Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 218 of 335
Found at i:65312227 original size:45 final size:45
Alignment explanation
Indices: 65312188--65312331 Score: 261
Period size: 45 Copynumber: 3.2 Consensus size: 45
65312178 AGGCTTGAAA
65312188 GCCCGAATAGTATTTCACCGGCATTGTAGCCTGCTAGGCTCAAAG
1 GCCCGAATAGTATTTCACCGGCATTGTAGCCTGCTAGGCTCAAAG
* *
65312233 GCCCAAATAGTATTTCATCGGCATTGTAGCCTGCTAGGCTCAAAG
1 GCCCGAATAGTATTTCACCGGCATTGTAGCCTGCTAGGCTCAAAG
*
65312278 GCCCGAATAGTATTTCACCAGCATTGTAGCCTGCTAGGCTCAAAG
1 GCCCGAATAGTATTTCACCGGCATTGTAGCCTGCTAGGCTCAAAG
65312323 GCCCGAATA
1 GCCCGAATA
65312332 TTACTATACA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 94 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (45 bp):
GCCCGAATAGTATTTCACCGGCATTGTAGCCTGCTAGGCTCAAAG
Found at i:65318611 original size:26 final size:27
Alignment explanation
Indices: 65318582--65318633 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
65318572 CATTCTATCA
*
65318582 TACAA-GGAATTACGGTTATTTTACAC
1 TACAAGGGAATTACGGTGATTTTACAC
* *
65318608 TACAAGGGTATTTCGGTGATTTTACA
1 TACAAGGGAATTACGGTGATTTTACA
65318634 AACCAGGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (27 bp):
TACAAGGGAATTACGGTGATTTTACAC
Found at i:65323103 original size:20 final size:20
Alignment explanation
Indices: 65323059--65323105 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
65323049 GTAAGCTCGG
*
65323059 TTGAGCTCAAACGAGCTAAA
1 TTGAGCTCAAACGAACTAAA
* * *
65323079 ATGAGCTCAAATGAACTGAA
1 TTGAGCTCAAACGAACTAAA
65323099 TTGAGCT
1 TTGAGCT
65323106 GGATGGAGCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (20 bp):
TTGAGCTCAAACGAACTAAA
Found at i:65324261 original size:46 final size:46
Alignment explanation
Indices: 65324211--65324386 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
65324201 TGGTTGAGCA
65324211 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
65324257 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAATG
* * *
65324305 T-CGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
65324350 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65324387 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 2 0.02
45 3 0.03
46 65 0.60
47 29 0.27
48 3 0.03
49 4 0.04
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65324372 original size:93 final size:93
Alignment explanation
Indices: 65324208--65324378 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
65324198 GGATGGTTGA
* * *
65324208 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
65324273 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
65324301 GCATTCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
65324366 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
65324379 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:65324644 original size:19 final size:20
Alignment explanation
Indices: 65324607--65324644 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65324597 ATAAGGTGGT
65324607 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
65324627 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
65324645 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:65331363 original size:71 final size:71
Alignment explanation
Indices: 65331277--65331440 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
65331267 CGATTTGTCT
65331277 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65331342 CTTTCA
66 CTTTCA
65331348 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
65331413 CTTTCA
66 CTTTCA
65331419 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
65331441 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:65331478 original size:71 final size:70
Alignment explanation
Indices: 65331277--65331474 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
65331267 CGATTTGTCT
* * * *
65331277 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65331342 CTTTCA
65 CTTTCA
* * * *
65331348 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
65331413 CTTTCA
65 CTTTCA
* *
65331419 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
65331475 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:65334153 original size:46 final size:46
Alignment explanation
Indices: 65334093--65334268 Score: 182
Period size: 46 Copynumber: 3.8 Consensus size: 46
65334083 TGGTTGAGCA
*
65334093 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
65334139 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
65334184 CATCCGAACTCGTTGACTTGAGTCCGAGTTCACTTAAGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
65334232 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65334269 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 59 0.56
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65334249 original size:93 final size:93
Alignment explanation
Indices: 65334090--65334260 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
65334080 GGATGGTTGA
* * *
65334090 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGACTTGAGTCCGAGTTCACTTAAGGATGCGAACGTCCGAACTCGTTGAGT
65334155 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
65334183 GCATCCGAACTCGTTGACTTGAGTCCGAGTTCACTTAAGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCATTGACTTGAGTCCGAGTTCACTTAAGGATGCGAACGTCC-GAACTCGTTGAG
65334247 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
65334261 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCATTGACTTGAGTCCGAGTTCACTTAAGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:65334526 original size:19 final size:20
Alignment explanation
Indices: 65334489--65334526 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65334479 ATAAGGTGGT
65334489 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
65334509 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
65334527 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:65336270 original size:27 final size:27
Alignment explanation
Indices: 65336222--65336273 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
65336212 CAGTAACAGT
* *
65336222 TGGGCCTAGCCCATTAATAGAATCAGG
1 TGGGCCTAGCCCAATAACAGAATCAGG
65336249 TGGGCCTAAGCCCAAT-ACAGAATCA
1 TGGGCCT-AGCCCAATAACAGAATCA
65336274 ATATCAGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (27 bp):
TGGGCCTAGCCCAATAACAGAATCAGG
Found at i:65336999 original size:17 final size:17
Alignment explanation
Indices: 65336973--65337014 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
65336963 TATTCATGTG
65336973 GGGCCCACGAGCCCATT
1 GGGCCCACGAGCCCATT
*
65336990 GGGCCTACGAGCCCATT
1 GGGCCCACGAGCCCATT
*
65337007 GGCCCCAC
1 GGGCCCAC
65337015 ATGACCCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.17, C:0.43, G:0.29, T:0.12
Consensus pattern (17 bp):
GGGCCCACGAGCCCATT
Found at i:65342465 original size:64 final size:65
Alignment explanation
Indices: 65342305--65342471 Score: 178
Period size: 68 Copynumber: 2.5 Consensus size: 65
65342295 ATACAAATAG
* * * *
65342305 TATGTAGCTAGGTCACATGTATGGTGCTAAGTGCACATCATGTGTACAAGAGAGCTACAAGACAT
1 TATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCACACCATGTGTACAAGAGAGCTAC-AGACAT
65342370 TA
64 TA
* * * **
65342372 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGCTAC-GGGA
1 T-ATGTAGCTAGGTCGCATGTGTG-TACTAAGTGCACACCATGT-GTACAAGAGAGCTACAGACA
65342435 -TA
63 TTA
65342437 TATGTAGCTAGGTCGCATGTGTAGTACTAAGTGCA
1 TATGTAGCTAGGTCGCATGTGT-GTACTAAGTGCA
65342472 GGCTACTATG
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
64 29 0.35
65 4 0.05
66 2 0.02
67 2 0.02
68 46 0.55
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.27
Consensus pattern (65 bp):
TATGTAGCTAGGTCGCATGTGTGTACTAAGTGCACACCATGTGTACAAGAGAGCTACAGACATTA
Found at i:65342572 original size:101 final size:99
Alignment explanation
Indices: 65342445--65342645 Score: 285
Period size: 101 Copynumber: 2.0 Consensus size: 99
65342435 TATATGTAGC
* * *
65342445 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCACGTGTGT
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAA-TTCG-TCACATGTGT
* *
65342510 AGTACTAAGTGCAGCCTACTACGTGTATCAGATAGT
64 AGTACTAAGTGCAGCCTACTACGCGTACCAGATAGT
* * * *
65342546 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTCGTCGCATGTGTGG
1 TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTCGTCACATGTGTAG
* *
65342611 TACTAAGTGCAGGCTACTATGCGTACCAGATAGT
66 TACTAAGTGCAGCCTACTACGCGTACCAGATAGT
65342645 T
1 T
65342646 TGGCTACATA
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
99 40 0.45
100 4 0.04
101 45 0.51
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (99 bp):
TAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGGATAATTCGTCACATGTGTAG
TACTAAGTGCAGCCTACTACGCGTACCAGATAGT
Found at i:65342623 original size:49 final size:49
Alignment explanation
Indices: 65342452--65342642 Score: 238
Period size: 50 Copynumber: 3.8 Consensus size: 49
65342442 AGCTAGGTCG
*
65342452 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTTCGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TTCG-TCA
* * * * * * *
65342503 CGTGTGTAGTACTAAGTGCAGCCTACTACGTGTATCAGATAGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT-CGTCA
* * * *
65342553 CGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTCGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGTCA
*
65342602 CATGTGTGGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
65342643 GTTTGGCTAC
Statistics
Matches: 120, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 40 0.33
50 44 0.37
51 36 0.30
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTCGTCA
Found at i:65344538 original size:33 final size:34
Alignment explanation
Indices: 65344501--65344577 Score: 95
Period size: 33 Copynumber: 2.3 Consensus size: 34
65344491 ATTCTGATGA
*
65344501 TAAGACCATGACT-GGGTTATGACAATACAAATG
1 TAAGACCATGACTAGGGTCATGACAATACAAATG
* * **
65344534 TAAGACCATG-GTAGGGTCATGGCAATACATGTG
1 TAAGACCATGACTAGGGTCATGACAATACAAATG
65344567 TAAGACCATGA
1 TAAGACCATGA
65344578 TTGGACTACG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (34 bp):
TAAGACCATGACTAGGGTCATGACAATACAAATG
Found at i:65349915 original size:46 final size:46
