Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 133 of 378
Found at i:37792856 original size:64 final size:64
Alignment explanation
Indices: 37792775--37792958 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
37792765 AGACATTATG
* *
37792775 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
37792839 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
37792904 AA
63 AA
* * * *
37792906 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
37792959 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:37794852 original size:43 final size:42
Alignment explanation
Indices: 37794742--37794852 Score: 111
Period size: 43 Copynumber: 2.6 Consensus size: 42
37794732 TATTTACGTA
* * * * *
37794742 TAAGACCATGTCTGGGACATCGACATCATATCTGATTTCGTG
1 TAAGACCACGTCTGGGACGTCGGCATCATATCTGATTACATG
*
37794784 TAAGACC-CTGTCTGGGACAG-AGGCATCGATAT-TGAATTACATG
1 TAAGACCAC-GTCTGGGAC-GTCGGCATC-ATATCTG-ATTACATG
37794827 TAAGACCACGTCTGGGACGTCGGCAT
1 TAAGACCACGTCTGGGACGTCGGCAT
37794853 TGTACTTGTT
Statistics
Matches: 56, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
42 24 0.43
43 31 0.55
44 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACGTCGGCATCATATCTGATTACATG
Found at i:37796856 original size:35 final size:37
Alignment explanation
Indices: 37796794--37796863 Score: 117
Period size: 35 Copynumber: 1.9 Consensus size: 37
37796784 CCAAAAATCG
*
37796794 AAGATAGAGAAAATTATATGTCATCGGTTCCTTACCA
1 AAGATAAAGAAAATTATATGTCATCGGTTCCTTACCA
37796831 AAGATAAAGAAAA-T-TATGTCATCGGTTCCTTAC
1 AAGATAAAGAAAATTATATGTCATCGGTTCCTTAC
37796864 TCCAGTGCAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
35 19 0.59
36 1 0.03
37 12 0.38
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (37 bp):
AAGATAAAGAAAATTATATGTCATCGGTTCCTTACCA
Found at i:37799183 original size:40 final size:40
Alignment explanation
Indices: 37799075--37799204 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
37799065 CGGGATTTAA
* * * *
37799075 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCGACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
37799115 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCGACTCGCACGAATGCCTTCGGGTCTTAGC
*
37799155 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCGACTCGCACGAATGCCTTCGGGTCTTAGC
37799195 CCGGATATAT
1 CCGGATATAT
37799205 TTCCAATGTT
Statistics
Matches: 73, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATATCGACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:37806540 original size:26 final size:24
Alignment explanation
Indices: 37806511--37806558 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 24
37806501 CAGCTTGTAT
37806511 GAGCTCACTGATATTTTAGCTCATAA
1 GAGCTCACTG-T-TTTTAGCTCATAA
*
37806537 GAGCTTACTGTTTTTAGCTCAT
1 GAGCTCACTGTTTTTAGCTCAT
37806559 TGGAGCTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
25 1 0.05
26 9 0.43
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (24 bp):
GAGCTCACTGTTTTTAGCTCATAA
Found at i:37806556 original size:24 final size:24
Alignment explanation
Indices: 37806524--37806595 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 24
37806514 CTCACTGATA
37806524 TTTTAGCTCATAAGAGCTTACTGT
1 TTTTAGCTCATAAGAGCTTACTGT
** *
37806548 TTTTAGCTCATTGGAGCTTACCG-
1 TTTTAGCTCATAAGAGCTTACTGT
* * *
37806571 TTTCAGCTCGTATGAGCTTACTGT
1 TTTTAGCTCATAAGAGCTTACTGT
37806595 T
1 T
37806596 CAACTCAATA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
23 18 0.46
24 21 0.54
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (24 bp):
TTTTAGCTCATAAGAGCTTACTGT
Found at i:37806587 original size:23 final size:23
Alignment explanation
Indices: 37806528--37806664 Score: 100
Period size: 23 Copynumber: 5.8 Consensus size: 23
37806518 CTGATATTTT
* *
37806528 AGCTC-ATAAGAGCTTACTGTTTTT
1 AGCTCAAT-AGAGCTTACCG-TTTC
* *
37806552 AGCTCATTGGAGCTTACCGTTTC
1 AGCTCAATAGAGCTTACCGTTTC
* *
37806575 AGCTC-GTATGAGCTTACTG-TTC
1 AGCTCAATA-GAGCTTACCGTTTC
*
37806597 AACTCAATAGAGCTTACCGTTTC
1 AGCTCAATAGAGCTTACCGTTTC
* **
37806620 AGCTCAATAGAGCATATTGTTCATC
1 AGCTCAATAGAGCTTACCGTT--TC
*
37806645 AGCTCAAGAAGAGCTTACCG
1 AGCTCAA-TAGAGCTTACCG
37806665 ATCATGACTC
Statistics
Matches: 88, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
22 17 0.19
23 39 0.44
24 14 0.16
25 10 0.11
26 8 0.09
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (23 bp):
AGCTCAATAGAGCTTACCGTTTC
Found at i:37806588 original size:47 final size:45
Alignment explanation
Indices: 37806528--37806642 Score: 124
Period size: 45 Copynumber: 2.5 Consensus size: 45
37806518 CTGATATTTT
* * * *
37806528 AGCTCATAAGAGCTTACTGTTTTTAGCTCATTGGAGCTTACCGTTTC
1 AGCTCATAAGAGCTTACTG--TTCAACTCAATAGAGCTTACCGTTTC
* *
37806575 AGCTCGTATGAGCTTACTGTTCAACTCAATAGAGCTTACCGTTTC
1 AGCTCATAAGAGCTTACTGTTCAACTCAATAGAGCTTACCGTTTC
* *
37806620 AGCTCA-ATAGAGCATATTGTTCA
1 AGCTCATA-AGAGCTTACTGTTCA
37806643 TCAGCTCAAG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.02
45 39 0.68
47 17 0.30
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (45 bp):
AGCTCATAAGAGCTTACTGTTCAACTCAATAGAGCTTACCGTTTC
Found at i:37808119 original size:24 final size:24
Alignment explanation
Indices: 37808087--37808149 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
37808077 AGGGGTGTTA
* *
37808087 CATAACAGGTAGCTTACAAAGAGC
1 CATATCAGGAAGCTTACAAAGAGC
*
37808111 CATATCAGGAAGCTCACAAAGAGC
1 CATATCAGGAAGCTTACAAAGAGC
*
37808135 C-TATCGGGAAGCTTA
1 CATATCAGGAAGCTTA
37808150 TTCGGGCTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 12 0.35
24 22 0.65
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (24 bp):
CATATCAGGAAGCTTACAAAGAGC
Found at i:37808372 original size:24 final size:26
Alignment explanation
Indices: 37808318--37808382 Score: 89
Period size: 24 Copynumber: 2.5 Consensus size: 26
37808308 TATCGGAAAA
37808318 CTCACAAAGAGCCAATTTAACAGGAAG
1 CTCACAAAGAGCCAATTT-ACAGGAAG
*
37808345 CTCACAAAGAGCCAA-TT-CGGGAAG
1 CTCACAAAGAGCCAATTTACAGGAAG
*
37808369 CTCACGAAGAGCCA
1 CTCACAAAGAGCCA
37808383 TATAACGGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
24 19 0.53
26 2 0.06
27 15 0.42
ACGTcount: A:0.40, C:0.26, G:0.22, T:0.12
Consensus pattern (26 bp):
CTCACAAAGAGCCAATTTACAGGAAG
Found at i:37810395 original size:20 final size:19
Alignment explanation
Indices: 37810358--37810405 Score: 78
Period size: 20 Copynumber: 2.5 Consensus size: 19
37810348 TTTTCATAAA
37810358 TATTTTGAATTTTAAAAAT
1 TATTTTGAATTTTAAAAAT
*
37810377 TATTTTGAATTTTTGAAAAT
1 TATTTTGAA-TTTTAAAAAT
37810397 TATTTTGAA
1 TATTTTGAA
37810406 ATTATTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TATTTTGAATTTTAAAAAT
Found at i:37810409 original size:11 final size:11
Alignment explanation
Indices: 37810373--37810413 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
37810363 TGAATTTTAA
37810373 AAATTATTTTG
1 AAATTATTTTG
37810384 -AA-T-TTTTG
1 AAATTATTTTG
37810392 AAAATTATTTTG
1 -AAATTATTTTG
37810404 AAATTATTTT
1 AAATTATTTT
37810414 TTGTAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
8 5 0.19
9 1 0.04
10 4 0.15
11 11 0.42
12 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (11 bp):
AAATTATTTTG
Found at i:37813404 original size:17 final size:17
Alignment explanation
Indices: 37813364--37813422 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
37813354 AGAAAATCAT
* * *
37813364 TAAAATCATTAATATTT
1 TAAAAACATTAAAATTA
37813381 TAAAAACATTAAAATTA
1 TAAAAACATTAAAATTA
* *
37813398 TATAAACTTATAAAAATTA
1 TAAAAAC--ATTAAAATTA
37813417 TAAAAA
1 TAAAAA
37813423 AAACCATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 20 0.59
19 14 0.41
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (17 bp):
TAAAAACATTAAAATTA
Found at i:37813419 original size:9 final size:9
Alignment explanation
Indices: 37813391--37813574 Score: 56
Period size: 9 Copynumber: 19.4 Consensus size: 9
37813381 TAAAAACATT
37813391 AAAATTATA
1 AAAATTATA
*
37813400 TAAACTTATA
1 -AAAATTATA
37813410 AAAATTATAAAA
1 AAAATTAT---A
**
37813422 AAAACCATA
1 AAAATTATA
*
37813431 AAAGCTTATA
1 AAA-ATTATA
*
37813441 AATATTAT-
1 AAAATTATA
