCACACATCGAAGCCGATGCCATGTCACAGACA
Found at i:15417423 original size:49 final size:49
Alignment explanation
Indices: 15417363--15417547 Score: 153
Period size: 49 Copynumber: 3.6 Consensus size: 49
15417353 ACATCTAAGT
15417363 CGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * *
15417412 CGATGCCATGTCAC-AGATAGGTCTTACACTG-GTTCTCATCTATCGGTGTCGATGCAGC
1 CGATGCCATGTC-CTAGACAGGTCTTACACTGACTT-TCA--TA----TATCGA-G--GC
* * * *
15417470 CGATGCCATGTCCCAGACATGTCTTACACT-AGCTTGCATATCTCGAGGC
1 CGATGCCATGTCCTAGACAGGTCTTACACTGA-CTTTCATATATCGAGGC
* *
15417519 CGATG-CATGTCCTAGACATGTCTTGCACT
1 CGATGCCATGTCCTAGACAGGTCTTACACT
15417548 AGCTCTCGTC
Statistics
Matches: 112, Mismatches: 10, Indels: 29
0.74 0.07 0.19
Matches are distributed among these distances:
48 24 0.21
49 38 0.34
50 1 0.01
51 3 0.03
52 5 0.04
55 5 0.04
56 3 0.03
57 1 0.01
58 30 0.27
59 2 0.02
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCTAGACAGGTCTTACACTGACTTTCATATATCGAGGC
Found at i:15417627 original size:89 final size:90
Alignment explanation
Indices: 15417475--15417639 Score: 228
Period size: 89 Copynumber: 1.8 Consensus size: 90
15417465 GCAGCCGATG
* * *
15417475 CCATGTCCCAGACATGTCTTACACTAGCTTGCATATCTCGAGGCCGATGCATGTCCTAGACATGT
1 CCATGTCCCAGACATGTCTTACACTAGCTTGCATATATCGAGGCCGATGCATGTCCCAAACATGT
*
15417540 CTTGCACTAGCTCTCGTCTTAATGC
66 CTTACACTAGCTCTCGTCTTAATGC
* * *
15417565 CCATGTCCCAGACATGGTCTTACACTTGCTCT-CATA-AT-GTGGCCGATGTATGTCCCAAACAT
1 CCATGTCCCAGACAT-GTCTTACACTAGCT-TGCATATATCGAGGCCGATGCATGTCCCAAACAT
15417627 GTCTTACACTAGC
64 GTCTTACACTAGC
15417640 ACACATCCAT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
89 32 0.48
90 16 0.24
91 17 0.26
92 1 0.02
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.30
Consensus pattern (90 bp):
CCATGTCCCAGACATGTCTTACACTAGCTTGCATATATCGAGGCCGATGCATGTCCCAAACATGT
CTTACACTAGCTCTCGTCTTAATGC
Found at i:15419792 original size:6 final size:6
Alignment explanation
Indices: 15419770--15419810 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
15419760 TTCCAAATGG
*
15419770 TTTCAT TTCTCCAT TTTCAT TTTCAT TTCCAT TTTCAT TTT
1 TTTCAT TT-T-CAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
15419811 GGAAAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 24 0.77
7 2 0.06
8 5 0.16
ACGTcount: A:0.15, C:0.22, G:0.00, T:0.63
Consensus pattern (6 bp):
TTTCAT
Found at i:15424841 original size:28 final size:28
Alignment explanation
Indices: 15424801--15424857 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
15424791 TTCGACATAG
15424801 TGAATTTTCTTCTCCTCTACCCGTGGTT
1 TGAATTTTCTTCTCCTCTACCCGTGGTT
*
15424829 TGAATTTTCTTCTCCTCTGCCCGTGGTT
1 TGAATTTTCTTCTCCTCTACCCGTGGTT
15424857 T
1 T
15424858 TTTCCCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.09, C:0.28, G:0.16, T:0.47
Consensus pattern (28 bp):
TGAATTTTCTTCTCCTCTACCCGTGGTT
Found at i:15424917 original size:12 final size:12
Alignment explanation
Indices: 15424900--15424927 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
15424890 GTGTTCTTTA
15424900 TTTTATTTTATT
1 TTTTATTTTATT
15424912 TTTTATTTTATT
1 TTTTATTTTATT
15424924 TTTT
1 TTTT
15424928 TCACACATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:15428196 original size:13 final size:13
Alignment explanation
Indices: 15428178--15428202 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15428168 AGCAAATGAT