Alignment explanation
Indices: 65349865--65350037 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
65349855 TGGTTGAGCA
65349865 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
65349911 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
65349956 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
65350004 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65350038 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:65350021 original size:93 final size:93
Alignment explanation
Indices: 65349862--65350032 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
65349852 GGATGGTTGA
* *
65349862 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65349927 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
65349955 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
65350020 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
65350033 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65351465 original size:26 final size:25
Alignment explanation
Indices: 65351443--65351507 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
65351433 TATAACTAGA
65351443 GGCAAAGCCCTTTTTGATAAACTGG
1 GGCAAAGCCCTTTTTGATAAACTGG
* *
65351468 GGCAAAGCCCTTTTCGGTAAACTGG
1 GGCAAAGCCCTTTTTGATAAACTGG
* *
65351493 GGCATAGCCCCTTTT
1 GGCAAAGCCCTTTTT
65351508 AGCACTTCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (25 bp):
GGCAAAGCCCTTTTTGATAAACTGG
Found at i:65351729 original size:27 final size:28
Alignment explanation
Indices: 65351667--65351730 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 28
65351657 CAGTCACTTG
*
65351667 CCCACAAGGGCAAAACAGTCATTTAACA
1 CCCACAAGGGCAAAACAGTAATTTAACA
* ** *
65351695 CCC-TAAGGGCAAAATGGTAATTTTAC-
1 CCCACAAGGGCAAAACAGTAATTTAACA
65351721 CCCACAAGGG
1 CCCACAAGGG
65351731 TATCTCGGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
26 3 0.10
27 23 0.79
28 3 0.10
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (28 bp):
CCCACAAGGGCAAAACAGTAATTTAACA
Found at i:65351786 original size:53 final size:53
Alignment explanation
Indices: 65351714--65351826 Score: 147
Period size: 53 Copynumber: 2.1 Consensus size: 53
65351704 CAAAATGGTA
* * *
65351714 ATTTTACCCCACAAGGGTATCTCGGTAATTTTACCCTACAGGAG-ATTTCGAT
1 ATTTTACCCCACAAAGGTATCTCAGTAATTATACCCTACAGGAGTATTTCGAT
* * * *
65351766 ATTTCTACCCTACAAAGGTATTTCAGTAATTATACCCTATAGGGGTATTTCGAT
1 ATTT-TACCCCACAAAGGTATCTCAGTAATTATACCCTACAGGAGTATTTCGAT
65351820 ATTTTAC
1 ATTTTAC
65351827 AAATCGAGAG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
52 4 0.08
53 36 0.69
54 12 0.23
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.36
Consensus pattern (53 bp):
ATTTTACCCCACAAAGGTATCTCAGTAATTATACCCTACAGGAGTATTTCGAT
Found at i:65351801 original size:27 final size:26
Alignment explanation
Indices: 65351711--65351826 Score: 78
Period size: 27 Copynumber: 4.4 Consensus size: 26
65351701 GGGCAAAATG
* * *
65351711 GTAATTTTACCCCACAAGGGTATCTC
1 GTAATTTTACCCTACAAAGGTATTTC
*
65351737 GGTAATTTTACCCTAC--AGGAGATTTC
1 -GTAATTTTACCCTACAAAGG-TATTTC
65351763 G-ATATTTCTACCCTACAAAGGTATTTC
1 GTA-ATTT-TACCCTACAAAGGTATTTC
* * **
65351790 AGTAATTATACCCTATAGGGGTATTTC
1 -GTAATTTTACCCTACAAAGGTATTTC
65351817 G-ATATTTTAC
1 GTA-ATTTTAC
65351827 AAATCGAGAG
Statistics
Matches: 71, Mismatches: 10, Indels: 17
0.72 0.10 0.17
Matches are distributed among these distances:
24 1 0.01
25 8 0.11
26 19 0.27
27 35 0.49
28 7 0.10
29 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (26 bp):
GTAATTTTACCCTACAAAGGTATTTC
Found at i:65351868 original size:27 final size:27
Alignment explanation
Indices: 65351806--65351986 Score: 122
Period size: 27 Copynumber: 6.7 Consensus size: 27
65351796 TATACCCTAT
65351806 AGGGGTATTTCGAT-ATTTTACAAATC
1 AGGGGTATTTCGATAATTTTACAAATC
* * **
65351832 -GAGAGCATTTCGATAATTCCACAAATC
1 AG-GGGTATTTCGATAATTTTACAAATC
* * *
65351859 AGGGGTATTTTGCTAATTTTAC-AAGC
1 AGGGGTATTTCGATAATTTTACAAATC
* * *
65351885 TAGGGGTATTTTGGTAATTTTACAAACC
1 -AGGGGTATTTCGATAATTTTACAAATC
*
65351913 AGGGGTATTT-TAGTAATTTTACAAA-C
1 AGGGGTATTTCGA-TAATTTTACAAATC
* * *
65351939 TAGGGGTATTTTGGTAATTTTA-ATGATC
1 -AGGGGTATTTCGATAATTTTACA-AATC
* * *
65351967 AAGGGTATTTTGGTAATTTT
1 AGGGGTATTTCGATAATTTT
65351987 GTAAACTAAG
Statistics
Matches: 126, Mismatches: 19, Indels: 19
0.77 0.12 0.12
Matches are distributed among these distances:
25 1 0.01
26 15 0.12
27 105 0.83
28 5 0.04
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
AGGGGTATTTCGATAATTTTACAAATC
Found at i:65351903 original size:54 final size:53
Alignment explanation
Indices: 65351852--65352013 Score: 209
Period size: 54 Copynumber: 3.0 Consensus size: 53
65351842 CGATAATTCC
*
65351852 ACAAATCAGGGGTATTTTGCTAATTTTACAAGCTAGGGGTATTTTGGTAATTTT
1 ACAAATCAGGGGTATTTTG-TAATTTTACAAACTAGGGGTATTTTGGTAATTTT
*
65351906 ACAAACCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTT
1 ACAAATCAGGGGTATTTT-GTAATTTTACAAACTAGGGGTATTTTGGTAATTTT
* * ** * *
65351960 A-ATGATCAAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTAGTAATTTT
1 ACA-AATCAGGGGTATTTT-GTAATTTTACAAACTAGGGGTATTTTGGTAATTTT
65352014 GTAAATCGAG
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 1 0.01
54 94 0.98
55 1 0.01
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.41
Consensus pattern (53 bp):
ACAAATCAGGGGTATTTTGTAATTTTACAAACTAGGGGTATTTTGGTAATTTT
Found at i:65351944 original size:81 final size:81
Alignment explanation
Indices: 65351859--65352013 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 81
65351849 TCCACAAATC
* * *
65351859 AGGGGTATTTTGCTAATTTTACAAGCT-AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 AGGGGTATTTTGCTAATTTTA-AAGATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
65351923 TAGTAATTTTACAAACT
65 TAGTAATTTTACAAACT
* * ** *
65351940 AGGGGTATTTTGGTAATTTTAATGATCAAGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTT
1 AGGGGTATTTTGCTAATTTTAAAGATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
65352005 AGTAATTTT
66 AGTAATTTT
65352014 GTAAATCGAG
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
80 3 0.05
81 62 0.95
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (81 bp):
AGGGGTATTTTGCTAATTTTAAAGATCAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT
AGTAATTTTACAAACT
Found at i:65352018 original size:27 final size:27
Alignment explanation
Indices: 65351859--65352013 Score: 188
Period size: 27 Copynumber: 5.7 Consensus size: 27
65351849 TCCACAAATC
* *
65351859 AGGGGTATTTTGCTAATTTTACAAGCT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
65351886 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
*
65351913 AGGGGTATTTTAGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
*
65351940 AGGGGTATTTTGGTAATTTTA-ATGA-T
1 AGGGGTATTTTGGTAATTTTACA-AACT
* **
65351966 CAAGGGTATTTTGGTAATTTTGTAAACT
1 -AGGGGTATTTTGGTAATTTTACAAACT
* *
65351994 AAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
65352014 GTAAATCGAG
Statistics
Matches: 113, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
26 2 0.02
27 109 0.96
28 2 0.02
ACGTcount: A:0.29, C:0.06, G:0.22, T:0.43
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:65352038 original size:81 final size:81
Alignment explanation
Indices: 65351888--65352038 Score: 178
Period size: 81 Copynumber: 1.9 Consensus size: 81
65351878 TACAAGCTAG
* * * *** *
65351888 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAGGCGTAAAATGA
65351953 TAATTTTAATGATCAA
66 TAATTTTAATGATCAA
** * **
65351969 GGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTTAGTAATTTTGTAAATCGA-GCGTAAAATG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAA-CGAGGCGTAAAATG
65352033 ATAATT
65 ATAATT
65352039 CTGTAAATCG
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
81 55 0.96
82 2 0.04
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACGAGGCGTAAAATGA
TAATTTTAATGATCAA
Found at i:65352053 original size:54 final size:54
Alignment explanation
Indices: 65351995--65352111 Score: 126
Period size: 54 Copynumber: 2.2 Consensus size: 54
65351985 TTGTAAACTA
* * * *
65351995 AGGGTATTTTAGTAATTTTGTAAATCGAGCGTAAAATGATAATTCTGTAAATCG
1 AGGGTATTTCAGTAATTTTGTAAATCGAGCGTAAAACGATAACTCTATAAATCG
*** * * * *
65352049 AGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGGTAACTCTATAAATTG
1 AGGGTATTTCAGTAATTTTGTAAATCGAGCGTAAAACGATAACTCTATAAATCG
*
65352103 AGGATATTT
1 AGGGTATTT
65352112 GGGTAGTTTT
Statistics
Matches: 48, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (54 bp):
AGGGTATTTCAGTAATTTTGTAAATCGAGCGTAAAACGATAACTCTATAAATCG
Found at i:65352087 original size:27 final size:27
Alignment explanation
Indices: 65352006--65352090 Score: 134
Period size: 27 Copynumber: 3.1 Consensus size: 27
65351996 GGGTATTTTA
* *
65352006 GTAATTTTGTAAATCGAGCGTAAAATG
1 GTAATTTTGTAAATCGAGGGTAAAACG
* *
65352033 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACG
65352060 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACG
65352087 GTAA
1 GTAA
65352091 CTCTATAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAAACG
Found at i:65352099 original size:27 final size:27
Alignment explanation
Indices: 65352006--65352105 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 27
65351996 GGGTATTTTA
* * *
65352006 GTAATTTTGTAAATCGAGCGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
65352033 ATAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
65352060 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
65352087 GTAACTCTATAAATTGAGG
1 GTAATTCTGTAAATCGAGG
65352106 ATATTTGGGT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:65356930 original size:61 final size:61
Alignment explanation
Indices: 65356853--65356975 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
65356843 CTTTACAAAA
65356853 CTTGCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATT
1 CTTGCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATT
65356914 CTTGCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATT
1 CTTGCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATT
65356975 C
1 C
65356976 ATCAATAGAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.33