*
37813449 AAAATTTTA
1 AAAATTATA
37813458 ATAAATCTA-A
1 A-AAAT-TATA
*
37813468 TAAATTA-A
1 AAAATTATA
*
37813476 CAAA-TAT-
1 AAAATTATA
*
37813483 AAAATGAATA
1 AAAAT-TATA
* *
37813493 AAACATTTTTT
1 AAA-A-TTATA
* *
37813504 AAAATTTTT
1 AAAATTATA
*
37813513 AAAATTTTA
1 AAAATTATA
*
37813522 TAAAATTTTA
1 -AAAATTATA
37813532 TAAAATTCATA
1 -AAAATT-ATA
37813543 AAAACTTATA
1 AAAA-TTATA
37813553 AATAA-TATA
1 AA-AATTATA
37813562 AAAATTATA
1 AAAATTATA
37813571 AAAA
1 AAAA
37813575 AAATCATTTA
Statistics
Matches: 135, Mismatches: 21, Indels: 37
0.70 0.11 0.19
Matches are distributed among these distances:
7 5 0.04
8 14 0.10
9 49 0.36
10 47 0.35
11 12 0.09
12 8 0.06
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:37813512 original size:10 final size:10
Alignment explanation
Indices: 37813497--37813538 Score: 68
Period size: 10 Copynumber: 4.3 Consensus size: 10
37813487 TGAATAAAAC
*
37813497 ATTTTTTAAA
1 ATTTTATAAA
37813507 ATTTT-TAAA
1 ATTTTATAAA
37813516 ATTTTATAAA
1 ATTTTATAAA
37813526 ATTTTATAAA
1 ATTTTATAAA
37813536 ATT
1 ATT
37813539 CATAAAAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 9 0.29
10 22 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTTTATAAA
Found at i:37813525 original size:19 final size:20
Alignment explanation
Indices: 37813497--37813538 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
37813487 TGAATAAAAC
*
37813497 ATTTTTTAAAATTTT-TAAA
1 ATTTTATAAAATTTTATAAA
37813516 ATTTTATAAAATTTTATAAA
1 ATTTTATAAAATTTTATAAA
37813536 ATT
1 ATT
37813539 CATAAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTATAAAATTTTATAAA
Found at i:37813543 original size:19 final size:19
Alignment explanation
Indices: 37813503--37813545 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
37813493 AAACATTTTT
*
37813503 TAAAATTTTTAAAATTTTA
1 TAAAATTTTTAAAATTTCA
37813522 TAAAATTTTATAAAA-TTCA
1 TAAAATTTT-TAAAATTTCA
37813541 TAAAA
1 TAAAA
37813546 ACTTATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAATTTTTAAAATTTCA
Found at i:37813551 original size:19 final size:17
Alignment explanation
Indices: 37813529--37813574 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 17
37813519 TTATAAAATT
*
37813529 TTATAAAATTCATAAAAA
1 TTATAAAAAT-ATAAAAA
37813547 CTTATAAATAATATAAAAA
1 -TTATAAA-AATATAAAAA
37813566 TTATAAAAA
1 TTATAAAAA
37813575 AAATCATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 2 0.08
18 7 0.28
19 14 0.56
20 2 0.08
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (17 bp):
TTATAAAAATATAAAAA
Found at i:37814293 original size:9 final size:9
Alignment explanation
Indices: 37814244--37814408 Score: 72
Period size: 9 Copynumber: 17.8 Consensus size: 9
37814234 TGTTAGATAG
37814244 TTTATAAATT
1 TTTAT-AATT
*
37814254 TTGTATAATA
1 TT-TATAATT
37814264 TTTATAAGTT
1 TTTATAA-TT
**
37814274 TTTATGCTT
1 TTTATAATT
37814283 TTTATAATT
1 TTTATAATT
37814292 TTTATAAATT
1 TTTAT-AATT
*
37814302 ATTA-AA-T
1 TTTATAATT
37814309 TTTATTAGATT
1 TTTA-TA-ATT
37814320 TTT-T--TT
1 TTTATAATT
*
37814326 TATA-AATT
1 TTTATAATT
* *
37814334 TTTAGAATA
1 TTTATAATT
37814343 TTTATAAGTT
1 TTTATAA-TT
* *
37814353 TGTATGATTCCT
1 TTTAT-AAT--T
37814365 TTTATAATT
1 TTTATAATT
*
37814374 TTTATAAGT
1 TTTATAATT
*
37814383 TTTATGATT
1 TTTATAATT
* *
37814392 TTTTTTATAT
1 TTTATAAT-T
37814402 TTTATAA
1 TTTATAA
37814409 GTTTATATTA
Statistics
Matches: 115, Mismatches: 24, Indels: 32
0.67 0.14 0.19
Matches are distributed among these distances:
6 4 0.03
7 4 0.03
8 7 0.06
9 52 0.45
10 33 0.29
11 10 0.09
12 5 0.04
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.61
Consensus pattern (9 bp):
TTTATAATT
Found at i:37814391 original size:30 final size:31
Alignment explanation
Indices: 37814333--37814412 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
37814323 TTTTATAAAT
* *
37814333 TTTTAGAATATTTATAAGTTTGTATGATTCC
1 TTTTATAATTTTTATAAGTTTGTATGATTCC
**
37814364 TTTTATAATTTTTATAAGTTT-TATGATTTT
1 TTTTATAATTTTTATAAGTTTGTATGATTCC
37814394 TTTTAT-A-TTTTATAAGTTT
1 TTTTATAATTTTTATAAGTTT
37814413 ATATTAATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
28 12 0.27
29 1 0.02
30 13 0.29
31 19 0.42
ACGTcount: A:0.28, C:0.03, G:0.09, T:0.61
Consensus pattern (31 bp):
TTTTATAATTTTTATAAGTTTGTATGATTCC
Found at i:37818829 original size:48 final size:45
Alignment explanation
Indices: 37818738--37818852 Score: 117
Period size: 48 Copynumber: 2.5 Consensus size: 45
37818728 ATAGCTTCGG
* * * * **
37818738 TTATATATTGCACTTAGTGTGCAAGATTGAGATAGTTTTGACTAT
1 TTATATATTGCACTTAGTGTGCAAAATTAAGACAGCTACGACTAT
*
37818783 GTATATATATTGGCACTTAGTGTGCAAAATTAATACAGCTACGACTAT
1 -T-TATATATT-GCACTTAGTGTGCAAAATTAAGACAGCTACGACTAT
*
37818831 TTAT-T-TTGCACTTAGTATGCAA
1 TTATATATTGCACTTAGTGTGCAA
37818853 GTTTCCCGAG
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 14 0.24
44 2 0.03
45 1 0.02
46 4 0.07
47 9 0.15
48 29 0.49
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.39
Consensus pattern (45 bp):
TTATATATTGCACTTAGTGTGCAAAATTAAGACAGCTACGACTAT
Found at i:37825923 original size:55 final size:55
Alignment explanation
Indices: 37825836--37825972 Score: 136
Period size: 55 Copynumber: 2.5 Consensus size: 55
37825826 TGCGACATGG
* * * *
37825836 CTGTGGGCGAACCTGCCCAAA-CAACACGGGCGT-CCA-AGACGCCAGTGCCTAGAAA
1 CTGTGGGCGAACCTG-TCAAATTAACACGGGCGTGCCACACAC-CCA-TGCCGAGAAA
* * * *
37825891 CTGTGGCCGAACCTGTCAAATTAACACTGGCGTGCGACACACCCATGCCGAGCAA
1 CTGTGGGCGAACCTGTCAAATTAACACGGGCGTGCCACACACCCATGCCGAGAAA
* *
37825946 CCGTGGGCGAACCTGTCAGATTAACAC
1 CTGTGGGCGAACCTGTCAAATTAACAC
37825973 AGGTGTGGGC
Statistics
Matches: 68, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
54 4 0.06
55 56 0.82
56 5 0.07
57 3 0.04
ACGTcount: A:0.28, C:0.32, G:0.26, T:0.15
Consensus pattern (55 bp):
CTGTGGGCGAACCTGTCAAATTAACACGGGCGTGCCACACACCCATGCCGAGAAA
Found at i:37826037 original size:13 final size:13
Alignment explanation
Indices: 37826019--37826043 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37826009 AACAAAGATA
37826019 GACATGGCCGTGC
1 GACATGGCCGTGC
37826032 GACATGGCCGTG
1 GACATGGCCGTG
37826044 TGCACCTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
GACATGGCCGTGC
Found at i:37833763 original size:27 final size:27
Alignment explanation
Indices: 37833741--37833923 Score: 244
Period size: 27 Copynumber: 6.8 Consensus size: 27
37833731 CAATTTGTAA
*
37833741 AATTACCGTTTTACCTTTGATTTATAG
1 AATTACCGTTTTACCTTCGATTTATAG
37833768 AATTACCGTTTTACC-TCGATTTATAG
1 AATTACCGTTTTACCTTCGATTTATAG
* *
37833794 AATTACCATTTTACCCTCGATTTATAG
1 AATTACCGTTTTACCTTCGATTTATAG
* *
37833821 AATTATCGTTTTACCTTCGATTTACAG
1 AATTACCGTTTTACCTTCGATTTATAG
* *
37833848 AATTACCATTTTACGC-TCGATTTACAG
1 AATTACCGTTTTAC-CTTCGATTTATAG
* * *
37833875 AATTACCATTTTACCTTTGATTTACAG
1 AATTACCGTTTTACCTTCGATTTATAG
*
37833902 AATTACCGTTTTACCCTCGATT
1 AATTACCGTTTTACCTTCGATT
37833924 GTCAAATTAC
Statistics
Matches: 141, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
26 25 0.18
27 115 0.82
28 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (27 bp):
AATTACCGTTTTACCTTCGATTTATAG
Found at i:37833861 original size:54 final size:54
Alignment explanation
Indices: 37833741--37833923 Score: 269
Period size: 54 Copynumber: 3.4 Consensus size: 54
37833731 CAATTTGTAA
* * * *
37833741 AATTACCGTTTTACCTTTGATTTATAGAATTACCGTTTTACC-TCGATTTATAG
1 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCTTCGATTTACAG
*
37833794 AATTACCATTTTACCCTCGATTTATAGAATTATCGTTTTACCTTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCTTCGATTTACAG
* * * *
37833848 AATTACCATTTTACGCTCGATTTACAGAATTACCATTTTACCTTTGATTTACAG
1 AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCTTCGATTTACAG
*
37833902 AATTACCGTTTTACCCTCGATT
1 AATTACCATTTTACCCTCGATT
37833924 GTCAAATTAC
Statistics
Matches: 117, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 38 0.32
54 79 0.68
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (54 bp):
AATTACCATTTTACCCTCGATTTATAGAATTACCGTTTTACCTTCGATTTACAG
Found at i:37833904 original size:81 final size:80
Alignment explanation