15428178 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
15428191 AAAAAGAAAAAA
1 AAAAAGAAAAAA
15428203 AAAGAGTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:15434948 original size:49 final size:48
Alignment explanation
Indices: 15434795--15434948 Score: 150
Period size: 49 Copynumber: 3.1 Consensus size: 48
15434785 TAGTTTATTT
* * *
15434795 TGGTTATACGATCATGGGTTCAAGTATAACTAAGGCTTCCAA-TTTACGG
1 TGGTTATACGGTC-TGGGTTTAAGTATAACTAAGGC-TCCAAGTTGACGG
* * ** ** *
15434844 TGGTTGTACAGTACCAGGTTTAAGTATAACTAAGGCTCTTAGTTGACGA
1 TGGTTATACGGT-CTGGGTTTAAGTATAACTAAGGCTCCAAGTTGACGG
*
15434893 TAGTTATACGGTCGTGGGTTTAAGTATAACTCAAGG-TCCAAGTTGACGG
1 TGGTTATACGGTC-TGGGTTTAAGTATAACT-AAGGCTCCAAGTTGACGG
15434942 TGGTTAT
1 TGGTTAT
15434949 GCAGTCACAA
Statistics
Matches: 82, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
48 4 0.05
49 73 0.89
50 5 0.06
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.33
Consensus pattern (48 bp):
TGGTTATACGGTCTGGGTTTAAGTATAACTAAGGCTCCAAGTTGACGG
Found at i:15436407 original size:352 final size:352
Alignment explanation
Indices: 15435763--15436820 Score: 2062
Period size: 352 Copynumber: 3.0 Consensus size: 352
15435753 AAATGTTAAA
15435763 AACCTTCATTTGAAACCATTTCATGCCCAACAAAAAGTTTTATTCTCAAAGCACTTTAAGGCACA
1 AACCTTCATTTGAAACCATTTCATGCCCAACAAAAAGTTTTATTCTCAAAGCACTTTAAGGCACA
*
15435828 TTTGAGACTTGCATAAAAATTCCTTTTAAACATATAACAAACATGATTAAACATAACATTAAGTC
66 TTTGAGACTTGCATAAAAATCCCTTTTAAACATATAACAAACATGATTAAACATAACATTAAGTC
15435893 AATCACAATCAATTCAACCAACATGCCCCATTTGACACTAAACCACTCCAATTGAACTTATACAC
131 AATCACAATCAATTCAACCAACATGCCCCATTTGACACTAAACCACTCCAATTGAACTTATACAC
15435958 TTTCAAGTTAATGAACCAACATTTATTCATGTTTTTAAACCATTCAAAATCAACATTTAAGCATA
196 TTTCAAGTTAATGAACCAACATTTATTCATGTTTTTAAACCATTCAAAATCAACATTTAAGCATA
*
15436023 CCATTTTTGTGTTCAATTCATACCATTTGCACATTCAATGAACCATTCAATCACTATACAAATGA
261 CCATTTTTGTTTTCAATTCATACCATTTGCACATTCAATGAACCATTCAATCACTATACAAATGA
15436088 TCCCAAAACATGACCAAAACATACCTT
326 TCCCAAAACATGACCAAAACATACCTT
15436115 AACCTTCATTTGAAACCATTTCATGCCCAACAAAAAGTTTTATTCTCAAAGCACTTTAAGGCACA
1 AACCTTCATTTGAAACCATTTCATGCCCAACAAAAAGTTTTATTCTCAAAGCACTTTAAGGCACA
**
15436180 AATGAGACTTGCATAAAAATCCCTTTTAAACATATAACAAACATGATTAAACATAACATTAAGTC
66 TTTGAGACTTGCATAAAAATCCCTTTTAAACATATAACAAACATGATTAAACATAACATTAAGTC
15436245 AATCACAATCAATTCAACCAACATGCCCCATTTGACACTAAACCACTCCAATTGAACTTATACAC
131 AATCACAATCAATTCAACCAACATGCCCCATTTGACACTAAACCACTCCAATTGAACTTATACAC
*
15436310 TTTCAAGTTAATGAACCAACATTTATTCATGTTTTGAAACCATTCAAAATCAACATTTAAGCATA
196 TTTCAAGTTAATGAACCAACATTTATTCATGTTTTTAAACCATTCAAAATCAACATTTAAGCATA
15436375 CCATTTTTGTTTTCAATTCATACCATTTGCACATTCAATGAACCATTCAATCACTATACAAATGA
261 CCATTTTTGTTTTCAATTCATACCATTTGCACATTCAATGAACCATTCAATCACTATACAAATGA
15436440 TCCCAAAACATGACCAAAACATACCTT
326 TCCCAAAACATGACCAAAACATACCTT
15436467 AACCTTCATTTGAAACCATTTCATGCCCAACAAAAAGTTTTATTCTCAAAGCACTTTAAGGCACA
1 AACCTTCATTTGAAACCATTTCATGCCCAACAAAAAGTTTTATTCTCAAAGCACTTTAAGGCACA
*
15436532 TTTGAGACTTGCATAAAAATCCCTTTTAAACATATAACAAACATGATTAAATATAACATTAAGTC
66 TTTGAGACTTGCATAAAAATCCCTTTTAAACATATAACAAACATGATTAAACATAACATTAAGTC
15436597 AATCACAATCAATTCAACCAACATGCCCCATTTGACACTAAACCACTCCAATTGAACTTATACAC
131 AATCACAATCAATTCAACCAACATGCCCCATTTGACACTAAACCACTCCAATTGAACTTATACAC