Consensus pattern (61 bp):
CTTGCATAATTCATAATAAATATTCACAATCTATCATCAAACATAAAAAATCATACATATT
Found at i:65356959 original size:30 final size:30
Alignment explanation
Indices: 65356864--65356964 Score: 107
Period size: 30 Copynumber: 3.3 Consensus size: 30
65356854 TTGCATAATT
*
65356864 CATAATAAATATTCACAATCTATCATCAAA
1 CATAAAAAATATTCACAATCTATCATCAAA
* * * *
65356894 CATAAAAAATCATACATATTCT-TGCAT-AATT
1 CATAAAAAAT-ATTCACAATCTAT-CATCAA-A
*
65356925 CATAATAAATATTCACAATCTATCATCAAA
1 CATAAAAAATATTCACAATCTATCATCAAA
65356955 CATAAAAAAT
1 CATAAAAAAT
65356965 CATACATATT
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
30 32 0.58
31 23 0.42
ACGTcount: A:0.50, C:0.18, G:0.01, T:0.31
Consensus pattern (30 bp):
CATAAAAAATATTCACAATCTATCATCAAA
Found at i:65358562 original size:43 final size:43
Alignment explanation
Indices: 65358501--65358648 Score: 115
Period size: 43 Copynumber: 3.5 Consensus size: 43
65358491 AGATATTGTG
* * * * *
65358501 TAAGACCGTGTTTCGGACATTGGCCTCGATTGAGATTTACGTA
1 TAAGACCATGTCTGGGACATAGGCATCGATTGAGATTTACGTA
* **
65358544 TAAGACCATGTCTGGGACATCGGCATC-ATATCTGATTT-CGTA
1 TAAGACCATGTCTGGGACATAGGCATCGAT-TGAGATTTACGTA
* * * * * *
65358586 TAAGACCCTGTCTAGGATAGAGGCATCGATATTGA-A-TTACATT
1 TAAGACCATGTCTGGGACATAGGCATCG--ATTGAGATTTACGTA
65358629 TAAGACCATGTCTGGGACAT
1 TAAGACCATGTCTGGGACAT
65358649 CGACATTGTA
Statistics
Matches: 80, Mismatches: 20, Indels: 10
0.73 0.18 0.09
Matches are distributed among these distances:
42 30 0.38
43 47 0.59
44 1 0.01
45 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACATAGGCATCGATTGAGATTTACGTA
Found at i:65358598 original size:42 final size:42
Alignment explanation
Indices: 65358534--65358650 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 42
65358524 CCTCGATTGA
65358534 GATTTACGTATAAGACCATGTCTGGGACATCGGCATC-ATATCT
1 GATTT-CGTATAAGACCATGTCTGGGACATCGGCATCGATAT-T
* * * **
65358577 GATTTCGTATAAGACCCTGTCTAGGATAGAGGCATCGATATT
1 GATTTCGTATAAGACCATGTCTGGGACATCGGCATCGATATT
* * *
65358619 GAATTACATTTAAGACCATGTCTGGGACATCG
1 G-ATTTCGTATAAGACCATGTCTGGGACATCG
65358651 ACATTGTACT
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
42 28 0.47
43 31 0.53
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (42 bp):
GATTTCGTATAAGACCATGTCTGGGACATCGGCATCGATATT
Found at i:65374891 original size:93 final size:93
Alignment explanation
Indices: 65374778--65374949 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
65374768 CGCCCATAAG
* *
65374778 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65374843 ACGAGTTCGGATGCCTAGTTACATCTCT
66 ACGAGTTCGGATGCCTAGTTACATCTCT
* *
65374871 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65374936 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
65374950 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCT
Found at i:65374946 original size:46 final size:46
Alignment explanation
Indices: 65374771--65374946 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
65374761 TGTAACCCGC
* * * * *
65374771 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
65374817 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* ***
65374863 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
65374910 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65374947 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 67 0.61
47 33 0.30
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:65374965 original size:46 final size:46
Alignment explanation
Indices: 65374779--65374965 Score: 138
Period size: 46 Copynumber: 4.0 Consensus size: 46
65374769 GCCCATAAGC
* * ** * *
65374779 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCC-T-AGT
*
65374825 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCTCT--C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CTAGT
* * * *
65374872 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCCTAGT
65374918 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
65374964 GA
1 GA
65374966 CATGTCACTT
Statistics
Matches: 112, Mismatches: 14, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
44 9 0.08
45 1 0.01
46 60 0.54
47 31 0.28
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
Found at i:65377351 original size:39 final size:40
Alignment explanation
Indices: 65377242--65377366 Score: 157
Period size: 40 Copynumber: 3.1 Consensus size: 40
65377232 TCGCTCAAAG
*
65377242 GCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCACGAAT
1 GCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCACGAAT
* * *
65377282 GCCTTCGGGACTTAACCTGGGTTTAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAAT
* *
65377322 GCCTTCGGG-CTTAACCCGGATTTATTAACTCGCACGAAC
1 GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAAT
65377361 GCCTTC
1 GCCTTC
65377367 AGATCTTAGT
Statistics
Matches: 75, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 31 0.41
40 40 0.53
41 4 0.05
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACGAAT
Found at i:65383591 original size:93 final size:93
Alignment explanation
Indices: 65383432--65383601 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
65383422 GGATGGTTCA
* * * * *
65383432 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGGTGCGAATGTCCAAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAGT
65383497 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
65383525 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAGT
*
65383590 TGAGTTCGAGTT
66 TGAGTCCGAGTT
65383602 TGCTTATGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65386342 original size:32 final size:32
Alignment explanation
Indices: 65386306--65386369 Score: 76
Period size: 33 Copynumber: 2.0 Consensus size: 32
65386296 CTAACATCAC
* *
65386306 AAAAC-TCACATATTCAACAAATTCATCTCATG
1 AAAACATCACAAATTCAACAAATT-ATCACATG
* *
65386338 AAAACATCATAAATTCCACAAATTATCACATG
1 AAAACATCACAAATTCAACAAATTATCACATG
65386370 GGCTTGATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (32 bp):
AAAACATCACAAATTCAACAAATTATCACATG
Found at i:65394607 original size:27 final size:27
Alignment explanation
Indices: 65394576--65394762 Score: 214
Period size: 27 Copynumber: 6.9 Consensus size: 27
65394566 TAGAATACTT
**
65394576 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* *
65394603 TAGTTTATAAAATTACTAAAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCC
*
65394630 TGGTTTATAAAATTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * *
65394657 TAGTTTGTAAGATTACCAAAATACCCT
1 TAGTTTATAAAATTACCAAAATACCCC
* * *
65394684 TGGTTTGTAAAACTACCAAAATACCCC
1 TAGTTTATAAAATTACCAAAATACCCC
*
65394711 TAGTTTGTAAAATTACCAAAATA-CCC
1 TAGTTTATAAAATTACCAAAATACCCC
* * * *
65394737 TTGATTTGTGAAATTACTAAAATACC
1 TAG-TTTATAAAATTACCAAAATACC
65394763 ATCCACCTAT
Statistics
Matches: 138, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
26 5 0.04
27 132 0.96
28 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
TAGTTTATAAAATTACCAAAATACCCC
Found at i:65394643 original size:54 final size:54
Alignment explanation
Indices: 65394585--65394762 Score: 284
Period size: 54 Copynumber: 3.3 Consensus size: 54
65394575 TTAGTTTACC
* * *
65394585 AAATTACCAAAATACCCCTAGTTTATAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
*
65394639 AAATTACCAAAATACCCCTAGTTTGTAAGATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
* * *
65394693 AAACTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
*
65394747 AAATTACTAAAATACC
1 AAATTACCAAAATACC
65394763 ATCCACCTAT
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGTA
Found at i:65394869 original size:27 final size:27
Alignment explanation
Indices: 65394585--65394871 Score: 197
Period size: 27 Copynumber: 10.7 Consensus size: 27
65394575 TTAGTTTACC
*
65394585 AAATTACCAAAATACCC-CTAGTTTATA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
65394612 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTATA
* *
65394639 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * * *
65394666 AGATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTATA
* * *
65394693 AAACTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTATA
* * *
65394720 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCAAAATACCCTCGATTTATA
* * * **
65394747 AAATTACTAAAATACCATCCACCTATA
1 AAATTACCAAAATACCCTCGATTTATA
** ** *
65394774 AAATTACTGAAATACCCTC-AACTAGCA
1 AAATTACCAAAATACCCTCGATTTA-TA
* *
65394801 AAATTACCAAAGTACCC-CGATTTACA
1 AAATTACCAAAATACCCTCGATTTATA
* ***
65394827 GAATTACCATTTTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTATA
**
65394854 AAATTACTGAAATACCCT
1 AAATTACCAAAATACCCT
65394872 TGTAGGGTAG
Statistics
Matches: 202, Mismatches: 50, Indels: 16
0.75 0.19 0.06
Matches are distributed among these distances:
26 20 0.10
27 181 0.90
28 1 0.00
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTATA
Found at i:65394888 original size:27 final size:27
Alignment explanation
Indices: 65394858--65395073 Score: 222
Period size: 27 Copynumber: 8.0 Consensus size: 27
65394848 TTTATAAAAT
*
65394858 TACTGAAATACCCTTGTAGGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * * *
65394885 TACTGAAATACCCCTATAGTGTGGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
65394912 TACTAAAATACCCCTGTAGGGTAGAAT
1 TACTGAAATACCCCTGTAGGGTAGAAA
* ** *
65394939 TATTGAAATACCTTTGTAAGGTAGAAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
* *
65394966 TACCT-AAATACCCTTGTATGGTAGAAA
1 TA-CTGAAATACCCCTGTAGGGTAGAAA
*
65394993 CT-CTGAAATACCCCTGTAGGGTAGAAT
1 -TACTGAAATACCCCTGTAGGGTAGAAA
*
65395020 TACTGAAATACCCCTGTAGGGTAGAAC
1 TACTGAAATACCCCTGTAGGGTAGAAA
* * * *
65395047 TACCGAGATACCCTTGTGGGGTA-AAA
1 TACTGAAATACCCCTGTAGGGTAGAAA
65395073 T
1 T
65395074 TACCATTTTA
Statistics
Matches: 158, Mismatches: 27, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
26 6 0.04
27 150 0.95
28 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
TACTGAAATACCCCTGTAGGGTAGAAA
Found at i:65395060 original size:81 final size:81
Alignment explanation
Indices: 65394855--65395063 Score: 269
Period size: 81 Copynumber: 2.6 Consensus size: 81
65394845 CGATTTATAA