Indices: 37833741--37833923 Score: 276
Period size: 81 Copynumber: 2.3 Consensus size: 80
37833731 CAATTTGTAA
* * * *
37833741 AATTACCGTTTTACCTTTGATTTATAGAATTACCGTTTTACCTCGATTTATAGAATTACCATTTT
1 AATTACCGTTTTACCTTCGATTTACAGAATTACCATTTTACCTCGATTTACAGAATTACCATTTT
*
37833806 ACCCTCGATTTATAG
66 ACCCTCGATTTACAG
*
37833821 AATTATCGTTTTACCTTCGATTTACAGAATTACCATTTTACGCTCGATTTACAGAATTACCATTT
1 AATTACCGTTTTACCTTCGATTTACAGAATTACCATTTTAC-CTCGATTTACAGAATTACCATTT
* *
37833886 TACCTTTGATTTACAG
65 TACCCTCGATTTACAG
*
37833902 AATTACCGTTTTACCCTCGATT
1 AATTACCGTTTTACCTTCGATT
37833924 GTCAAATTAC
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
80 37 0.40
81 55 0.60
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (80 bp):
AATTACCGTTTTACCTTCGATTTACAGAATTACCATTTTACCTCGATTTACAGAATTACCATTTT
ACCCTCGATTTACAG
Found at i:37833945 original size:27 final size:27
Alignment explanation
Indices: 37833922--37834105 Score: 190
Period size: 27 Copynumber: 6.8 Consensus size: 27
37833912 TTACCCTCGA
* *
37833922 TTGTCAAATTACTAAAATACCCCT-GT
1 TTGTAAAATTACCAAAATACCCCTAGT
** *
37833948 AGGATAGAATTACCAAAATACCCCTAGT
1 TTG-TAAAATTACCAAAATACCCCTAGT
37833976 TTGTAAAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* ** *
37834003 TTGTAAAATTACCGAAATACTACTGGT
1 TTGTAAAATTACCAAAATACCCCTAGT
* * * *
37834030 TTGTGAAATTACCGAAATACCCTTAAT
1 TTGTAAAATTACCAAAATACCCCTAGT
*
37834057 TTGTAAAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATACCCCTAGT
** **
37834084 TTACAAAATTACTGAAATACCC
1 TTGTAAAATTACCAAAATACCC
37834106 TTGACTTTTA
Statistics
Matches: 131, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 127 0.97
28 3 0.02
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TTGTAAAATTACCAAAATACCCCTAGT
Found at i:37834042 original size:81 final size:81
Alignment explanation
Indices: 37833955--37834103 Score: 235
Period size: 81 Copynumber: 1.8 Consensus size: 81
37833945 TGTAGGATAG
* * **
37833955 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCGAAA
37834020 TACTACTGGTTTGTGA
66 TACTACTGGTTTGTGA
* * *
37834036 AATTACCGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACTGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCGAAA
37834101 TAC
66 TAC
37834104 CCTTGACTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCGAAA
TACTACTGGTTTGTGA
Found at i:37834106 original size:54 final size:55
Alignment explanation
Indices: 37833955--37834219 Score: 236
Period size: 54 Copynumber: 4.8 Consensus size: 55
37833945 TGTAGGATAG
* * ** * * *
37833955 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCT-AGTTTGT-AA
1 AATTACCAAAATACCACTGGTTTACAAAATTACCGAAATACCCTTGACTTT-TAAA
* * *** *
37834009 AATTACCGAAATACTACTGGTTTGTGAAATTACCGAAATACCCTT-AATTTGT-AA
1 AATTACCAAAATACCACTGGTTTACAAAATTACCGAAATACCCTTGACTTT-TAAA
* ** *
37834063 AATTACCAAAATACCCCTAATTTACAAAATTACTGAAATACCCTTGACTTTTAATA
1 AATTACCAAAATACCACTGGTTTACAAAATTACCGAAATACCCTTGACTTTTAA-A
* * *
37834119 AATTA-TAGAAATACCATTGGTTTACAAAATTACAGAAATACCCTTGACTTTTAAAA
1 AATTACCA-AAATACCACTGGTTTACAAAATTACCGAAATACCCTTGACTTTT-AAA
* * *
37834175 AATTA-TAAAATACCATTGGTTTACAAAATTACTGAAATACCCTTG
1 AATTACCAAAATACCACTGGTTTACAAAATTACCGAAATACCCTTG
37834220 GTTTTTAGAT
Statistics
Matches: 181, Mismatches: 25, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
54 83 0.46
55 43 0.24
56 53 0.29
57 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (55 bp):
AATTACCAAAATACCACTGGTTTACAAAATTACCGAAATACCCTTGACTTTTAAA
Found at i:37834150 original size:27 final size:27
Alignment explanation
Indices: 37834083--37834223 Score: 137
Period size: 27 Copynumber: 5.1 Consensus size: 27
37834073 ATACCCCTAA
*
37834083 TTTACAAAATTACT-GAAATACCCTTGACT
1 TTTACAAAATTA-TAGAAATACCCTTG--G
*
37834112 TTTA-ATAAATTATAGAAATACCATTGG
1 TTTACA-AAATTATAGAAATACCCTTGG
* *
37834139 TTTACAAAATTACAGAAATACCCTTGACT
1 TTTACAAAATTATAGAAATACCCTTG--G
* *
37834168 TTTAAAAAATTATA-AAATACCATTGG
1 TTTACAAAATTATAGAAATACCCTTGG
37834194 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTACAAAATTA-TAGAAATACCCTTGG
37834221 TTT
1 TTT
37834224 TTAGATTTAC
Statistics
Matches: 94, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
26 11 0.12
27 37 0.39
28 13 0.14
29 33 0.35
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCCTTGG
Found at i:37834226 original size:55 final size:56
Alignment explanation
Indices: 37834083--37834219 Score: 249
Period size: 56 Copynumber: 2.5 Consensus size: 56
37834073 ATACCCCTAA
*
37834083 TTTACAAAATTACTGAAATACCCTTGACTTTTAATAAATTATAGAAATACCATTGG
1 TTTACAAAATTACTGAAATACCCTTGACTTTTAAAAAATTATAGAAATACCATTGG
*
37834139 TTTACAAAATTACAGAAATACCCTTGACTTTTAAAAAATTATA-AAATACCATTGG
1 TTTACAAAATTACTGAAATACCCTTGACTTTTAAAAAATTATAGAAATACCATTGG
37834194 TTTACAAAATTACTGAAATACCCTTG
1 TTTACAAAATTACTGAAATACCCTTG
37834220 GTTTTTAGAT
Statistics
Matches: 78, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
55 37 0.47
56 41 0.53
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.34
Consensus pattern (56 bp):
TTTACAAAATTACTGAAATACCCTTGACTTTTAAAAAATTATAGAAATACCATTGG
Found at i:37834336 original size:27 final size:27
Alignment explanation
Indices: 37834275--37834341 Score: 77
Period size: 27 Copynumber: 2.5 Consensus size: 27
37834265 ATACCCCTAA
*
37834275 TAGG-TAAAAAGACCGTAAAGCCCTTG
1 TAGGTTAAAATGACCGTAAAGCCCTTG
*
37834301 TAGGTTAAAGTGACCGTAATA-CCCTTG
1 TAGGTTAAAATGACCGTAA-AGCCCTTG
37834328 TATGG-TAAAATGAC
1 TA-GGTTAAAATGAC
37834342 AAATATGCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 4 0.11
27 28 0.80
28 3 0.09
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (27 bp):
TAGGTTAAAATGACCGTAAAGCCCTTG
Found at i:37835187 original size:25 final size:25
Alignment explanation
Indices: 37835151--37835220 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
37835141 AGGAAGTGCT
*
37835151 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
37835176 AAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
37835201 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
37835221 ATTAAAAGCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:37835417 original size:42 final size:42
Alignment explanation
Indices: 37835358--37835449 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
37835348 TAGTCTCCCC
37835358 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
*
37835400 AAATGGGTTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
37835442 AAATGGGC
1 AAATGGGC
37835450 CTAAGGGCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:37839606 original size:96 final size:95
Alignment explanation
Indices: 37839486--37839820 Score: 375
Period size: 96 Copynumber: 3.5 Consensus size: 95
37839476 CACATGTCGA
* * * *
37839486 GGCCGATGCCATATCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATACCGATGCCATGTCCC
1 GGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCC
* **
37839551 AGACATGGTCTTACACTAGCTTTCATAATAT
66 AGACATGGTCTTACACTGGCACTCATAA-AT
* * * *
37839582 GGCCGATGCCATGTCCCATACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATGTCCT
1 GGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCC
** * *
37839647 AGACATGGTCTTACGTTGGCGCTCACAACAT
66 AGACATGGTCTTACACTGGCACTCATAA-AT
* * * *
37839678 CGCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATC-GTGGCCGATGCCATGTCC
1 GGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAAT-GCCGATGCCATGTCC
* *
37839742 CAAACATGGTCTTACACTGGCACACATAAAGT
65 CAGACATGGTCTTACACTGGCACTCATAAA-T
* * * * * * *
37839774 GGTCAACGCCATGTTCCAGACATGGTCTTACACTAGCGCACATATCA
1 GGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
37839821 CCCAAATGTC
Statistics
Matches: 199, Mismatches: 37, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
95 2 0.01
96 197 0.99
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (95 bp):
GGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTCCC
AGACATGGTCTTACACTGGCACTCATAAAT
Found at i:37839760 original size:48 final size:48
Alignment explanation
Indices: 37839442--37839820 Score: 336
Period size: 48 Copynumber: 7.9 Consensus size: 48
37839432 GTGAATTGCT
* * * * * *