15436662 TTTCAAGTTAATGAACCAACATTTATTCATGTTTTTAAACCATTCAAAATCAACATTTAAGCATA
196 TTTCAAGTTAATGAACCAACATTTATTCATGTTTTTAAACCATTCAAAATCAACATTTAAGCATA
15436727 CCATTTTTGTTTTCAATTCATACCATTTGCACATTCAATGAACCATTCAATCACTATACAAATGA
261 CCATTTTTGTTTTCAATTCATACCATTTGCACATTCAATGAACCATTCAATCACTATACAAATGA
15436792 TCCCAAAACATGACCAAAACATACCTT
326 TCCCAAAACATGACCAAAACATACCTT
15436819 AA
1 AA
15436821 TACAAGTGCA
Statistics
Matches: 697, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
352 697 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (352 bp):
AACCTTCATTTGAAACCATTTCATGCCCAACAAAAAGTTTTATTCTCAAAGCACTTTAAGGCACA
TTTGAGACTTGCATAAAAATCCCTTTTAAACATATAACAAACATGATTAAACATAACATTAAGTC
AATCACAATCAATTCAACCAACATGCCCCATTTGACACTAAACCACTCCAATTGAACTTATACAC
TTTCAAGTTAATGAACCAACATTTATTCATGTTTTTAAACCATTCAAAATCAACATTTAAGCATA
CCATTTTTGTTTTCAATTCATACCATTTGCACATTCAATGAACCATTCAATCACTATACAAATGA
TCCCAAAACATGACCAAAACATACCTT
Found at i:15439016 original size:20 final size:20
Alignment explanation
Indices: 15438973--15439018 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
15438963 TGGGATTACA
15438973 TTTCTTTGGAACTCACTAAG
1 TTTCTTTGGAACTCACTAAG
* * *
15438993 -TTCTTTTGAACTTACTTAG
1 TTTCTTTGGAACTCACTAAG
15439012 TTTCTTT
1 TTTCTTT
15439019 CTTCTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (20 bp):
TTTCTTTGGAACTCACTAAG
Found at i:15439687 original size:28 final size:28
Alignment explanation
Indices: 15439610--15439692 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
15439600 CACAAGATTG
* *
15439610 ATTTGCTCATACAAGCTGTAATATTCT-A
1 ATTTGCTCACACAAGCTGTGATATT-TGA
* *
15439638 ATTTGCTCACACGAGCTATGATATTTGA
1 ATTTGCTCACACAAGCTGTGATATTTGA
* *
15439666 ATTTGCTCACAAAAGTTGTGATATTTG
1 ATTTGCTCACACAAGCTGTGATATTTG
15439693 GGTTGCTTAC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.98
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.39
Consensus pattern (28 bp):
ATTTGCTCACACAAGCTGTGATATTTGA
Found at i:15440288 original size:34 final size:34
Alignment explanation
Indices: 15440250--15440354 Score: 192
Period size: 34 Copynumber: 3.1 Consensus size: 34
15440240 AATTGATTTA
15440250 AATCCCGATTTATAATAATTCATTTCAATTCATC
1 AATCCCGATTTATAATAATTCATTTCAATTCATC
**
15440284 AATCCAAATTTATAATAATTCATTTCAATTCATC
1 AATCCCGATTTATAATAATTCATTTCAATTCATC
15440318 AATCCCGATTTATAATAATTCATTTCAATTCATC
1 AATCCCGATTTATAATAATTCATTTCAATTCATC
15440352 AAT
1 AAT
15440355 TCTAAACATC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 67 1.00
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (34 bp):
AATCCCGATTTATAATAATTCATTTCAATTCATC
Found at i:15440431 original size:6 final size:6
Alignment explanation
Indices: 15440391--15440427 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
15440381 TAAACATATA
*
15440391 TCAA-T TCAA-T TCAATT TCAATT TCAATT TCATTT TCA
1 TCAATT TCAATT TCAATT TCAATT TCAATT TCAATT TCA
15440428 TTTTTAGATG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 9 0.30
6 21 0.70
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (6 bp):
TCAATT
Found at i:15442326 original size:33 final size:33
Alignment explanation
Indices: 15442281--15442344 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
15442271 GAATATAATT
* *
15442281 TGAGGGCTTAATTGACT-TTTTTAAATTATTTTA
1 TGAGGGCTTAATTAAATATTTTT-AATTATTTTA
15442314 TGAGGGAC-TAATTAAATATTTTTAATTATTT