* * * * *
65394855 AATTACTGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTATAGTGTGGAATTACTAAAA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGTGTGAAACTACTAAAA
65394920 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * *
65394936 AATTATTGAAATACCTTTGTAAGGTAGAAATACCTAAATACCCTTGTA-TGGTAGAAACT-CTGA
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGT-GT-GAAACTACTAA
65394999 AATACCCCTGTAGGGTAG
64 AATACCCCTGTAGGGTAG
* * *
65395017 AATTACTGAAATACCCCTGTAGGGTAGAACTACCGAGATACCCTTGT
1 AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGT
65395064 GGGGTAAAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 104 0.95
82 4 0.04
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (81 bp):
AATTACTGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGTGTGAAACTACTAAAA
TACCCCTGTAGGGTAG
Found at i:65395370 original size:27 final size:28
Alignment explanation
Indices: 65395305--65395408 Score: 106
Period size: 27 Copynumber: 3.8 Consensus size: 28
65395295 AAGCGTTCTA
* *
65395305 GTGGCTATGCCACAAATATCTGTTTTTG
1 GTGGCTATGCCACAAATATCTGTCTCTG
65395333 GTGGCTATGCCACAAATATCTG-CTCTG
1 GTGGCTATGCCACAAATATCTGTCTCTG
* * *
65395360 GTGGTTCTGCCAC-AATATCTGTATCTG
1 GTGGCTATGCCACAAATATCTGTCTCTG
* * * *
65395387 ATGACTTTGTCAC-AATATCTGT
1 GTGGCTATGCCACAAATATCTGT
65395409 TAACCAATCG
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
26 8 0.12
27 35 0.54
28 22 0.34
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (28 bp):
GTGGCTATGCCACAAATATCTGTCTCTG
Found at i:65395544 original size:78 final size:78
Alignment explanation
Indices: 65395415--65395580 Score: 260
Period size: 78 Copynumber: 2.1 Consensus size: 78
65395405 CTGTTAACCA
* * * * *
65395415 ATCGATGGCTGAGTGCCGGTCATGTTATCGAAGGCTGTGTGCTATTATTGTGGGCTTCGTGTCGA
1 ATCGATGGCTGAGTGCCGATCATGTTACCAAAGGCTGTGTACCATTATTGTGGGCTTCGTGTCGA
65395480 TTATAGACCCGTT
66 TTATAGACCCGTT
* *
65395493 ATCGATGGCTGAGTGTCGATCATGTTACCAAAGGCTGTGTACCGTTATTGTGGGCTTCGTGTCGA
1 ATCGATGGCTGAGTGCCGATCATGTTACCAAAGGCTGTGTACCATTATTGTGGGCTTCGTGTCGA
*
65395558 TTATAGACTCGTT
66 TTATAGACCCGTT
65395571 ATCGATGGCT
1 ATCGATGGCT
65395581 TTGTGCCACA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 80 1.00
ACGTcount: A:0.18, C:0.18, G:0.30, T:0.34
Consensus pattern (78 bp):
ATCGATGGCTGAGTGCCGATCATGTTACCAAAGGCTGTGTACCATTATTGTGGGCTTCGTGTCGA
TTATAGACCCGTT
Found at i:65395632 original size:27 final size:26
Alignment explanation
Indices: 65395602--65395682 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 26
65395592 ATTTTGTTAA
*
65395602 GTGGCTTTGCCACATTATCTGATTCTG
1 GTGGCTTTGCCACAATATCTG-TTCTG
65395629 GTGGCTTTGCCACAATATCTGTATCTG
1 GTGGCTTTGCCACAATATCTGT-TCTG
* * *
65395656 GTGACTCTGTCACAATATCTGTTCTG
1 GTGGCTTTGCCACAATATCTGTTCTG
65395682 G
1 G
65395683 CAACCATGCT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 6 0.12
27 43 0.88
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTGTTCTG
Found at i:65395831 original size:25 final size:24
Alignment explanation
Indices: 65395803--65395940 Score: 100
Period size: 25 Copynumber: 5.6 Consensus size: 24
65395793 CATTCACATT
*
65395803 CTGATTTTGATTCTATTAGCTGATA
1 CTGATTCTGATTCTATTA-CTGATA
* * *
65395828 CTGATTCTGATTTTGTTAACTGATT
1 CTGATTCTGATTCTATT-ACTGATA
* *
65395853 TTGATTCTAATTCTATTACTTGATA
1 CTGATTCTGATTCTATTAC-TGATA
*
65395878 CTGATTCTGATTCTGATTA-TGTTA
1 CTGATTCTGATTCT-ATTACTGATA
* * *
65395902 CCTAATTCTAATTCTGATT-CTGATT
1 -CTGATTCTGATTCT-ATTACTGATA
* *
65395927 TTGATTATGATTCT
1 CTGATTCTGATTCT
65395941 CATTTTGATT
Statistics
Matches: 88, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
24 16 0.18
25 67 0.76
26 5 0.06
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.51
Consensus pattern (24 bp):
CTGATTCTGATTCTATTACTGATA
Found at i:65395839 original size:6 final size:6
Alignment explanation
Indices: 65395800--65395952 Score: 89
Period size: 6 Copynumber: 24.8 Consensus size: 6
65395790 TTGCATTCAC
* * *
65395800 ATTCTG ATTTTG ATTCT- ATTAGCTG ATACTG ATTCTG ATTTTG -TTAACTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * *
65395850 ATTTTG ATTCTA ATTCT- ATTACTTG ATACTG ATTCTG ATTCTG ATTATG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
65395899 -TTACCTA ATTCTA ATTCTG ATTCTG ATTTTG ATTATG ATTCTC ATTTTG
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG
65395948 ATTCT
1 ATTCT
65395953 AGTTCTAATA
Statistics
Matches: 113, Mismatches: 22, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
5 10 0.09
6 88 0.78
7 7 0.06
8 8 0.07
ACGTcount: A:0.23, C:0.13, G:0.12, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:65400261 original size:30 final size:30
Alignment explanation
Indices: 65400225--65400284 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
65400215 ATTTAATACG
** *
65400225 AACTTTTGTAAAATTACATTTTTGCCCCTA
1 AACTTTTACAAAATTACACTTTTGCCCCTA
*
65400255 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTTACAAAATTACACTTTTGCCCCTA
65400285 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.42
Consensus pattern (30 bp):
AACTTTTACAAAATTACACTTTTGCCCCTA
Found at i:65408372 original size:40 final size:40
Alignment explanation
Indices: 65408316--65408415 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
65408306 GGATATAGCG
* * * *
65408316 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATT-TAAGA
* * **
65408356 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
65408396 ACTCGCACAAATGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
65408416 ATTTAGTCCG
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
40 48 0.96
41 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACATAACCCGGATTTAAGA
Found at i:65408444 original size:40 final size:39
Alignment explanation
Indices: 65408360--65408467 Score: 110
Period size: 40 Copynumber: 2.7 Consensus size: 39
65408350 ATAATAGCTC
* *
65408360 GCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAACTC
1 GCACAAATGCCTTC-GGACTTAACCCGGATATGGGAACTA
* ** **
65408400 GCACAAATGCCTTCGGATTTAGTCCGGATATGGTCACTTA
1 GCACAAATGCCTTCGGACTTAACCCGGATATGGGAAC-TA
*
65408440 GCACAAA-GCCTTCGGGACTTAGCCCGGA
1 GCACAAATGCCTTC-GGACTTAACCCGGA
65408468 CATCATTCGA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
39 23 0.40
40 34 0.60
ACGTcount: A:0.25, C:0.27, G:0.25, T:0.23
Consensus pattern (39 bp):
GCACAAATGCCTTCGGACTTAACCCGGATATGGGAACTA
Found at i:65416401 original size:40 final size:40
Alignment explanation
Indices: 65416289--65416441 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
65416279 GGATATAGCG
* * * * ***
65416289 ACTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* * *
65416329 GCTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
* **
65416369 ACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGA
*
65416409 ACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
65416442 CATCATTCGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGA
Found at i:65418195 original size:40 final size:40
Alignment explanation
Indices: 65418135--65418234 Score: 130
Period size: 40 Copynumber: 2.5 Consensus size: 40
65418125 GGCTGTCACA
* * * *
65418135 AAGTGTCATATATAGCCGAAGCTAT-TCCAAATCGCACATT
1 AAGTGCCATATATAGTCGAAGCTATCT-CAAATCACACACT
*
65418175 AAGTGCCATATATAGTCGAAGTTATCTCAAATCACACACT
1 AAGTGCCATATATAGTCGAAGCTATCTCAAATCACACACT
*
65418215 AAGTGCCATATATATTCGAA
1 AAGTGCCATATATAGTCGAA
65418235 TCATCGTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 52 0.98
41 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (40 bp):
AAGTGCCATATATAGTCGAAGCTATCTCAAATCACACACT
Found at i:65420544 original size:19 final size:18
Alignment explanation
Indices: 65420520--65420555 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
65420510 GCGGAAGCTT
65420520 AGGAAAACAGTTGTGTTTA
1 AGGAAAACAGTT-TGTTTA
*
65420539 AGGAAATCAGTTTGTTT
1 AGGAAAACAGTTTGTTT
65420556 GTTCAAAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (18 bp):
AGGAAAACAGTTTGTTTA
Found at i:65423395 original size:25 final size:25
Alignment explanation
Indices: 65423354--65423437 Score: 75
Period size: 26 Copynumber: 3.4 Consensus size: 25
65423344 CTGGAGGCCT
65423354 AGCCTCTTTT-AAT-AACTGGGGAAA
1 AGCC-CTTTTCAATAAACTGGGGAAA
* * *
65423378 AGCCCTTTT-AGGTAAACTAGGGCATA
1 AGCCCTTTTCA-ATAAACT-GGGGAAA
* *
65423404 AGCCCTTTTCAATAAACTGGGGCAT
1 AGCCCTTTTCAATAAACTGGGGAAA
65423429 AGCCCTTTT
1 AGCCCTTTT
65423438 GCACTTCCTC
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
23 6 0.12
24 5 0.10
25 16 0.33
26 20 0.42
27 1 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGAAA
Found at i:65423408 original size:26 final size:26
Alignment explanation
Indices: 65423377--65423437 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
65423367 AACTGGGGAA
*
65423377 AAGCCCTTTT-AGGTAAACTAGGGCAT
1 AAGCCCTTTTCA-ATAAACTAGGGCAT
*
65423403 AAGCCCTTTTCAATAAACTGGGGCAT
1 AAGCCCTTTTCAATAAACTAGGGCAT
65423429 -AGCCCTTTT
1 AAGCCCTTTT
65423438 GCACTTCCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
25 9 0.28
26 22 0.69
27 1 0.03
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (26 bp):
AAGCCCTTTTCAATAAACTAGGGCAT
Found at i:65423524 original size:29 final size:29
Alignment explanation
Indices: 65423487--65423549 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
65423477 TTATGATTAC
*
65423487 ATCATGTGCATTTCATA-CATATCATACAT
1 ATCATGTGCATATCATATCAT-TCATACAT
**
65423516 ATCATGTGCATATCATATCATTCATGTAT
1 ATCATGTGCATATCATATCATTCATACAT
65423545 ATCAT
1 ATCAT
65423550 ATCCCACGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 27 0.90
30 3 0.10
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (29 bp):
ATCATGTGCATATCATATCATTCATACAT
Found at i:65423548 original size:18 final size:20
Alignment explanation
Indices: 65423504--65423552 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
65423494 GCATTTCATA
65423504 CATATCATA-CATATCATGT
1 CATATCATATCATATCATGT
65423523 GCATATCATATCAT-TCATGT
1 -CATATCATATCATATCATGT
65423543 -ATATCATATC
1 CATATCATATC
65423553 CCACGTATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.36
20 15 0.54
21 3 0.11