37839442 GATGCCATGTTCCAAACATGGTCTTGCGCTATCTCACATGTCGA-GGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATC-ATGGCC
* * * *
37839490 GATGCCATATCCCAAACATGGTCTTACACTAGCTCTCGTCTCAAT-ACC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATC-ATGGCC
* *
37839538 GATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATAAT-ATGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAT-ATCATGGCC
* * *
37839586 GATGCCATGTCCCATACATGGTCTTACACTAGCGCACATATCAAT-GCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATC-ATGGCC
* * ** * * * * *
37839634 GATGCCATGTCCTAGACATGGTCTTACGTTGGCGCTCACAACATCGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATGGCC
* * *
37839682 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTGGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATGGCC
* * * * *
37839730 GATGCCATGTCCCAAACATGGTCTTACACTGGCACACATA-AAGTGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA-TGGCC
* * * * * *
37839778 AACGCCATGTTCCAGACATGGTCTTACACTAGCGCACATATCA
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
37839821 CCCAAATGTC
Statistics
Matches: 272, Mismatches: 51, Indels: 15
0.80 0.15 0.04
Matches are distributed among these distances:
47 6 0.02
48 262 0.96
49 4 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATGGCC
Found at i:37839785 original size:144 final size:144
Alignment explanation
Indices: 37839536--37839804 Score: 375
Period size: 144 Copynumber: 1.9 Consensus size: 144
37839526 CGTCTCAATA
* * *
37839536 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCATAATATGGCCGATGCCATGTCCCAT
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATATGGCCGATGCCATGTCCCAA
* * * *
37839601 ACATGGTCTTACACTAGCGCACATATCAATGCCGATGCCATG-TCCTAGACATGGTCTTACGTTG
66 ACATGGTCTTACACTAGCGCACACATAAATGCCAACGCCATGTTCC-AGACATGGTCTTACGTTG
37839665 GCGCTCACAACATCG
130 GCGCTCACAACATCG
* * *
37839680 CCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATCGTGGCCGATGCCATGTCCCA
1 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAAT-ATGGCCGATGCCATGTCCCA
*
37839744 AACATGGTCTTACACT-G-GCACACATAAAGTGGTCAACGCCATGTTCCAGACATGGTCTTAC
65 AACATGGTCTTACACTAGCGCACACATAAA-T-GCCAACGCCATGTTCCAGACATGGTCTTAC
37839805 ACTAGCGCAC
Statistics
Matches: 110, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
142 9 0.08
143 4 0.04
144 94 0.85
145 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (144 bp):
CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAATATGGCCGATGCCATGTCCCAA
ACATGGTCTTACACTAGCGCACACATAAATGCCAACGCCATGTTCCAGACATGGTCTTACGTTGG
CGCTCACAACATCG
Found at i:37841182 original size:44 final size:44
Alignment explanation
Indices: 37841119--37841206 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
37841109 TAAACAAGTA
37841119 AGTGTGATATCTCATATCACCTTATTCAAGCATGGCCATGCATT
1 AGTGTGATATCTCATATCACCTTATTCAAGCATGGCCATGCATT
37841163 AGTGTGATATCTCATATCACCTTATTCAAGCATGGCCATGCATT
1 AGTGTGATATCTCATATCACCTTATTCAAGCATGGCCATGCATT
37841207 TCTAGTCTCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (44 bp):
AGTGTGATATCTCATATCACCTTATTCAAGCATGGCCATGCATT
Found at i:37845695 original size:46 final size:46
Alignment explanation
Indices: 37845645--37845820 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37845635 TGGTTGAGCA
37845645 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37845691 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37845736 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37845784 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37845821 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37845801 original size:93 final size:93
Alignment explanation
Indices: 37845642--37845813 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37845632 GGATGGTTGA
* *
37845642 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37845707 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37845735 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37845800 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
37845814 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37853275 original size:46 final size:46
Alignment explanation
Indices: 37853225--37853400 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
37853215 TGGTTGAGCA
37853225 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37853271 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
37853316 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
37853364 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
37853401 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:37853381 original size:93 final size:93
Alignment explanation
Indices: 37853222--37853393 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
37853212 GGATGGTTGA
* *
37853222 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37853287 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
37853315 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
37853380 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
37853394 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:37856128 original size:6 final size:6
Alignment explanation
Indices: 37856102--37856167 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
37856092 AAGAAACATT
* * *
37856102 ATCAGA A-CTAGA ATTAGA ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
*
37856151 ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAG
37856168 GTAACAGAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 3 0.06
6 41 0.85
7 3 0.06
8 1 0.02
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:37856154 original size:31 final size:32
Alignment explanation
Indices: 37856119--37856190 Score: 128
Period size: 31 Copynumber: 2.3 Consensus size: 32
37856109 CTAGAATTAG
*
37856119 AATCAGAATCAGTATCAGGTAACAGAAT-CAA
1 AATCAGAATCAGTATCAGGTAACAGAATAAAA
37856150 AATCAGAATCAGTATCAGGTAACAGAATAAAA
1 AATCAGAATCAGTATCAGGTAACAGAATAAAA
37856182 AATCAGAAT
1 AATCAGAAT
37856191 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 28 0.72
32 11 0.28
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.19
Consensus pattern (32 bp):
AATCAGAATCAGTATCAGGTAACAGAATAAAA
Found at i:37856391 original size:26 final size:27
Alignment explanation
Indices: 37856327--37856400 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
37856317 GCTCAGTTAT
* *
37856327 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
37856354 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* * *
37856380 TAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
37856401 TTAACAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 19 0.45
27 23 0.55
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:37856595 original size:22 final size:22
Alignment explanation
Indices: 37856559--37856621 Score: 58
Period size: 22 Copynumber: 2.8 Consensus size: 22
37856549 GCAAATACGT
*
37856559 TTGGCACACATCCATAATCT-GG
1 TTGGCACA-AACCATAATCTAGG
*
37856581 TTGGCACAGAACCAT-ATGTAGG
1 TTGGCACA-AACCATAATCTAGG
*
37856603 TTGACACAAAGCCATAATC
1 TTGGCACAAA-CCATAATC
37856622 AGAAGGCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
21 5 0.15
22 26 0.79
23 2 0.06
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (22 bp):
TTGGCACAAACCATAATCTAGG
Found at i:37857080 original size:27 final size:27
Alignment explanation
Indices: 37857050--37857266 Score: 272
Period size: 27 Copynumber: 8.0 Consensus size: 27
37857040 GGGGCAAAAT
* * *
37857050 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
37857077 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
37857104 GGTATTTCTACTCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37857131 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
37857158 AGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
37857185 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
37857212 AGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
37857239 GATTATTCTACCGTACAGGGTTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
37857266 G
1 G
37857267 ATATTTTACA
Statistics
Matches: 165, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 165 1.00