1 TGAGGG-CTTAATTAAATATTTTTAATTATTT
15442345 AAGCTTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 21 0.78
34 6 0.22
ACGTcount: A:0.31, C:0.05, G:0.14, T:0.50
Consensus pattern (33 bp):
TGAGGGCTTAATTAAATATTTTTAATTATTTTA
Found at i:15442411 original size:19 final size:18
Alignment explanation
Indices: 15442373--15442446 Score: 71
Period size: 18 Copynumber: 4.2 Consensus size: 18
15442363 ATACTATAAT
**
15442373 AAATTTATGGAAAATATA
1 AAATTTATTAAAAATATA
15442391 AAATTTATTAAAAAGTATA
1 AAATTTATTAAAAA-TATA
* * *
15442410 AAATATAATAAAAATAGA
1 AAATTTATTAAAAATATA
*
15442428 AAA-TTA-TATAAATATA
1 AAATTTATTAAAAATATA
15442444 AAA
1 AAA
15442447 AGGTATTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
16 11 0.23
17 2 0.04
18 18 0.38
19 16 0.34
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (18 bp):
AAATTTATTAAAAATATA
Found at i:15442849 original size:30 final size:31
Alignment explanation
Indices: 15442815--15442884 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
15442805 TTTTCGACCT
15442815 TTTATAATAAGTTCATA-TCTTTCACAATAC
1 TTTATAATAAGTTCATAGTCTTTCACAATAC
** * *
15442845 TTTATAATATTTTTATAGTTTTTCACAATAC
1 TTTATAATAAGTTCATAGTCTTTCACAATAC
15442876 TTTATAATA
1 TTTATAATA
15442885 TTTTTATGGT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 14 0.40
31 21 0.60
ACGTcount: A:0.36, C:0.11, G:0.03, T:0.50
Consensus pattern (31 bp):
TTTATAATAAGTTCATAGTCTTTCACAATAC
Found at i:15442872 original size:31 final size:31
Alignment explanation
Indices: 15442834--15442899 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
15442824 AGTTCATATC
15442834 TTTCACAATACTTTATAATATTTTTATAGTT
1 TTTCACAATACTTTATAATATTTTTATAGTT
*
15442865 TTTCACAATACTTTATAATATTTTTATGGTT
1 TTTCACAATACTTTATAATATTTTTATAGTT
15442896 TTTC
1 TTTC
15442900 TTTATTTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.56
Consensus pattern (31 bp):
TTTCACAATACTTTATAATATTTTTATAGTT
Found at i:15442925 original size:19 final size:18
Alignment explanation
Indices: 15442911--15442982 Score: 65
Period size: 19 Copynumber: 3.9 Consensus size: 18
15442901 TTATTTCTAA
15442911 AATTTTCTAAAA-TTTAT
1 AATTTTCTAAAATTTTAT
* *
15442928 AATTTTCTATTATTTTTAT
1 AATTTTCTA-AAATTTTAT
*
15442947 AATTTTCTAAATTTATTAT
1 AATTTTCTAAAATT-TTAT
* *
15442966 AATATTATAATAATTTT
1 AATTTTCTAA-AATTTT
15442983 TAAATTTAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
17 9 0.20
18 5 0.11
19 28 0.62
20 3 0.07
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTTTCTAAAATTTTAT
Found at i:15442927 original size:36 final size:35
Alignment explanation
Indices: 15442895--15442962 Score: 102
Period size: 36 Copynumber: 1.9 Consensus size: 35
15442885 TTTTTATGGT
15442895 TTTTCT-TTATTTCTAAAATTTTCTAAAATTTATAA
1 TTTTCTATTATTTCTAAAATTTTCT-AAATTTATAA
* *
15442930 TTTTCTATTATTTTTATAATTTTCTAAATTTAT
1 TTTTCTATTATTTCTAAAATTTTCTAAATTTAT
15442963 TATAATATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 14 0.47
36 16 0.53
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (35 bp):
TTTTCTATTATTTCTAAAATTTTCTAAATTTATAA
Found at i:15442942 original size:10 final size:10
Alignment explanation
Indices: 15442904--15442982 Score: 53
Period size: 10 Copynumber: 8.3 Consensus size: 10
15442894 TTTTTCTTTA
*
15442904 TTTCTAAAAT
1 TTTCTATAAT
15442914 TTTCTA-AA-
1 TTTCTATAAT
*