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (20 bp):
CATATCATATCATATCATGT
Found at i:65430143 original size:27 final size:26
Alignment explanation
Indices: 65430089--65430143 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
65430079 ACCTTAACCT
* * *
65430089 TAGGGGTATATCAGTAATTTTGCTCC
1 TAGGGGTAAATCAGTAATTTTCCACC
*
65430115 TAGGGGTAAATCTGTAAATTTTCCACC
1 TAGGGGTAAATCAGT-AATTTTCCACC
65430142 TA
1 TA
65430144 TAAAGGTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (26 bp):
TAGGGGTAAATCAGTAATTTTCCACC
Found at i:65432473 original size:23 final size:23
Alignment explanation
Indices: 65432434--65432480 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
65432424 ATACATACAG
65432434 TAATATTTTTCTAATAATAATAA
1 TAATATTTTTCTAATAATAATAA
* *
65432457 TAAT-TTTTATCTCATAATACTAA
1 TAATATTTT-TCTAATAATAATAA
65432480 T
1 T
65432481 TAAAATTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (23 bp):
TAATATTTTTCTAATAATAATAA
Found at i:65434957 original size:40 final size:40
Alignment explanation
Indices: 65434850--65435038 Score: 244
Period size: 40 Copynumber: 4.8 Consensus size: 40
65434840 CGGATGATAA
* * * *
65434850 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATA-T
65434890 CCGGGCTAAG-CCCGAAGGCAATT-GTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTATTATAT
*
65434929 CTGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-T-TAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATAT
* *
65434967 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATAT
* *
65435007 CCGGGCTATGTCCCGAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
65435039 AGCTATATCC
Statistics
Matches: 133, Mismatches: 10, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
38 35 0.26
39 34 0.26
40 64 0.48
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTATAT
Found at i:65434999 original size:78 final size:79
Alignment explanation
Indices: 65434846--65435038 Score: 282
Period size: 78 Copynumber: 2.5 Consensus size: 79
65434836 TATTCGGATG
* *
65434846 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAA
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAA
65434911 TTGTGCGAGTTATT
66 TTGTGCGAGTTATT
* * * *
65434925 ATATCTGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-TTA-TCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAATTCCGGGCTAAG-CCCGAAGGCA
*
65434988 TTTGTGCGAGTTATT
65 ATTGTGCGAGTTATT
* *
65435003 ATAACCGGGCTATGTCCCGAAGGCATTCGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
65435039 AGCTATATCC
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
77 11 0.11
78 58 0.57
79 33 0.32
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCAA
TTGTGCGAGTTATT
Found at i:65443083 original size:40 final size:39
Alignment explanation
Indices: 65442971--65443114 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 39
65442961 CGGATGATAA
* * *
65442971 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTTACTAA-T
* *
65443011 CCGGGCTAAG-CCCGAAGGCAATT-GTGATAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCTAGTTACTA-AT
*
65443050 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTTACTAAT
*
65443089 ACCGGGCTATGTCCCGAAGGCATTCG
1 -CCGGGCTAAGTCCCGAAGGCATTCG
65443115 AGTGAGTAGC
Statistics
Matches: 91, Mismatches: 8, Indels: 10
0.83 0.07 0.09
Matches are distributed among these distances:
39 34 0.37
40 57 0.63
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTTACTAAT
Found at i:65461679 original size:16 final size:16
Alignment explanation
Indices: 65461660--65461697 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
65461650 TATTGTTCAC
*
65461660 ATTTTCTTTTTTTTTT
1 ATTTTCTTTTATTTTT
65461676 ATTTTCTTTTATTTTT
1 ATTTTCTTTTATTTTT
65461692 AGTTTT
1 A-TTTT
65461698 GGTTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.11, C:0.05, G:0.03, T:0.82
Consensus pattern (16 bp):
ATTTTCTTTTATTTTT
Found at i:65463811 original size:353 final size:353
Alignment explanation
Indices: 65463156--65463864 Score: 1071
Period size: 353 Copynumber: 2.0 Consensus size: 353
65463146 GAATTACTTA
* *
65463156 ATACACTAGAATTGATGCCTCTAGTAGAAAATCTAGATAAGCAAGATAGAGAGGAGAGTTTATCC
1 ATACACTAAAATTGATGCCTCTAGTAGAAAATCTAGATAAACAAGATAGAGAGGAGAGTTTATCC
* * * *
65463221 TTAATAGTTTGATATAATTGTACCGAGTAGTGAGATTGAGAGAAGAACAACTTGTCAAAGTGAGA
66 TTAACAGTTCGATATAATTATACCGAGTAGTGAGATTGAAAGAAGAACAACTTGTCAAAGTGAGA
* * * * **
65463286 TTGAGAGAAGAACTTAGGTTGTAATTTCAAATTAGGATGAGACTGAAAGGAGATTCTAGTGAGGA
131 CTAAGAGAAGAACTTAGGTTGCAATTCCAAATTAGGATGAGACTGAAACAAGATTCTAGTGAGGA
** * * *
65463351 GTCACAAGTGATCTAATTGGGATAGGTTATTGGCTTAGTTAGTAATCGACTAATCAATCAACCAT
196 GTCACAAGCAATCTAATCGAGATAGGTTATTGGCTTAATTAGTAATCGACTAATCAATCAACCAT
* * *
65463416 CGTTTTTATCATTTGCATAGTCGAATACAATAGGAAGAAATCTTAGTTTAGGTAGTTTAATTGAT
261 CATTTTTATCATGTGCATAGTCGAATACAATAGGAAGAAATCTTAATTTAGGTAGTTTAATTGAT
65463481 AATTTAAAATTAGTCTCATTATATTTTC
326 AATTTAAAATTAGTCTCATTATATTTTC
* * * *
65463509 ATACGCTAAAATTGATGCTTCTAGTGGAAAATCTAGATAAATAAGATAGAGAGGAGAGTTTATCC
1 ATACACTAAAATTGATGCCTCTAGTAGAAAATCTAGATAAACAAGATAGAGAGGAGAGTTTATCC
* * * *
65463574 TTAACAGTTCGATATAATTATACTGGGTAGTGAGATTGAAAGAAGAACTACTTGTCTAAGTGAGA
66 TTAACAGTTCGATATAATTATACCGAGTAGTGAGATTGAAAGAAGAACAACTTGTCAAAGTGAGA
* * *
65463639 CTAAGAGAAGACCTTA-GTTGGCAATTCCGAATTAGGATGAGACT-AACACAAGATTCTAGTGAT
131 CTAAGAGAAGAACTTAGGTT-GCAATTCCAAATTAGGATGAGACTGAA-ACAAGATTCTAGTGAG
** *
65463702 GAGTGGCAAGCAATCTAATCGAGATAGGTTATTGGCTTAATTAGTAATTGACTAATCAATCAACC
194 GAGTCACAAGCAATCTAATCGAGATAGGTTATTGGCTTAATTAGTAATCGACTAATCAATCAACC
65463767 ATCATTTTTATCATGTGCATAGTCGAATACAATAGGAAGAAATCTTAATTTAGGTAGTTTAATTG
259 ATCATTTTTATCATGTGCATAGTCGAATACAATAGGAAGAAATCTTAATTTAGGTAGTTTAATTG
*
65463832 ATAATTTAGAATTAGTCTCATTATATTTTC
324 ATAATTTAAAATTAGTCTCATTATATTTTC
65463862 ATA
1 ATA
65463865 TTTGGTTTGC
Statistics
Matches: 319, Mismatches: 35, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
352 5 0.02
353 314 0.98
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.32
Consensus pattern (353 bp):
ATACACTAAAATTGATGCCTCTAGTAGAAAATCTAGATAAACAAGATAGAGAGGAGAGTTTATCC
TTAACAGTTCGATATAATTATACCGAGTAGTGAGATTGAAAGAAGAACAACTTGTCAAAGTGAGA
CTAAGAGAAGAACTTAGGTTGCAATTCCAAATTAGGATGAGACTGAAACAAGATTCTAGTGAGGA
GTCACAAGCAATCTAATCGAGATAGGTTATTGGCTTAATTAGTAATCGACTAATCAATCAACCAT
CATTTTTATCATGTGCATAGTCGAATACAATAGGAAGAAATCTTAATTTAGGTAGTTTAATTGAT
AATTTAAAATTAGTCTCATTATATTTTC
Found at i:65465691 original size:46 final size:45
Alignment explanation
Indices: 65465638--65465809 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 45
65465628 TGGGCATCCA
65465638 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*** * *
65465684 AACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-TCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCCG
* * *
65465731 AGCTCGTTGAGTTGAGTCCGAGTTCACTTTTGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCCG
*
65465777 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65465810 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 63 0.60
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCCG
Found at i:65465789 original size:93 final size:93
Alignment explanation
Indices: 65465630--65465801 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
65465620 AGGATATTTG
* *
65465630 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
65465695 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * *
65465723 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTTTGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
65465788 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
65465802 ACTTATGGGC
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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:65468916 original size:46 final size:47
Alignment explanation
Indices: 65468849--65468937 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 47
65468839 CTGGCATATT
65468849 AGATATATGTGGTCAAGCCACTAT-ATTACAATCAAGCTGCCATAAA
1 AGATATATGTGGTCAAGCCACTATAATTACAATCAAGCTGCCATAAA
* * * *
65468895 AGATATGTGTGGTCGAGCCACTATAATTGCAATCAAGTTGCCA
1 AGATATATGTGGTCAAGCCACTATAATTACAATCAAGCTGCCA
65468938 GGATAGATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
46 22 0.58
47 16 0.42
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (47 bp):
AGATATATGTGGTCAAGCCACTATAATTACAATCAAGCTGCCATAAA
Found at i:65468946 original size:47 final size:46
Alignment explanation
Indices: 65468848--65468950 Score: 134
Period size: 47 Copynumber: 2.2 Consensus size: 46
65468838 ACTGGCATAT
* *
65468848 TAGATATATGTGGTCAAGCCACTATATTACAATCAAGCTGCCATAA
1 TAGATATGTGTGGTCAAGCCACTATATTACAATCAAGCTGCCAGAA
* * * * *
65468894 AAGATATGTGTGGTCGAGCCACTATAATTGCAATCAAGTTGCCAGGA
1 TAGATATGTGTGGTCAAGCCACTAT-ATTACAATCAAGCTGCCAGAA
65468941 TAGATATGTG
1 TAGATATGTG
65468951 GTTAAACCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
46 22 0.46
47 26 0.54
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (46 bp):
TAGATATGTGTGGTCAAGCCACTATATTACAATCAAGCTGCCAGAA
Found at i:65470379 original size:54 final size:54
Alignment explanation
Indices: 65470319--65470426 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
65470309 GTAAGAGGGA
*
65470319 ATAAAAATGTTTCCATTTTACACACATAGAAGATTCGAAAATGAGACCTCTGGG
1 ATAAAAATATTTCCATTTTACACACATAGAAGATTCGAAAATGAGACCTCTGGG
* * *
65470373 ATAAAAATATTTCCATTTTATACACATAGAAGATTCGAACATGGGACCTCTGGG
1 ATAAAAATATTTCCATTTTACACACATAGAAGATTCGAAAATGAGACCTCTGGG
65470427 TAAGCTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (54 bp):
ATAAAAATATTTCCATTTTACACACATAGAAGATTCGAAAATGAGACCTCTGGG
Found at i:65471656 original size:27 final size:27
Alignment explanation
Indices: 65471626--65471681 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
65471616 TCTTACCATC
65471626 AAAACACTAGCACATGCATGCATGGGT
1 AAAACACTAGCACATGCATGCATGGGT
65471653 AAAACACTAGCACATGCATGCATGGGT
1 AAAACACTAGCACATGCATGCATGGGT
65471680 AA
1 AA
65471682 TTAGATTACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.18
Consensus pattern (27 bp):
AAAACACTAGCACATGCATGCATGGGT
Found at i:65473384 original size:46 final size:45