ACGTcount: A:0.24, C:0.19, G:0.20, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:37857494 original size:27 final size:27
Alignment explanation
Indices: 37857269--37857490 Score: 255
Period size: 27 Copynumber: 8.2 Consensus size: 27
37857259 TTATTTCGAT
* * *
37857269 ATTTTACAAACCGAGAGTATTTTGATA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* ** *
37857296 ATTTCACAAATTAGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* *
37857323 ATTTTACAAGCCAGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
37857350 ATTTTACAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
37857377 ATTTTACAAACCAGGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
* *
37857404 ATTTTACAAACCAGGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** * *
37857431 ATTTTACTGATCGAGGGTATTTTGGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
** *
37857458 ATTTTGTAAACCAAGGGTATTTTAGTA
1 ATTTTACAAACCAAGGGTATTTTGGTA
*
37857485 AATTTA
1 ATTTTA
37857491 TAAATGAGGG
Statistics
Matches: 163, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 163 1.00
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
ATTTTACAAACCAAGGGTATTTTGGTA
Found at i:37857533 original size:27 final size:27
Alignment explanation
Indices: 37857485--37857772 Score: 391
Period size: 27 Copynumber: 10.7 Consensus size: 27
37857475 TATTTTAGTA
37857485 AATT-TATAAAT-GAGGGTAAAACGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
*
37857510 AATTCTATAAATCGAGGGTAAAACGAT
1 AATTCTATAAATCGAGGGTAAAACGGT
* * * *
37857537 AATTTTGTAAATCGAGGGTAAAATGAT
1 AATTCTATAAATCGAGGGTAAAACGGT
* *
37857564 AATTCTATAAATTGAGGGTAAAATGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
*
37857591 AATTCTATAAATCGAGGGTAAAATGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
* *
37857618 AATTTTATAAATCGAGGGTAAAATGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
37857645 AATTCTATAAATCGAGGGTAAAACGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
*
37857672 AATTCTGTAAATCGAGGGTAAAACGGT
1 AATTCTATAAATCGAGGGTAAAACGGT
* ** *
37857699 AATTTTATAAATCGACAGTAAAACAGT
1 AATTCTATAAATCGAGGGTAAAACGGT
* * *
37857726 AATTCTGTAAATCAAGGGTAAAACAGT
1 AATTCTATAAATCGAGGGTAAAACGGT
*
37857753 AATTCTATAAATCGATGGTA
1 AATTCTATAAATCGAGGGTA
37857773 CTTTGGAAAT
Statistics
Matches: 235, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
25 4 0.02
26 7 0.03
27 224 0.95
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (27 bp):
AATTCTATAAATCGAGGGTAAAACGGT
Found at i:37857894 original size:27 final size:27
Alignment explanation
Indices: 37857255--37857924 Score: 241
Period size: 27 Copynumber: 24.9 Consensus size: 27
37857245 TCTACCGTAC
* *
37857255 AGGGTTATTTCGAT-ATTTTACAAACCG
1 AGGG-TATTTCGGTAATTTTACAAATCG
* * * * *
37857282 AGAGTATTTTGATAATTTCACAAAT-T
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
37857308 AGGGGTATTTTGGTAATTTTAC-AAGCC
1 A-GGGTATTTCGGTAATTTTACAAATCG
* * *
37857335 AGGGGTATTTTGGTAATTTTACAAACCA
1 A-GGGTATTTCGGTAATTTTACAAATCG
** *
37857363 AGGGTATTTTAGTAATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
37857389 AGGGGTATTTTGGTAATTTTACAAA-CC
1 A-GGGTATTTCGGTAATTTTACAAATCG
** **
37857416 AGGGGTATTTTAGTAATTTTACTGATCG
1 A-GGGTATTTCGGTAATTTTACAAATCG
* ** * *
37857444 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTCGGTAATTTTACAAATCG
** * *
37857471 AGGGTATTTTAGTAAATTTATAAAT-G
1 AGGGTATTTCGGTAATTTTACAAATCG
*** * *
37857497 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*** * **
37857524 AGGGTAAAACGATAATTTTGTAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** * * * *
37857551 AGGGTAAAAT-GATAATTCTATAAATTG
1 AGGGT-ATTTCGGTAATTTTACAAATCG
** * *
37857578 AGGGTAAAAT-GGTAATTCTATAAATCG
1 AGGGT-ATTTCGGTAATTTTACAAATCG
** *
37857605 AGGGTAAAAT-GGTAATTTTATAAATCG
1 AGGGT-ATTTCGGTAATTTTACAAATCG
** * *
37857632 AGGGTAAAAT-GGTAATTCTATAAATCG
1 AGGGT-ATTTCGGTAATTTTACAAATCG
*** * **
37857659 AGGGTAAAACGGTAATTCTGTAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
*** *
37857686 AGGGTAAAACGGTAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
** *** * * ** *
37857713 ACAGTAAAACAGTAATTCTGTAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
*** * * *
37857740 AGGGTAAAACAGTAATTCTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* * * *
37857767 ATGGTACTTT-GGAAATTTTGCAAGTCG
1 AGGGTA-TTTCGGTAATTTTACAAATCG
* * *
37857794 AGGGCATTTCTGTAATTTTACAAGTCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
37857821 AGGGTATTTCAGTAATTTTGCAAA-CTG
1 AGGGTATTTCGGTAATTTTACAAATC-G
*
37857848 AGGGTATTTCGGTAATTTTACAAATCA
1 AGGGTATTTCGGTAATTTTACAAATCG
* * *
37857875 AGGATATTTGGGTAATTTTATAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCG
* *
37857902 GGGGTACTTT-GGTAATTTCACAA
1 AGGGTA-TTTCGGTAATTTTACAA
37857925 CTGGGGGTAT
Statistics
Matches: 536, Mismatches: 93, Indels: 28
0.82 0.14 0.04
Matches are distributed among these distances:
26 38 0.07
27 485 0.90
28 13 0.02
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCG
Found at i:37858893 original size:18 final size:18
Alignment explanation
Indices: 37858867--37858905 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
37858857 ACGGTACCCC
* *
37858867 CTTCTTATGTACATGACA
1 CTTCCTATGCACATGACA
*
37858885 CTTCCTATGCGCATGACA
1 CTTCCTATGCACATGACA
37858903 CTT
1 CTT
37858906 TCTCTGATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (18 bp):
CTTCCTATGCACATGACA
Found at i:37860171 original size:2 final size:2
Alignment explanation
Indices: 37860158--37860192 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
37860148 GTCCCAACAG
*
37860158 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
37860193 TCATGCTTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:37863379 original size:27 final size:27
Alignment explanation
Indices: 37863349--37863428 Score: 88
Period size: 27 Copynumber: 3.0 Consensus size: 27
37863339 ATCTCATATT
* *
37863349 TGTAGGCTAGTATTACTGAAATACCCC
1 TGTAGGATAGAATTACTGAAATACCCC
* * * *
37863376 TGTATGATAGAATTACTAAAATGCCTC
1 TGTAGGATAGAATTACTGAAATACCCC
* *
37863403 TGTAGGGTAGAATTGCTGAAATACCC
1 TGTAGGATAGAATTACTGAAATACCC
37863429 TTGGTTTACA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (27 bp):
TGTAGGATAGAATTACTGAAATACCCC
Found at i:37863562 original size:54 final size:54
Alignment explanation
Indices: 37863448--37863753 Score: 278
Period size: 54 Copynumber: 5.7 Consensus size: 54
37863438 AAAATTACTG
* * * * * * *
37863448 AATACCCTCGA-TAGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AATACCCTTGATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTATC-GA
*
37863502 AATACCCTTGATTTGTAAAATTACCGAAATACCCTT-ATCCTGTAAAATTATCGA
1 AATACCCTTGATTTGTAAAATTACCGAAATACCCTTAAT-TTGTAAAATTATCGA
* ** * *
37863556 AATACCCTCGACATGTAAAATTACTGAAATACCCTTAATTTGTAAAATTA-CCA
1 AATACCCTTGATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTATCGA
* * * * * *
37863609 AATACCCCTAATTTGGAAAATTACCGAAATACCATTAATTTGGAAAATTATAGA
1 AATACCCTTGATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTATCGA
* * * * **
37863663 AATACCCTTGATTTATAATATTACAGAAATACCCTTGACTTTCAAAAATTA-CAGA
1 AATACCCTTGATTTGTAAAATTACCGAAATACCCTT-AATTTGTAAAATTATC-GA
* * * * *
37863718 ACTACCATTGGTTTGCAAAATTACTGAAATACCCTT
1 AATACCCTTGATTTGTAAAATTACCGAAATACCCTT
37863754 GGTTTGTAGA
Statistics
Matches: 203, Mismatches: 43, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
53 43 0.21
54 84 0.41
55 76 0.37
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
AATACCCTTGATTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTATCGA
Found at i:37863656 original size:107 final size:108
Alignment explanation
Indices: 37863448--37863698 Score: 312
Period size: 107 Copynumber: 2.3 Consensus size: 108
37863438 AAAATTACTG
* * *
37863448 AATACCCTCGATA-GTAAAATTACCA-AAATACCCCTAGTTTGTAAAATTACCAAAAATACCCTT
1 AATACCCTCGATATGTAAAATTA-CAGAAATACCCTTAATTTGTAAAATTACC-AAAATACCCCT
* * * * *
37863511 GATTTGTAAAATTACCGAAATACCCTTATCCTGTAAAATTATCGA
64 AATTTGGAAAATTACCGAAATACCATTATCCTGGAAAATTATAGA
* *
37863556 AATACCCTCGACATGTAAAATTACTGAAATACCCTTAATTTGTAAAATTACC-AAATACCCCTAA