15442922 ATT-TATAAT
1 TTTCTATAAT
*
15442931 TTTCTATTAT
1 TTTCTATAAT
15442941 TTT-TATAAT
1 TTTCTATAAT
15442950 TTTCTA-AAT
1 TTTCTATAAT
15442959 TTAT-TATAAT
1 TT-TCTATAAT
* *
15442969 ATTATAATAAT
1 TTTCT-ATAAT
15442980 TTT
1 TTT
15442983 TAAATTTAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
7 2 0.04
8 4 0.07
9 20 0.36
10 22 0.40
11 7 0.13
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTCTATAAT
Found at i:15442988 original size:8 final size:9
Alignment explanation
Indices: 15442923--15442989 Score: 57
Period size: 9 Copynumber: 7.1 Consensus size: 9
15442913 TTTTCTAAAA
15442923 TTTATAATT
1 TTTATAATT
*
15442932 TTCTATTATT
1 TT-TATAATT
15442942 TTTATAATT
1 TTTATAATT
15442951 TTCTA-AATT
1 TT-TATAATT
15442960 TATTATAATAT
1 T-TTATAAT-T
*
15442971 TATAATAATT
1 T-TTATAATT
15442981 TTTA-AATT
1 TTTATAATT
15442989 T
1 T
15442990 AAATAATTAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
8 5 0.10
9 19 0.39
10 16 0.33
11 9 0.18
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (9 bp):
TTTATAATT
Found at i:15442989 original size:38 final size:35
Alignment explanation
Indices: 15442910--15442989 Score: 88
Period size: 38 Copynumber: 2.2 Consensus size: 35
15442900 TTTATTTCTA
* * *
15442910 AAATTTTCTAAAATTTATAATTTTCTATTATTTTT
1 AAATTTTCTAAAATTTATAATATTATATAATTTTT
*
15442945 ATAATTTTCTAAATTTATTATAATATTATAATAATTTTT
1 A-AATTTTCTAAA-AT-TTATAATATTAT-ATAATTTTT
15442984 AAATTT
1 AAATTT
15442990 AAATAATTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 1 0.03
36 11 0.30
37 1 0.03
38 15 0.41
39 9 0.24
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (35 bp):
AAATTTTCTAAAATTTATAATATTATATAATTTTT
Found at i:15444155 original size:21 final size:23
Alignment explanation
Indices: 15444118--15444161 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
15444108 TGTTTTGATT
15444118 AATTCTATATTATTGTTA-ATTG
1 AATTCTATATTATTGTTATATTG
15444140 AATT-TATATT-TGTGTTATATTG
1 AATTCTATATTAT-TGTTATATTG
15444162 TTTCTGTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 1 0.05
21 11 0.55
22 8 0.40
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (23 bp):
AATTCTATATTATTGTTATATTG
Found at i:15444715 original size:18 final size:18
Alignment explanation
Indices: 15444674--15444715 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
15444664 ATAATATTTA
15444674 TTTATTTATTTTATAAAT
1 TTTATTTATTTTATAAAT
**
15444692 AATATTTATTTT-TAATAT
1 TTTATTTATTTTATAA-AT
15444710 TTTATT
1 TTTATT
15444716 ATACTCTGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTATTTATTTTATAAAT
Found at i:15448929 original size:5 final size:5
Alignment explanation
Indices: 15448919--15448950 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
15448909 CCTTAAAGAA
15448919 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA
15448951 TAAAATAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:15452957 original size:46 final size:48
Alignment explanation
Indices: 15452842--15452963 Score: 149
Period size: 50 Copynumber: 2.5 Consensus size: 48
15452832 TGTCTTCGAC
** * *
15452842 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATACATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATAC--ATAAT
* *
15452892 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-AC-TGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATACATAAT
*
15452938 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
15452964 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 27 0.42
49 2 0.03
50 35 0.55
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATACATAAT
Found at i:15458089 original size:27 final size:27
Alignment explanation
Indices: 15458072--15458249 Score: 133
Period size: 27 Copynumber: 6.6 Consensus size: 27
15458062 ATATTAAGTC
15458072 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
15458099 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
15458127 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *** ** *
15458154 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
15458181 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
15458208 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
15458235 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
15458250 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 104 0.79
28 27 0.21
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:15458211 original size:54 final size:54
Alignment explanation
Indices: 15458072--15458248 Score: 214
Period size: 54 Copynumber: 3.3 Consensus size: 54
15458062 ATATTAAGTC
* * *
15458072 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAA-T
* ** * *
15458127 CGCACACTTAGTGC-TACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
15458181 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
15458235 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15458249 TGTACAATTT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 44 0.42
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:15458238 original size:81 final size:82
Alignment explanation
Indices: 15458093--15458248 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
15458083 TGCTATATAA
* *
15458093 TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
15458158 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
15458175 TCAATTCGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
15458238 ACACTTAGTGC
65 ACACTTAGTGC
15458249 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 42 0.63
82 25 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:15480875 original size:77 final size:71
Alignment explanation
Indices: 15480785--15480973 Score: 200
Period size: 72 Copynumber: 2.5 Consensus size: 71
15480775 GTATATAAAA
* * *
15480785 GGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCTTT
1 GGGTTGCTATGTGCTGATTCCCCG----A-GGG-GGTGCTAAGTGCGAT-ATCCACCATATATTT
**
15480849 GAAATGTGAAAGG
59 GAAATGAAAAAGG
* ***
15480862 GGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTGCGATATCCATTGTATATTTGAAATG
1 GGGTTGCTATGTGCTGATT-CCCCGAGGGGGTGCTAAGTGCGATATCCACCATATATTTGAAATG
15480927 AAAAAGG
65 AAAAAGG
*
15480934 GGGTTGCTATGTGCTGATTCCCCCGAGGGGTTGCTAAGTG
1 GGGTTGCTATGTGCTGATT-CCCCGAGGGGGTGCTAAGTG
15480974 ATGATTCCCC
Statistics
Matches: 101, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
72 73 0.72
73 4 0.04
74 1 0.01
77 18 0.18
78 5 0.05
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.32
Consensus pattern (71 bp):
GGGTTGCTATGTGCTGATTCCCCGAGGGGGTGCTAAGTGCGATATCCACCATATATTTGAAATGA
AAAAGG
Found at i:15494323 original size:22 final size:19
Alignment explanation
Indices: 15494290--15494336 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
15494280 AAAGATGATA