Alignment explanation
Indices: 65473241--65473460 Score: 164
Period size: 46 Copynumber: 4.8 Consensus size: 45
65473231 GGTAGGATGT
* * **
65473241 CGATGCCATGTCCCGGACATGGTCTTACACTAGCTCAACT-TGTA-GC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCTCTCAATGC
* * * *
65473287 CGATGCATGTCCCAGACATGTCTTACACTGGCT-TACATC-CTGAGGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCT-C-TCTC-AATGC
*
65473333 TGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTC-TCTCAATGC
* * *
65473379 CGATGCCATGTCCCAGACATGGGCTTACACTGGCTCTC-AT-AATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCTCTCAA--T-GC
* *
65473427 CAATACATGTCCCAGACATGTCTTACACTAGCTC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTC
65473461 ACAATAATCC
Statistics
Matches: 142, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
43 1 0.01
44 14 0.10
45 16 0.11
46 60 0.42
47 31 0.22
48 20 0.14
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCTCTCAATGC
Found at i:65473436 original size:94 final size:90
Alignment explanation
Indices: 65473247--65473461 Score: 245
Period size: 94 Copynumber: 2.3 Consensus size: 90
65473237 ATGTCGATGC
* ** *
65473247 CATGTCCCGGACATGGTCTTACACTAGCTCAACTTGTAGCCGATGCATGTCCCAGACATGTCTTA
1 CATGTCCCAGACAT-GTCTTACACTAGCTCAACTTCAAGCCGATGCATGTCCCAGACATGGCTTA
** *** *
65473312 CACTGGCTTACATCCTGAGGTTGATG
65 CACTGGCTTACATAATGAGGCCAATA
*
65473338 CATGTCCCAGACATGTCTTACACTAGCTC-TCGTCTCAATGCCGATGCCATGTCCCAGACATGGG
1 CATGTCCCAGACATGTCTTACACTAGCTCAAC-T-TCAA-GCCGATG-CATGTCCCAGACAT-GG
*
65473402 CTTACACTGGCTCT-CATAATGTGGCCAATA
61 CTTACACTGGCT-TACATAATGAGGCCAATA
65473432 CATGTCCCAGACATGTCTTACACTAGCTCA
1 CATGTCCCAGACATGTCTTACACTAGCTCA
65473462 CAATAATCCA
Statistics
Matches: 105, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
89 1 0.01
90 16 0.15
91 15 0.14
92 7 0.07
93 14 0.13
94 51 0.49
95 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (90 bp):
CATGTCCCAGACATGTCTTACACTAGCTCAACTTCAAGCCGATGCATGTCCCAGACATGGCTTAC
ACTGGCTTACATAATGAGGCCAATA
Found at i:65489156 original size:37 final size:37
Alignment explanation
Indices: 65489106--65489176 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
65489096 CGAAGTCTTA
65489106 CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
1 CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
65489143 CCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 CCCGGACATAATCTCCACACGTAGTCATCGGGTC
65489177 TCACCCGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.23, C:0.34, G:0.23, T:0.21
Consensus pattern (37 bp):
CCCGGACATAATCTCCACACGTAGTCATCGGGTCGTG
Found at i:65489184 original size:37 final size:36
Alignment explanation
Indices: 65489104--65489190 Score: 138
Period size: 37 Copynumber: 2.3 Consensus size: 36
65489094 TACGAAGTCT
65489104 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
*
65489140 GTGCCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
65489177 TCACCCGGAACATA
1 T-ACCCGG-ACATA
65489191 TTTCCAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 40 0.87
38 5 0.11
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:65489331 original size:49 final size:49
Alignment explanation
Indices: 65489259--65489522 Score: 458
Period size: 49 Copynumber: 5.4 Consensus size: 49
65489249 TTTACCACAT
*
65489259 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
* *
65489308 ATATATATACATTTTCACATTCATCACATCGACCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
65489357 ATATATATAC-CTTTTCACATTCATCACATCGGCCATGAGGCCTTATCAC
1 ATATATATACAC-TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
**
65489406 ATATATATACTTTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
65489455 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
65489504 ATATATATACACTTTCACA
1 ATATATATACACTTTCACA
65489523 AATTTTGATA
Statistics
Matches: 203, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
49 203 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:65493129 original size:35 final size:34
Alignment explanation
Indices: 65493028--65493166 Score: 100
Period size: 35 Copynumber: 4.0 Consensus size: 34
65493018 TCACATATGG
* * * * * *
65493028 CCGAATATGCATATTTAAGATAACTTCACATATAT
1 CCGAATATACAAATTCAATATAACTT-ACATGTAA
* ** *
65493063 CCGAGTATACATTTTCAATATAAGTTCACATGTAA
1 CCGAATATACAAATTCAATATAACTT-ACATGTAA
* *
65493098 TCGAATACTA-AAATTCAATATAACCTTACATGCAA
1 CCGAATA-TACAAATTCAATATAA-CTTACATGTAA
* *
65493133 CCGAATATACAAGTTCAAAATAAGCTTACATGTA
1 CCGAATATACAAATTCAATATAA-CTTACATGTA
65493167 CTTACCTGTG
Statistics
Matches: 82, Mismatches: 19, Indels: 6
0.77 0.18 0.06
Matches are distributed among these distances:
34 2 0.02
35 76 0.93
36 4 0.05
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (34 bp):
CCGAATATACAAATTCAATATAACTTACATGTAA
Found at i:65497167 original size:79 final size:80
Alignment explanation
Indices: 65497024--65497231 Score: 190
Period size: 79 Copynumber: 2.6 Consensus size: 80
65497014 ACCTTCGGAG
* * ** * * * *
65497024 CTTAA-CCGGATATAGCTACTCGTTCAAACGCCTTCGGGACATAGCCCGGATATGGTAACCCGCA
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
65497088 CCAAGGCCTACGGGA
66 CCAAGGCCTACGGGA
* * * *
65497103 CTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAGCCCGGATA-GAATGACTCG
1 CTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATG-ATAACCCG
* * * *
65497165 CACGAATGCCTTCGGGT
64 CACCAAGGCCTACGGGA
* * * *
65497182 CTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAACCCGG
1 CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
65497232 TTATAATTTC
Statistics
Matches: 104, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
78 2 0.02
79 65 0.62
80 36 0.35
81 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATAACCCGCA
CCAAGGCCTACGGGA
Found at i:65497176 original size:40 final size:40
Alignment explanation
Indices: 65497124--65497231 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
65497114 TATCACGATT
** *
65497124 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
65497164 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
65497204 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
65497232 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:65504738 original size:71 final size:71
Alignment explanation
Indices: 65504571--65504731 Score: 234
Period size: 71 Copynumber: 2.3 Consensus size: 71
65504561 CTAACCGATT
65504571 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
** *
65504636 TTTATC
66 TACAGC
* * *
65504642 TTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTAC-
1 TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
*
65504706 TACAGGG
66 TACA-GC
*
65504713 TGTCTCGTAGCTTTCTTGT
1 TGTCTCGTAGCTCTCTTGT
65504732 ACACATGATG
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
70 2 0.03
71 77 0.97
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (71 bp):
TGTCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACA
TACAGC
Found at i:65508885 original size:14 final size:13
Alignment explanation
Indices: 65508866--65508909 Score: 61
Period size: 14 Copynumber: 3.2 Consensus size: 13
65508856 AGGATTAATA
65508866 TATTATAACATTGT
1 TATTATAACA-TGT
65508880 TATTATAACACTGT
1 TATTATAACA-TGT
*
65508894 TATTATAGCATGT
1 TATTATAACATGT
65508907 TAT
1 TAT
65508910 GAAACAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
13 6 0.21
14 22 0.79
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (13 bp):
TATTATAACATGT
Found at i:65509185 original size:18 final size:18
Alignment explanation
Indices: 65509164--65509205 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
65509154 GAAATATTTA
*
65509164 TTTTAATGT-TTTTAGTAT
1 TTTTAATGTATTATA-TAT
*
65509182 TTTTGATGTATTATATAT
1 TTTTAATGTATTATATAT
65509200 TTTTAA
1 TTTTAA
65509206 AAAATAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (18 bp):
TTTTAATGTATTATATAT
Found at i:65513474 original size:48 final size:48
Alignment explanation
Indices: 65513397--65513507 Score: 141
Period size: 48 Copynumber: 2.3 Consensus size: 48
65513387 GATTCTGCAG
* * ** * *
65513397 AAAAAGGTGTGTAACTGTACATTGGAAACCATTACTTTCGAAACGCCA
1 AAAAAGGAGTGTAATTGTACACCGGAAACCATTACTATCGAAAAGCCA
* *
65513445 AAAAAGGAGTGTAATTGTACACCGTAAACCATTACTATCGAAAAGCCG
1 AAAAAGGAGTGTAATTGTACACCGGAAACCATTACTATCGAAAAGCCA
*
65513493 TAAAAGGAGTGTAAT
1 AAAAAGGAGTGTAAT
65513508 CACACCCTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (48 bp):
AAAAAGGAGTGTAATTGTACACCGGAAACCATTACTATCGAAAAGCCA
Found at i:65513818 original size:10 final size:10
Alignment explanation
Indices: 65513803--65513827 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
65513793 AAGTTGTTTT
65513803 TGGGCCTCGA
1 TGGGCCTCGA
65513813 TGGGCCTCGA
1 TGGGCCTCGA
65513823 TGGGC
1 TGGGC
65513828 TGTGGGGCCC
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:0.08, C:0.28, G:0.44, T:0.20
Consensus pattern (10 bp):
TGGGCCTCGA
Found at i:65519365 original size:35 final size:35
Alignment explanation
Indices: 65519326--65519414 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
65519316 GTCACCCCAT
* **
65519326 AGGACCTATATATCGTTTTCATGGTGTCA-CTTCGA
1 AGGACCTATATATCGTTTACACAGTGTCACCTT-GA
* *
65519361 AGGACCTATATACCATTTACACAGTGTCACCTTGA
1 AGGACCTATATATCGTTTACACAGTGTCACCTTGA
* *
65519396 ATGACCTATATATTGTTTA
1 AGGACCTATATATCGTTTA
65519415 TGCGGTGTCG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 41 0.93
36 3 0.07
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (35 bp):
AGGACCTATATATCGTTTACACAGTGTCACCTTGA
Found at i:65519496 original size:38 final size:38
Alignment explanation
Indices: 65519445--65519523 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
65519435 CCTATATACT
* * * *
65519445 GTCGTCATGGTGTCATCCTAAAGGACTAGTCGAATATC
1 GTCGTCATAGTGTCACCCTAAAGGACCAGTAGAATATC
* * *
65519483 GTCGTCATAGTGTCCCCCTGAATGACCAGTAGAATATC
1 GTCGTCATAGTGTCACCCTAAAGGACCAGTAGAATATC
65519521 GTC
1 GTC
65519524 CATGATGCCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (38 bp):
GTCGTCATAGTGTCACCCTAAAGGACCAGTAGAATATC
Found at i:65530270 original size:20 final size:20
Alignment explanation