1 AATACCCTCGATATGTAAAATTACAGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAA
*
37863620 TTTGGAAAATTACCGAAATACCATTAAT-TTGGAAAATTATAGA
66 TTTGGAAAATTACCGAAATACCATT-ATCCTGGAAAATTATAGA
* * * *
37863663 AATACCCTTGATTTATAATATTACAGAAATACCCTT
1 AATACCCTCGATATGTAAAATTACAGAAATACCCTT
37863699 GACTTTCAAA
Statistics
Matches: 123, Mismatches: 17, Indels: 7
0.84 0.12 0.05
Matches are distributed among these distances:
107 75 0.61
108 15 0.12
109 33 0.27
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (108 bp):
AATACCCTCGATATGTAAAATTACAGAAATACCCTTAATTTGTAAAATTACCAAAATACCCCTAA
TTTGGAAAATTACCGAAATACCATTATCCTGGAAAATTATAGA
Found at i:37863738 original size:82 final size:80
Alignment explanation
Indices: 37863501--37863772 Score: 217
Period size: 80 Copynumber: 3.4 Consensus size: 80
37863491 AAATTACCAA
* * * ** *
37863501 AAATACCCTTGATTTGTAAAATTACCGAAATA-CCCTTATCCTGTAAAATTATC-GAAATACCCT
1 AAATACCCTTGATTTATAAAATTACC-AAATACCCCTAAT-TTCAAAAATTA-CAGAAATACCAT
** ** *
37863564 CGACATGTAAAATTACTG
63 TAATTTGCAAAATTACTG
* * ** *
37863582 AAATACCCTTAATTTGTAAAATTACCAAATACCCCTAATTTGGAAAATTACCGAAATACCATTAA
1 AAATACCCTTGATTTATAAAATTACCAAATACCCCTAATTTCAAAAATTACAGAAATACCATTAA
*
37863647 TTTGGAAAATTA-TAG
66 TTTGCAAAATTACT-G
* * * * *
37863662 AAATACCCTTGATTTATAATATTACAGAAATACCCTTGACTTTCAAAAATTACAGAACTACCATT
1 AAATACCCTTGATTTATAAAATTAC-CAAATACCCCT-AATTTCAAAAATTACAGAAATACCATT
**
37863727 GGTTTGCAAAATTACTG
64 AATTTGCAAAATTACTG
* * * *
37863744 AAATACCCTTGGTTTGTAGATTTACCAAA
1 AAATACCCTTGATTTATAAAATTACCAAA
37863773 ACACCATTGT
Statistics
Matches: 156, Mismatches: 29, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
79 2 0.01
80 56 0.36
81 43 0.28
82 54 0.35
83 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (80 bp):
AAATACCCTTGATTTATAAAATTACCAAATACCCCTAATTTCAAAAATTACAGAAATACCATTAA
TTTGCAAAATTACTG
Found at i:37863768 original size:27 final size:27
Alignment explanation
Indices: 37863420--37863761 Score: 228
Period size: 27 Copynumber: 12.7 Consensus size: 27
37863410 TAGAATTGCT
** *
37863420 GAAATACCCTTGGTTTACAAAATTACT
1 GAAATACCCTTGGTTTGTAAAATTACA
* * *
37863447 G-AATACCC-TCGATAGTAAAATTACCA
1 GAAATACCCTTGGTTTGTAAAATTA-CA
* *
37863473 -AAATACCCCTAGTTTGTAAAATTACCA
1 GAAATACCCTTGGTTTGTAAAATTA-CA
* * *
37863500 AAAATACCCTTGATTTGTAAAATTACC
1 GAAATACCCTTGGTTTGTAAAATTACA
* *
37863527 GAAATACCCTT-ATCCTGTAAAATTATC-
1 GAAATACCCTTGGT-TTGTAAAATTA-CA
* *** *
37863554 GAAATACCCTCGACATGTAAAATTACT
1 GAAATACCCTTGGTTTGTAAAATTACA
**
37863581 GAAATACCCTTAATTTGTAAAATTAC-
1 GAAATACCCTTGGTTTGTAAAATTACA
* * ** * *
37863607 CAAATACCCCTAATTTGGAAAATTACC
1 GAAATACCCTTGGTTTGTAAAATTACA
* ** * *
37863634 GAAATACCATTAATTTGGAAAATTATA
1 GAAATACCCTTGGTTTGTAAAATTACA
* * *
37863661 GAAATACCCTTGATTTATAATATTACA
1 GAAATACCCTTGGTTTGTAAAATTACA
* **
37863688 GAAATACCCTTGACTTTCAAAAATTACA
1 GAAATACCCTTG-GTTTGTAAAATTACA
* * * *
37863716 GAACTACCATTGGTTTGCAAAATTACT
1 GAAATACCCTTGGTTTGTAAAATTACA
37863743 GAAATACCCTTGGTTTGTA
1 GAAATACCCTTGGTTTGTA
37863762 GATTTACCAA
Statistics
Matches: 256, Mismatches: 49, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
25 10 0.04
26 41 0.16
27 161 0.63
28 44 0.17
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
GAAATACCCTTGGTTTGTAAAATTACA
Found at i:37864078 original size:40 final size:41
Alignment explanation
Indices: 37864019--37864099 Score: 128
Period size: 40 Copynumber: 2.0 Consensus size: 41
37864009 GGAGAATGAA
* *
37864019 ATTAAGGATCGCATAGTTGCTTGATGA-CGTGGATCCACCG
1 ATTAAAGATCGCATAGTTGCTTGACGATCGTGGATCCACCG
*
37864059 ATTAAAGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTAAAGATCGCATAGTTGCTTGACGATCGTGGATCCACCG
37864100 GTGGCTTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
40 24 0.65
41 13 0.35
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
ATTAAAGATCGCATAGTTGCTTGACGATCGTGGATCCACCG
Found at i:37864292 original size:22 final size:22
Alignment explanation
Indices: 37864240--37864304 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
37864230 TCCTATTATT
* * *
37864240 CTGATTATGGCTTTGCGCCAAG
1 CTGATTATGGCTATGTGCCAAC
* *
37864262 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTATGTGCCAAC
*
37864284 CTGATTATGGCTATTTGCCAA
1 CTGATTATGGCTATGTGCCAA
37864305 ACATATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTATGTGCCAAC
Found at i:37864528 original size:22 final size:22
Alignment explanation
Indices: 37864503--37864549 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
37864493 ATTGCTGCGA
* *
37864503 TGTTTACGGCTATGTGTTGTTC
1 TGTTTACGGCTATGTGATGTCC
*
37864525 TGTTTATGGCTATGTGATGTCC
1 TGTTTACGGCTATGTGATGTCC
37864547 TGT
1 TGT
37864550 CTATGGCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.13, G:0.28, T:0.49
Consensus pattern (22 bp):
TGTTTACGGCTATGTGATGTCC
Found at i:37864554 original size:22 final size:22
Alignment explanation
Indices: 37864510--37864556 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
37864500 CGATGTTTAC
* * *
37864510 GGCTATGTGTTGTTCTGTTTAT
1 GGCTATGTGATGTCCTGTCTAT
37864532 GGCTATGTGATGTCCTGTCTAT
1 GGCTATGTGATGTCCTGTCTAT
37864554 GGC
1 GGC
37864557 ATTGAGCTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.11, C:0.15, G:0.30, T:0.45
Consensus pattern (22 bp):
GGCTATGTGATGTCCTGTCTAT
Found at i:37866509 original size:19 final size:19
Alignment explanation
Indices: 37866453--37866510 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 19
37866443 GATTTGGTTA
*
37866453 ATTAAGTTTAACTTAAACTA-
1 ATTAAGATTAA-TTAAA-TAT
* * *
37866473 ATTAAGGTTAGTTTAATAT
1 ATTAAGATTAATTAAATAT
37866492 ATTAAGATTAATTAAATAT
1 ATTAAGATTAATTAAATAT
37866511 TAATGATAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 2 0.06
19 20 0.65
20 9 0.29
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.43
Consensus pattern (19 bp):
ATTAAGATTAATTAAATAT
Found at i:37868886 original size:21 final size:21
Alignment explanation
Indices: 37868862--37868911 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
37868852 CGGAAGCTCG
37868862 TAAGAGCTAAACGGAAACCCA
1 TAAGAGCTAAACGGAAACCCA
* * * *
37868883 TAAGGGTTAAACTGAAGCCCA
1 TAAGAGCTAAACGGAAACCCA
*
37868904 AAAGAGCT
1 TAAGAGCT
37868912 GAACATAAAC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.14
Consensus pattern (21 bp):
TAAGAGCTAAACGGAAACCCA
Found at i:37869881 original size:5 final size:5
Alignment explanation
Indices: 37869871--37869895 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37869861 TCATTTTGGC
37869871 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
37869896 CCAATTTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:37876170 original size:16 final size:15
Alignment explanation
Indices: 37876139--37876178 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
37876129 TTATTTATTA
37876139 AAATAA-TTTTAATT
1 AAATAATTTTTAATT
*
37876153 AATTAATTTTTCAATT
1 AAATAATTTTT-AATT
37876169 AAATAATTTT
1 AAATAATTTT
37876179 CTTAACCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 5 0.23
15 4 0.18
16 13 0.59
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
AAATAATTTTTAATT
Found at i:37906844 original size:28 final size:27
Alignment explanation
Indices: 37906769--37906851 Score: 121
Period size: 27 Copynumber: 3.0 Consensus size: 27
37906759 TGGCTGCCAG
* * *
37906769 AACAGATATTGTGACAGAGTCACCAGA
1 AACAGATATTGTGGCAGAGCCACCAAA
*
37906796 AACAGATATTGTGGTAGAGCCACCAAA
1 AACAGATATTGTGGCAGAGCCACCAAA
37906823 AACAGATATTTGTGGCAGAGCCACCAAA
1 AACAGATA-TTGTGGCAGAGCCACCAAA
37906851 A
1 A
37906852 CGCTTCCTCC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 31 0.62
28 19 0.38
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (27 bp):
AACAGATATTGTGGCAGAGCCACCAAA
Found at i:37912287 original size:27 final size:28
Alignment explanation
Indices: 37912256--37912361 Score: 155
Period size: 27 Copynumber: 3.9 Consensus size: 28
37912246 CTGCCAGAAT
* *
37912256 AGATA-TTGTGACAGAGTCACCAGATAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
*
37912283 AGATA-TTGTGGCAGAGCCACCAGAAAC
1 AGATATTTGTGGCAGAGCCACCAGATAC