15494290 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
15494313 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
15494332 ATTAT
1 ATTAT
15494337 CAACTGTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:15494332 original size:16 final size:15
Alignment explanation
Indices: 15494292--15494333 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
15494282 AGATGATAAT
15494292 TATTAATATATAATTA
1 TATTAAT-TATAATTA
15494308 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
15494324 TATTAATTAT
1 TATTAATTAT
15494334 TATCAACTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:15497118 original size:5 final size:5
Alignment explanation
Indices: 15497108--15497136 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
15497098 TGCTCGATTT
15497108 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
15497137 AAGAGCATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:15497287 original size:36 final size:36
Alignment explanation
Indices: 15497240--15497314 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
15497230 CAAGCAAAGT
*
15497240 CTAGGGTTTTTAGCCTAAAAATTATTTATCTTCTAC
1 CTAGGGTTTTTAGCCTAAAAATTATCTATCTTCTAC
15497276 CTAGGGTTTTTAGCCTAAAAATTATCTATCTTCTAC
1 CTAGGGTTTTTAGCCTAAAAATTATCTATCTTCTAC
15497312 CTA
1 CTA
15497315 CCCCTAAACC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.43
Consensus pattern (36 bp):
CTAGGGTTTTTAGCCTAAAAATTATCTATCTTCTAC
Found at i:15498963 original size:39 final size:39
Alignment explanation
Indices: 15498909--15498990 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
15498899 GACACAGTAC
15498909 TTAATCAATGCATGTTTATTCTTCTAAGGTAGATGAAGT
1 TTAATCAATGCATGTTTATTCTTCTAAGGTAGATGAAGT
*
15498948 TTAATCAATGCATGTTTATTCTTCTAAGGTAGCTGAAGT
1 TTAATCAATGCATGTTTATTCTTCTAAGGTAGATGAAGT
15498987 TTAA
1 TTAA
15498991 ATTAGCATTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.41
Consensus pattern (39 bp):
TTAATCAATGCATGTTTATTCTTCTAAGGTAGATGAAGT
Found at i:15500665 original size:55 final size:53
Alignment explanation
Indices: 15500475--15500729 Score: 247
Period size: 55 Copynumber: 4.8 Consensus size: 53
15500465 ACACGGGTAC
* * * *
15500475 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
* *
15500524 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
* * * *
15500577 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-G-AA
* *
15500632 CTTATCAATGCCATGTATTGACATGGTCTTACATGGTATCCTTGCCTTA-GAGA
1 CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGA-A
* * *
15500685 CCTTACCAATTTCTATGCCTTCG-CATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGTCTT-GACATGGTCTTACATGGTATCCTT
15500730 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 3 0.02
53 47 0.27
54 10 0.06
55 71 0.41
56 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (53 bp):
CTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
Found at i:15500666 original size:108 final size:110
Alignment explanation
Indices: 15500522--15500722 Score: 300
Period size: 108 Copynumber: 1.8 Consensus size: 110
15500512 ATCCTTTTGA
* *
15500522 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGA-A-CTCACCAA
1 AACTTACCAATGCCATGTATCGACATGGTCTTACATGGTATCCTTGCCTTA-GAGACCTCACCAA
*
15500585 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTCGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