Indices: 65530247--65530308 Score: 124
Period size: 20 Copynumber: 3.1 Consensus size: 20
65530237 TTAATAGTTA
65530247 AATATGAAAGTGCTTAATTG
1 AATATGAAAGTGCTTAATTG
65530267 AATATGAAAGTGCTTAATTG
1 AATATGAAAGTGCTTAATTG
65530287 AATATGAAAGTGCTTAATTG
1 AATATGAAAGTGCTTAATTG
65530307 AA
1 AA
65530309 CTTCTCTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.34
Consensus pattern (20 bp):
AATATGAAAGTGCTTAATTG
Found at i:65532036 original size:28 final size:27
Alignment explanation
Indices: 65531973--65532042 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
65531963 ATAGTGAGTC
65531973 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
65532000 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
65532028 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65532043 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:65540035 original size:28 final size:27
Alignment explanation
Indices: 65539972--65540041 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
65539962 ATAGTGAGTC
*
65539972 CGCACGCTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
65539999 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
65540027 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65540042 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:65546473 original size:29 final size:28
Alignment explanation
Indices: 65546441--65546512 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
65546431 TTCAAGCCCA
* *
65546441 CACACATAGTGCCATATAGTCCAAACTCG
1 CACAC-TAGTGCCATACAGTACAAACTCG
* *
65546470 CACACTTAGTGCCATACATTACAAGCTCG
1 CACAC-TAGTGCCATACAGTACAAACTCG
65546499 CACACTCAGTGCCA
1 CACACT-AGTGCCA
65546513 ATCTCGTCAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 1 0.03
29 36 0.97
ACGTcount: A:0.32, C:0.33, G:0.14, T:0.21
Consensus pattern (28 bp):
CACACTAGTGCCATACAGTACAAACTCG
Found at i:65567498 original size:47 final size:47
Alignment explanation
Indices: 65567447--65567934 Score: 796
Period size: 47 Copynumber: 10.4 Consensus size: 47
65567437 CCCTTCGGGA
* * *
65567447 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
65567494 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
65567541 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
65567588 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
65567635 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
65567682 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
65567729 CTTATCACATATACACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
65567776 CTTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
65567823 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
65567870 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
65567917 CTTATCACATATACACAC
1 CTTATCACATATATACAC
65567935 CTTGTACATC
Statistics
Matches: 412, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 412 1.00
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:65572631 original size:17 final size:17
Alignment explanation
Indices: 65572579--65572632 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
65572569 AAAATGGGCT
*
65572579 CACACGCCTATGTGGCC
1 CACACGCCTGTGTGGCC
* *
65572596 TAC-C-CGTGTG-GGCC
1 CACACGCCTGTGTGGCC
*
65572610 AACACGCCTGTGTGGCC
1 CACACGCCTGTGTGGCC
65572627 CACACG
1 CACACG
65572633 GCCCAAATTG
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
14 6 0.21
15 5 0.18
16 6 0.21
17 11 0.39
ACGTcount: A:0.17, C:0.39, G:0.28, T:0.17
Consensus pattern (17 bp):
CACACGCCTGTGTGGCC
Found at i:65575464 original size:38 final size:39
Alignment explanation
Indices: 65575382--65575563 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
65575372 AATGTTCGAG
65575382 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
65575421 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
65575459 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
65575498 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
65575538 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
65575564 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
38 38 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:65583453 original size:38 final size:39
Alignment explanation
Indices: 65583402--65583542 Score: 223
Period size: 38 Copynumber: 3.6 Consensus size: 39
65583392 AATGTTCGAG
65583402 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGC-AGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTA
*
65583440 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTA
* *
65583478 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTA
*
65583517 TGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
65583543 CTTTGTGCGG
Statistics
Matches: 96, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
37 2 0.02
38 65 0.68
39 20 0.21
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAGTTA
Found at i:65588240 original size:38 final size:39
Alignment explanation
Indices: 65588091--65588272 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
65588081 TCGTTCAAAC
* * ** * **
65588091 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
65588131 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
65588171 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
65588210 GCCTTCGGGCTTAGCCC-GATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
65588248 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
65588273 CTCGAACATT
Statistics
Matches: 124, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 37 0.30
39 49 0.40
40 38 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:65591571 original size:27 final size:27
Alignment explanation
Indices: 65591538--65591710 Score: 193
Period size: 27 Copynumber: 6.4 Consensus size: 27
65591528 TGGATAAGTT
* * *
65591538 GTAGAATTACCGAAATCCCCCTATAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
65591565 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
65591592 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * **
65591619 GTAGAATTATCGAAATACCCTTGTAAC
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
65591646 ATAGAATTACCAAAATTCCTCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
65591673 GTAGAATTACTGAAATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
65591700 GTAAAATTACC
1 GTAGAATTACC
65591711 ATTTTGCCCC
Statistics
Matches: 120, Mismatches: 26, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:65591673 original size:81 final size:81
Alignment explanation
Indices: 65591538--65591710 Score: 229
Period size: 81 Copynumber: 2.1 Consensus size: 81
65591528 TGGATAAGTT
* ** * *
65591538 GTAGAATTACCGAAATCCCCCTATAAGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATT
1 GTAGAATTACCGAAATACCCCTATAACATAGAATTACCAAAATACCCCTGTAGGGTAGAATTACT
65591603 GAAATACCCCTGTAGG
66 GAAATACCCCTGTAGG
* * * * *
65591619 GTAGAATTATCGAAATACCCTTGTAACATAGAATTACCAAAATTCCTCTGTAGGGTAGAATTACT
1 GTAGAATTACCGAAATACCCCTATAACATAGAATTACCAAAATACCCCTGTAGGGTAGAATTACT
* *
65591684 GAAATACCCTTGTGGG
66 GAAATACCCCTGTAGG
*
65591700 GTAAAATTACC
1 GTAGAATTACC
65591711 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (81 bp):
GTAGAATTACCGAAATACCCCTATAACATAGAATTACCAAAATACCCCTGTAGGGTAGAATTACT
GAAATACCCCTGTAGG
Found at i:65591755 original size:27 final size:26
Alignment explanation
Indices: 65591711--65591764 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
65591701 TAAAATTACC
65591711 ATTTTGCCCCTAGGGTGTTAAATGACT
1 ATTTTGCCCCTAGGGTG-TAAATGACT
* *
65591738 ATTTTGCCCCTCGTGTGTAAATGACT
1 ATTTTGCCCCTAGGGTGTAAATGACT
65591764 A
1 A
65591765 ACTTGTGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 10 0.40
27 15 0.60
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
ATTTTGCCCCTAGGGTGTAAATGACT
Found at i:65592454 original size:2 final size:2
Alignment explanation
Indices: 65592447--65592486 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
65592437 GCTTCGCCAC
65592447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65592487 TTGTTCTGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65592521 original size:27 final size:26
Alignment explanation
Indices: 65592483--65592538 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
65592473 ATATATATAT
*
65592483 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGGCCTAGCCACA
* * *
65592509 ATATCTGTATCTGGTGTCTTAGTCACA
1 ATATCTGT-TCTGGTGGCCTAGCCACA
65592536 ATA
1 ATA
65592539 ACTGGCAGCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
ATATCTGTTCTGGTGGCCTAGCCACA
Found at i:65594542 original size:2 final size:2
Alignment explanation
Indices: 65594535--65594567 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
65594525 CAATCACATT
65594535 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
65594568 CTTTGATGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65594826 original size:39 final size:39
Alignment explanation
Indices: 65594747--65594837 Score: 96
Period size: 39 Copynumber: 2.4 Consensus size: 39
65594737 ACTAATTACT
*
65594747 AGCAC-AAGCCTGCGGGAATTTAAACCCGGTATAATACC
1 AGCACGAAGCCTGCGGGAATTTAAACCCGGCATAATACC
* * * * *
65594785 AGCTCGAAGCCTGCGGGACTTT-AGCCCGGACATATTTCC
1 AGCACGAAGCCTGCGGGAATTTAAACCCGG-CATAATACC
*
65594824 AGCACGTAGCCTGC
1 AGCACGAAGCCTGC
65594838 AGACCTTAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
38 10 0.23
39 33 0.77
ACGTcount: A:0.26, C:0.30, G:0.24, T:0.20
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGAATTTAAACCCGGCATAATACC
Found at i:65594858 original size:78 final size:77
Alignment explanation
Indices: 65594772--65594935 Score: 197
Period size: 78 Copynumber: 2.1 Consensus size: 77
65594762 GAATTTAAAC
* * * * *
65594772 CCGGTATAATACCAGCTCGA-AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGTAGCC
1 CCGGTATAATACCAGCAC-ATAGCCTGC-GGACCTTAAGCCCAGACATAATTCCAGCACATAGCC
65594835 TGCAGACCTTAAGT
64 TGCAGACCTTAAGT
* * *
65594849 CCGGTTATAATTCCAGCACATAGCCTGCGGACCTTAAGTCCAGATATAATTCCAGCACATAGCCT
1 CCGG-TATAATACCAGCACATAGCCTGCGGACCTTAAGCCCAGACATAATTCCAGCACATAGCCT
*
65594914 GCGGACCTTAAGT
65 GCAGACCTTAAGT
65594927 CCGGATATA
1 CCGG-TATA
65594936 CTTCATCACT