*
37912310 AGATATTTGTGGCAGAGCCACTAGAT-C
1 AGATATTTGTGGCAGAGCCACCAGATAC
37912337 AGATATTTGTGGCAGAGCCACCAGA
1 AGATATTTGTGGCAGAGCCACCAGA
37912362 ATGCTTCCTC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
27 54 0.75
28 18 0.25
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.21
Consensus pattern (28 bp):
AGATATTTGTGGCAGAGCCACCAGATAC
Found at i:37912347 original size:55 final size:54
Alignment explanation
Indices: 37912256--37912362 Score: 162
Period size: 55 Copynumber: 2.0 Consensus size: 54
37912246 CTGCCAGAAT
*
37912256 AGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAAAC
1 AGATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGCCACCAGAAAC
* *
37912310 AGATATTTGTGGCAGAGCCACTAGAT-CAGATATTTGTGGCAGAGCCACCAGAA
1 AGATA-TTGTGACAGAGCCACCAGATACAGATA-TTGTGGCAGAGCCACCAGAA
37912363 TGCTTCCTCT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
54 11 0.23
55 37 0.77
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.21
Consensus pattern (54 bp):
AGATATTGTGACAGAGCCACCAGATACAGATATTGTGGCAGAGCCACCAGAAAC
Found at i:37927431 original size:28 final size:28
Alignment explanation
Indices: 37927400--37927489 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
37927390 GCCTACTATG
37927400 CCCAATCTCATTTATATGGCCCATCAGA
1 CCCAATCTCATTTATATGGCCCATCAGA
* * * * * *
37927428 CCCAATTCACATTCATATGACCTATTAGG
1 CCCAA-TCTCATTTATATGGCCCATCAGA
*
37927457 CCCAATCTCATTTATATGGCCCATCCGA
1 CCCAATCTCATTTATATGGCCCATCAGA
37927485 CCCAA
1 CCCAA
37927490 ATCACATTAT
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
28 26 0.54
29 22 0.46
ACGTcount: A:0.29, C:0.33, G:0.10, T:0.28
Consensus pattern (28 bp):
CCCAATCTCATTTATATGGCCCATCAGA
Found at i:37927460 original size:29 final size:29
Alignment explanation
Indices: 37927379--37927477 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 29
37927369 ACCCCTACAT
* * *
37927379 ACATGCATATGGCCTACTATGCCCAA-TC
1 ACATTCATATGGCCTATTAGGCCCAATTC
* * * * *
37927407 TCATTTATATGGCCCATCAGACCCAATTC
1 ACATTCATATGGCCTATTAGGCCCAATTC
*
37927436 ACATTCATATGACCTATTAGGCCCAA-TC
1 ACATTCATATGGCCTATTAGGCCCAATTC
* *
37927464 TCATTTATATGGCC
1 ACATTCATATGGCC
37927478 CATCCGACCC
Statistics
Matches: 53, Mismatches: 17, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
28 31 0.58
29 22 0.42
ACGTcount: A:0.28, C:0.29, G:0.12, T:0.30
Consensus pattern (29 bp):
ACATTCATATGGCCTATTAGGCCCAATTC
Found at i:37927462 original size:57 final size:57
Alignment explanation
Indices: 37927379--37927501 Score: 185
Period size: 57 Copynumber: 2.2 Consensus size: 57
37927369 ACCCCTACAT
* * * *
37927379 ACATGCATATGGCCTACTATGCCCAATCTCATTTATATGGCCCATCAGACCCAATTC
1 ACATTCATATGACCTACTAGGCCCAATCTCATTTATATGGCCCATCAGACCCAAATC
* *
37927436 ACATTCATATGACCTATTAGGCCCAATCTCATTTATATGGCCCATCCGACCCAAATC
1 ACATTCATATGACCTACTAGGCCCAATCTCATTTATATGGCCCATCAGACCCAAATC
37927493 ACATT-ATAT
1 ACATTCATAT
37927502 TCATGCTCAC
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
56 4 0.07
57 56 0.93
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.29
Consensus pattern (57 bp):
ACATTCATATGACCTACTAGGCCCAATCTCATTTATATGGCCCATCAGACCCAAATC
Found at i:37927499 original size:28 final size:28
Alignment explanation
Indices: 37927411--37927501 Score: 94
Period size: 28 Copynumber: 3.2 Consensus size: 28
37927401 CCAATCTCAT
*
37927411 TTATATGGCCCATCAGACCCAATTCACA
1 TTATATGGCCCATCAGACCCAAATCACA
* * * * *
37927439 TTCATATGACCTATTAGGCCC-AATCTCA
1 TT-ATATGGCCCATCAGACCCAAATCACA
*
37927467 TTTATATGGCCCATCCGACCCAAATCACA
1 -TTATATGGCCCATCAGACCCAAATCACA
37927496 TTATAT
1 TTATAT
37927502 TCATGCTCAC
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
28 26 0.54
29 22 0.46
ACGTcount: A:0.31, C:0.30, G:0.10, T:0.30
Consensus pattern (28 bp):
TTATATGGCCCATCAGACCCAAATCACA
Found at i:37927719 original size:16 final size:16
Alignment explanation
Indices: 37927698--37927751 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
37927688 CAAACTTTTT
*
37927698 GCTTTTCGACATTTCG
1 GCTTTTCGGCATTTCG
37927714 GCTTTTCGGCATTTCG
1 GCTTTTCGGCATTTCG
*
37927730 GCTTTTCGGTATTTCG
1 GCTTTTCGGCATTTCG
37927746 GCTTTT
1 GCTTTT
37927752 GCCGATCTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.07, C:0.22, G:0.22, T:0.48
Consensus pattern (16 bp):
GCTTTTCGGCATTTCG
Found at i:37927720 original size:8 final size:8
Alignment explanation
Indices: 37927698--37927751 Score: 65
Period size: 8 Copynumber: 6.8 Consensus size: 8
37927688 CAAACTTTTT
37927698 GCTTTTCG
1 GCTTTTCG
* *
37927706 ACATTTCG
1 GCTTTTCG
37927714 GCTTTTCG
1 GCTTTTCG
*
37927722 GCATTTCG
1 GCTTTTCG
37927730 GCTTTTCG
1 GCTTTTCG
37927738 G-TATTTCG
1 GCT-TTTCG
37927746 GCTTTT
1 GCTTTT
37927752 GCCGATCTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
7 1 0.03
8 36 0.95
9 1 0.03
ACGTcount: A:0.07, C:0.22, G:0.22, T:0.48
Consensus pattern (8 bp):
GCTTTTCG
Found at i:37931870 original size:46 final size:46
Alignment explanation
Indices: 37931820--37931992 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
37931810 TGGTTGAGCA
*
37931820 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
37931866 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
37931913 TCCGAACTCATTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
37931959 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
37931993 GGGCGGGTTA
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
43 5 0.05
45 3 0.03
46 59 0.58
47 27 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:37931976 original size:93 final size:93
Alignment explanation
Indices: 37931817--37931987 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
37931807 GGATGGTTGA
* * *
37931817 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
37931882 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
37931910 GCATCCGAACTCATTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
37931975 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
37931988 ACTTAGGGCG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:37939360 original size:38 final size:44
Alignment explanation
Indices: 37939308--37939421 Score: 168
Period size: 38 Copynumber: 2.7 Consensus size: 44
37939298 ATGGTTGAGC
37939308 ATCCGAACTCGTTGAGTTGAGTCCGAGTTC-TG-ATGT-A-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATGTAACTAG
37939347 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATGTAACTA-G
37939391 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTC
37939422 ATTATGGATG
Statistics
Matches: 67, Mismatches: 0, Indels: 9
0.88 0.00 0.12
Matches are distributed among these distances:
38 29 0.43
39 2 0.03
40 4 0.06
41 1 0.01
42 1 0.01
44 1 0.01
46 29 0.43
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAATGTAACTAG
Found at i:37939371 original size:20 final size:20
Alignment explanation
Indices: 37939309--37939371 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
37939299 TGGTTGAGCA
37939309 TCCGAACTCGTTGAGTTGAG
1 TCCGAACTCGTTGAGTTGAG
**
37939329 TCCGAGTTC--TGA--TGTATG
1 TCCGAACTCGTTGAGTTG-A-G
37939347 TCCGAACTCGTTGAGTTGAG
1 TCCGAACTCGTTGAGTTGAG
37939367 TCCGA
1 TCCGA
37939372 GTTCGTGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
16 2 0.06
17 1 0.03
18 11 0.33
20 16 0.48
21 1 0.03
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.32
Consensus pattern (20 bp):
TCCGAACTCGTTGAGTTGAG
Found at i:37943258 original size:18 final size:17
Alignment explanation
Indices: 37943205--37943271 Score: 62
Period size: 18 Copynumber: 3.6 Consensus size: 17
37943195 GCACCAAATG
37943205 TAATTATATTGTTTAATAAA
1 TAATT-TATT-TTTAA-AAA
37943225 TTAATCTTATTTTTAAAAA
1 -TAAT-TTATTTTTAAAAA
**
37943244 TAATTTATTTCTTAAACT
1 TAATTTATTT-TTAAAAA
37943262 TAATTTATTT
1 TAATTTATTT
37943272 ATATTAATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.14
18 19 0.45
19 3 0.07
20 5 0.12
21 8 0.19
22 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.01, T:0.55
Consensus pattern (17 bp):
TAATTTATTTTTAAAAA
Found at i:37951891 original size:27 final size:27
Alignment explanation
Indices: 37951850--37952049 Score: 258