15500630 AACTTATCAATGCCATGTATTGACATGGTCTTACATGGTATCCTTGCCTTAGAGACCTTACCAAT
1 AACTTACCAATGCCATGTATCGACATGGTCTTACATGGTATCCTTGCCTTAGAGACCTCACCAAT
* *
15500695 TTCTATGCCTTCGCATGGTCTTACATGG
66 TGCCATGCCTTCGCATGGTCTTACATGG
15500723 TATCCTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 2 0.02
108 48 0.59
109 7 0.09
110 25 0.30
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTATCGACATGGTCTTACATGGTATCCTTGCCTTAGAGACCTCACCAAT
TGCCATGCCTTCGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:15503363 original size:8 final size:9
Alignment explanation
Indices: 15503343--15503367 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
15503333 TGGTGTTGGC
15503343 TTTTGATGT
1 TTTTGATGT
15503352 TTTTGATGT
1 TTTTGATGT
15503361 TTTTGAT
1 TTTTGAT
15503368 ATCCTTGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.20, T:0.68
Consensus pattern (9 bp):
TTTTGATGT
Found at i:15503788 original size:38 final size:38
Alignment explanation
Indices: 15503745--15503820 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
15503735 AATTATGGAA
15503745 TATATTGGTTAATGTGATGATTTAAAGTAGTGAATTTT
1 TATATTGGTTAATGTGATGATTTAAAGTAGTGAATTTT
15503783 TATATTGGTTAATGTGATGATTTAAAGTAGTGAATTTT
1 TATATTGGTTAATGTGATGATTTAAAGTAGTGAATTTT
15503821 ATCATTTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (38 bp):
TATATTGGTTAATGTGATGATTTAAAGTAGTGAATTTT
Found at i:15518139 original size:79 final size:81
Alignment explanation
Indices: 15517997--15518179 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
15517987 TACTCGTTCA
* * *
15517997 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
* *
15518061 TTTAGTAAC-TCGCACC
66 TATAGTAACTTAGCA-C
* **
15518077 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-AGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAACCCGG
* *
15518139 ATATGGTCACTTAGCAC
65 ATATAGTAACTTAGCAC
*
15518156 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
15518180 CATCATTCGA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 2 0.02
79 58 0.66
80 28 0.32
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGAGACTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:15518179 original size:40 final size:40
Alignment explanation
Indices: 15517976--15518179 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
15517966 CGGAATTTAA
** *
15517976 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
15518016 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
15518056 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
15518095 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-AGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
15518135 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
15518175 CCGGA
1 CCGGA
15518180 CATCATTCGA
Statistics
Matches: 137, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 32 0.23
40 93 0.68
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:15542323 original size:18 final size:18
Alignment explanation
Indices: 15542300--15542335 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
15542290 CTAGTACTTG
15542300 ATAT-AACTATCACAAAAC
1 ATATAAACTATCA-AAAAC
15542318 ATATAAACTATCAAAAAC
1 ATATAAACTATCAAAAAC
15542336 TGAGCTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.58, C:0.19, G:0.00, T:0.22
Consensus pattern (18 bp):
ATATAAACTATCAAAAAC
Done.