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
77 8 0.11
78 66 0.89
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (77 bp):
CCGGTATAATACCAGCACATAGCCTGCGGACCTTAAGCCCAGACATAATTCCAGCACATAGCCTG
CAGACCTTAAGT
Found at i:65594863 original size:39 final size:39
Alignment explanation
Indices: 65594792--65594935 Score: 200
Period size: 39 Copynumber: 3.7 Consensus size: 39
65594782 ACCAGCTCGA
* * * * *
65594792 AGCCTGCGGGA-CTTTAGCCCGGACATATTTCCAGCACGT
1 AGCCTGC-GGACCTTAAGTCCGGATATAATTCCAGCACAT
* *
65594831 AGCCTGCAGACCTTAAGTCCGGTTATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
*
65594870 AGCCTGCGGACCTTAAGTCCAGATATAATTCCAGCACAT
1 AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
65594909 AGCCTGCGGACCTTAAGTCCGGATATA
1 AGCCTGCGGACCTTAAGTCCGGATATA
65594936 CTTCATCACT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
38 2 0.02
39 91 0.98
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
AGCCTGCGGACCTTAAGTCCGGATATAATTCCAGCACAT
Found at i:65601169 original size:43 final size:43
Alignment explanation
Indices: 65601108--65601191 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
65601098 TGTGATTCTA
* * *
65601108 ATATGTGTTTACGAGTAAGACCCTGTCTGGGACAG-TGGCATCG
1 ATATGTGATTACGAGTAAGACCATGTCTAGGAC-GTTGGCATCG
65601151 ATATGTGATTAC-ATGTAAGACCATGTCTAGGACGTTGGCAT
1 ATATGTGATTACGA-GTAAGACCATGTCTAGGACGTTGGCAT
65601192 TGTACGACTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 2 0.06
43 34 0.94
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (43 bp):
ATATGTGATTACGAGTAAGACCATGTCTAGGACGTTGGCATCG
Found at i:65609990 original size:49 final size:49
Alignment explanation
Indices: 65609934--65610206 Score: 447
Period size: 49 Copynumber: 5.5 Consensus size: 49
65609924 TACATATATG
*
65609934 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
65609983 TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
* *
65610032 TGTGATGAGGCCTAATGGCCGATGTGGTGAACGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
*
65610081 TGTGATGAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
* *
65610130 TGTGATGAGGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGAT-A--AGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
* *
65610182 TGTGATGAGGCCTAATGGCCAATGT
1 TGTGATAAGGCCTAATGGCCGATGT
65610207 AAAATATATG
Statistics
Matches: 212, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
49 166 0.78
52 46 0.22
ACGTcount: A:0.28, C:0.10, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATGTATA
Found at i:65610352 original size:37 final size:37
Alignment explanation
Indices: 65610309--65610386 Score: 147
Period size: 37 Copynumber: 2.1 Consensus size: 37
65610299 GTTCCGGGCG
*
65610309 AGACCCGATGACTACGTGTGGAGATTATGACCGGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGATA
65610346 AGACCCGATGACTACGTGTGGAGATTATGACCGGATA
1 AGACCCGATGACTACGTGTGGAGATTATGACCGGATA
65610383 AGAC
1 AGAC
65610387 TTCTTTTATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (37 bp):
AGACCCGATGACTACGTGTGGAGATTATGACCGGATA
Found at i:65618276 original size:21 final size:20
Alignment explanation
Indices: 65618248--65618287 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
65618238 CAAAACTTGT
65618248 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
65618268 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
65618288 AAAGCTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:65622739 original size:88 final size:88
Alignment explanation
Indices: 65622590--65622765 Score: 352
Period size: 88 Copynumber: 2.0 Consensus size: 88
65622580 CAACATAATC
65622590 CATAAGTAATCATACATTGAAAATTAAACTAAAAGTACACCAAAGTTTCAAACATTCCAAGTTGA
1 CATAAGTAATCATACATTGAAAATTAAACTAAAAGTACACCAAAGTTTCAAACATTCCAAGTTGA
65622655 GCCTTTTATCACGAAAACATAGG
66 GCCTTTTATCACGAAAACATAGG
65622678 CATAAGTAATCATACATTGAAAATTAAACTAAAAGTACACCAAAGTTTCAAACATTCCAAGTTGA
1 CATAAGTAATCATACATTGAAAATTAAACTAAAAGTACACCAAAGTTTCAAACATTCCAAGTTGA
65622743 GCCTTTTATCACGAAAACATAGG
66 GCCTTTTATCACGAAAACATAGG
65622766 TGTCTCCCCT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 88 1.00
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.26
Consensus pattern (88 bp):
CATAAGTAATCATACATTGAAAATTAAACTAAAAGTACACCAAAGTTTCAAACATTCCAAGTTGA
GCCTTTTATCACGAAAACATAGG
Found at i:65633206 original size:30 final size:30
Alignment explanation
Indices: 65633171--65633229 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
65633161 CTTAACAAGT
65633171 AAATACCTCTAAAATAATAAAAAAATTAAC
1 AAATACCTCTAAAATAATAAAAAAATTAAC
* *
65633201 AAATACCTTTAAAATAATAAGAAAATTAA
1 AAATACCTCTAAAATAATAAAAAAATTAA
65633230 TAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAAAAAAATTAAC
Found at i:65635448 original size:45 final size:45
Alignment explanation
Indices: 65635384--65635594 Score: 219
Period size: 45 Copynumber: 4.6 Consensus size: 45
65635374 CTTCATGTCA
65635384 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATTAACGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATTAACGCCG
* * * * *
65635429 ATGCCATGCCCAACATGGTCTTGCACTGTCTCTCAATCAACGCTG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATTAACGCCG
** * * *
65635474 ATGCCATGTCCAACATGGTCTTACACTGGCTCGT-GTTTCCATGCCA
1 ATGCCATGTCCAACATGGTCTTACACTGGCTC-TCAATT-AACGCCG
* * * **
65635520 ATGCCGTGTCCAACATGGTCTTACACTGGCACACGAAATT-TGGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCTC--AATTAACGCCG
65635566 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGT-CCA-ACATGGTCTTACACT
65635595 AACACACATG
Statistics
Matches: 135, Mismatches: 24, Indels: 11
0.79 0.14 0.06
Matches are distributed among these distances:
45 70 0.52
46 45 0.33
47 3 0.02
48 17 0.13
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (45 bp):
ATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATTAACGCCG
Found at i:65635538 original size:46 final size:44
Alignment explanation
Indices: 65635336--65635549 Score: 185
Period size: 45 Copynumber: 4.7 Consensus size: 44
65635326 GACGAGGCCG
* * * * * *
65635336 ATGCCATGTCCCAGACATGGTTTTACACTAGCTCTTGCCTTCATGTCA
1 ATGCCATGT-CCA-ACATGGTCTTACACTGGCTC-TG-ATTAACGCCA
* *
65635384 ATGCCATGTCCAACATGGTCTTACACTGGCTCTCAATTAACGCCG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCT-GATTAACGCCA
* * * * * **
65635429 ATGCCATGCCCAACATGGTCTTGCACTGTCTCTCAATCAACGCTG
1 ATGCCATGTCCAACATGGTCTTACACTGGCTCT-GATTAACGCCA
* * *
65635474 ATGCCATGTCCAACATGGTCTTACACTGGCTCGTGTTTCCATGCCA
1 ATGCCATGTCCAACATGGTCTTACACTGGCTC-TGATT-AACGCCA
*
65635520 ATGCCGTGTCCAACATGGTCTTACACTGGC
1 ATGCCATGTCCAACATGGTCTTACACTGGC
65635550 ACACGAAATT
Statistics
Matches: 139, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
45 76 0.55
46 51 0.37
47 3 0.02
48 9 0.06
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (44 bp):
ATGCCATGTCCAACATGGTCTTACACTGGCTCTGATTAACGCCA
Found at i:65637721 original size:29 final size:29
Alignment explanation
Indices: 65637687--65637764 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
65637677 GTGACGAGAT
* *
65637687 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
65637716 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
65637745 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
65637765 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:65640015 original size:2 final size:2
Alignment explanation
Indices: 65640008--65640032 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
65639998 GAGACTAGTC
65640008 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
65640033 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:65643730 original size:47 final size:47
Alignment explanation
Indices: 65643640--65643761 Score: 140
Period size: 47 Copynumber: 2.6 Consensus size: 47
65643630 TGCCAATGCC
* * **
65643640 ATGTCCCAGACATGGTCTTACA-TTGACTATCATCTTGTAGCCGATGA
1 ATGTCCCAGACATGGTCTTACACTAG-CTCTCATAATGTAGCCGATGA
* * *
65643687 ATGTCCTAGACATGGTCTTACACTAGCTCTCATAATGTGGCCGATGC
1 ATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTAGCCGATGA
* *
65643734 ATGTCCCAAACAT-GTCTTACACTGGCTC
1 ATGTCCCAGACATGGTCTTACACTAGCTC
65643762 ACAAACAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
46 14 0.22
47 48 0.75
48 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (47 bp):
ATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTAGCCGATGA
Found at i:65646776 original size:40 final size:40
Alignment explanation
Indices: 65646709--65646916 Score: 335
Period size: 40 Copynumber: 5.2 Consensus size: 40
65646699 CGGGATTTAT
* * * * *
65646709 CCGGATATAACCACACGCCCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
* *
65646749 CCGGACATAGCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
*
65646789 CCGGATATAACAACTCGGACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
*
65646829 CCGGATATAACAACTCGCATAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
65646869 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
65646909 CCGGATAT
1 CCGGATAT
65646917 CATTCAAATG
Statistics
Matches: 155, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 155 1.00
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGC
Found at i:65653350 original size:55 final size:53
Alignment explanation
Indices: 65653263--65653496 Score: 201
Period size: 55 Copynumber: 4.4 Consensus size: 53
65653253 ATTAGGGTTT
** *
65653263 AAGGATACCATGTAAGATGATGCCAAGGCATGGTAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAA-GTTTCTAAGGC
* * * * *
65653318 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTT--TCTAAGGC
* * * * * *
65653373 AAAGG-TCCCAAGTAAGACCATGCCAAGGCACGGCATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTC-TAAGGC
* * * *
65653426 AAGGATACCATGTAAGACCATGTCGAGACATGGAAATGGTAAGTTTC-AA-AC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
*
65653477 -A-GATACCACGTAAGACCATG
1 AAGGATACCATGTAAGACCATG
65653497 ACATGTAATG
Statistics
Matches: 145, Mismatches: 28, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
49 18 0.12
50 1 0.01
51 1 0.01
52 7 0.05
53 38 0.26
54 11 0.08
55 65 0.45
56 4 0.03
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGTTTCTAAGGC
Done.