Period size: 27 Copynumber: 7.4 Consensus size: 27
37951840 TGGATAAGTT
*
37951850 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
37951877 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
37951904 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
37951931 GTAGAATTACCGAAATACCTCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
37951958 ATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
37951985 GTAGAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
37952012 GTATAATTACC-AATATACCCTTGTGGG
1 GTAGAATTACCGAA-ATACCCCTGTAGG
*
37952039 GTAAAATTACC
1 GTAGAATTACC
37952050 ATTTTGCCCC
Statistics
Matches: 153, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 2 0.01
27 151 0.99
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:37952843 original size:27 final size:26
Alignment explanation
Indices: 37952791--37952850 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
37952781 CCATATATAT
37952791 ATATCTGTTCTGGTAGCTTAGCCACA
1 ATATCTGTTCTGGTAGCTTAGCCACA
* *
37952817 ATATCTGTATCTGGT-GACTTTGTCACA
1 ATATCTGT-TCTGGTAG-CTTAGCCACA
37952844 ATATCTG
1 ATATCTG
37952851 GCAGCCTCGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 9 0.30
27 21 0.70
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.38
Consensus pattern (26 bp):
ATATCTGTTCTGGTAGCTTAGCCACA
Found at i:37957769 original size:43 final size:43
Alignment explanation
Indices: 37957699--37957867 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
37957689 GAAAAGCTCG
* *
37957699 TACAATGCCAAC-GTCCCAGGC-GTGGTCTTACATGTAAA-CAAA
1 TACAATGCCAACTGTCCCAGACAG-GGTCTTACACG-AAATCAAA
37957741 TATCAATGCC-ACTGTCCCAGACAGGGTCTTACACGAAATCAAA
1 TA-CAATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAAA
* * * *
37957784 TACGATGCCGA-TGTCCCAGACATGGTCTTACACCTAAATCTCAAA
1 TACAATGCCAACTGTCCCAGACAGGGTCTTACA-CGAAA--TCAAA
* *
37957829 T-CGATGCGAAC-GTCCCAGAC-GTGGTCTTACACGAAATCA
1 TACAATGCCAACTGTCCCAGACAG-GGTCTTACACGAAATCA
37957868 CATATCGAAA
Statistics
Matches: 108, Mismatches: 9, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
41 3 0.03
42 33 0.31
43 40 0.37
44 26 0.24
45 6 0.06
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
TACAATGCCAACTGTCCCAGACAGGGTCTTACACGAAATCAAA
Found at i:37957804 original size:42 final size:42
Alignment explanation
Indices: 37957722--37957867 Score: 140
Period size: 42 Copynumber: 3.4 Consensus size: 42
37957712 TCCCAGGCGT
* *
37957722 GGTCTTACATGTAAA-CAAATATCAATGCC-ACTGTCCCAGACAG
1 GGTCTTACACG-AAATCAAATA-CGATGCCGA-TGTCCCAGACAG
*
37957765 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAG
* *
37957807 GGTCTTACACCTAAATCTCAAAT-CGATG-CGAACGTCCCAGAC-G
1 GGTCTTACA-CGAAA--TCAAATACGATGCCG-ATGTCCCAGACAG
37957850 TGGTCTTACACGAAATCA
1 -GGTCTTACACGAAATCA
37957868 CATATCGAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 16
0.79 0.06 0.14
Matches are distributed among these distances:
41 3 0.03
42 29 0.33
43 27 0.30
44 24 0.27
45 6 0.07
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAG
Found at i:37966301 original size:14 final size:13
Alignment explanation
Indices: 37966277--37966315 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
37966267 TGTTTTTAGC
37966277 TTAATTCTTCTTT
1 TTAATTCTTCTTT
*
37966290 TCTAATTTTTCTTT
1 T-TAATTCTTCTTT
37966304 TTAATTGCTTCT
1 TTAATT-CTTCT
37966316 GGCAGGTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.15, C:0.15, G:0.03, T:0.67
Consensus pattern (13 bp):
TTAATTCTTCTTT
Found at i:37969855 original size:34 final size:31
Alignment explanation
Indices: 37969800--37969867 Score: 75
Period size: 34 Copynumber: 2.1 Consensus size: 31
37969790 TTTTCTCCCC
*
37969800 ATTTTCTTTAATTTCATTTATGATTATTTTCTTT
1 ATTTTCTTTAATTTCAGTTATG--TA-TTTCTTT
*
37969834 ATTTTCTTT-CTTTCTAGTTATGTATTTCTTT
1 ATTTTCTTTAATTTC-AGTTATGTATTTCTTT
37969865 ATT
1 ATT
37969868 CATTTTTGGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 10 0.32
32 2 0.06
33 4 0.13
34 15 0.48
ACGTcount: A:0.18, C:0.10, G:0.04, T:0.68
Consensus pattern (31 bp):
ATTTTCTTTAATTTCAGTTATGTATTTCTTT
Found at i:37971544 original size:8 final size:8
Alignment explanation
Indices: 37971531--37971571 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
37971521 TTTGAGTCCA
37971531 TTTATTTT
1 TTTATTTT
37971539 TTTATTTT
1 TTTATTTT
37971547 TTTATTTT
1 TTTATTTT
* *
37971555 TCT-TTTA
1 TTTATTTT
37971562 TTTATTTT
1 TTTATTTT
37971570 TT
1 TT
37971572 AATACTTATG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.12, C:0.02, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTATTTT
Found at i:37971565 original size:15 final size:16
Alignment explanation
Indices: 37971530--37971570 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
37971520 CTTTGAGTCC
*
37971530 ATTTATTTTTTTATTT
1 ATTTATTTTTCTATTT
*
37971546 TTTTATTTTTCT-TTT
1 ATTTATTTTTCTATTT
37971561 ATTTATTTTT
1 ATTTATTTTT
37971571 TAATACTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (16 bp):
ATTTATTTTTCTATTT
Found at i:37974428 original size:37 final size:37
Alignment explanation
Indices: 37974370--37974514 Score: 254
Period size: 37 Copynumber: 3.9 Consensus size: 37
37974360 GCTCAGACGA
* *
37974370 AATCTCCACACGAAGTTATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
37974407 ACTCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
37974444 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
*
37974481 AATCTCCACACGTAGTCATCGGGTCTCACCCGGA
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGA
37974515 ATATATTTCC
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.24, C:0.33, G:0.19, T:0.23
Consensus pattern (37 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGACAT
Found at i:37974630 original size:48 final size:48
Alignment explanation
Indices: 37974559--37974836 Score: 457
Period size: 48 Copynumber: 5.8 Consensus size: 48
37974549 TGTTACAACA
* * *
37974559 TTCACATTAGCCTTTCGGCTTTACCACATATGCATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
*
37974607 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* * *
37974655 TTAACATTAGCCATTCGGCTTTATCACATATACACATCTCACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
37974703 TTCACATTGGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
* *
37974751 TTTACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
37974799 TTCACATTAGCCATTCGGCTTTACCACATATACATATC
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATC
37974837 ACATTCATCA
Statistics
Matches: 212, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 212 1.00
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCACATATAT
Found at i:37980536 original size:76 final size:76
Alignment explanation
Indices: 37980440--37980593 Score: 263
Period size: 76 Copynumber: 2.0 Consensus size: 76
37980430 TCCTTACTAA
* * * *
37980440 TCATACAACATGAATTGAATTCACACCTCATCAATTTCATGTAAGTACCTGTACCACTCACAATA
1 TCATACAACAAGAATTGAATTCACACATCATCAATTTCATGCAAGTACCTGTACCACTCACAACA
37980505 TAGCCATAAGT
66 TAGCCATAAGT
*
37980516 TCATACAGCAAGAATTGAATTCACACATCATCAATTTCATGCAAGTACCTGTACCACTCACAACA
1 TCATACAACAAGAATTGAATTCACACATCATCAATTTCATGCAAGTACCTGTACCACTCACAACA
37980581 TAGCCATAAGT
66 TAGCCATAAGT
37980592 TC
1 TC
37980594 TATCATTTTG
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.37, C:0.26, G:0.10, T:0.27
Consensus pattern (76 bp):
TCATACAACAAGAATTGAATTCACACATCATCAATTTCATGCAAGTACCTGTACCACTCACAACA
TAGCCATAAGT
Found at i:37980883 original size:98 final size:95
Alignment explanation
Indices: 37980731--37980951 Score: 270
Period size: 98 Copynumber: 2.3 Consensus size: 95
37980721 CATCTAAGTT
*
37980731 GATGCCATGTCCCAAACAGGTCTTACACTGACTTCTATATATCGAGGCCAATGCAATATCCCAGA
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTTCTATATATCGAGGCCAATGC-ATATCCCAGA
* * *
37980796 TAAGTCTTACATTGGCTCTCAT-CTATCGGTGCC
65 CAAGTCTTACACTGGCTCTCATAATAT--G-GCC
* * *
37980829 GATGCCATGTCCCAGACAGGTCTTACACTGGCTTGC-ATATCTC-AGGGCCGATGCATATCCCAG
1 GATGCCATGTCCCAGACAGGTCTTACACTGACTT-CTATATATCGA-GGCCAATGCATATCCCAG
*
37980892 ACATGTCTTACACTGGCTCTCATAATATGGCC
64 ACAAGTCTTACACTGGCTCTCATAATATGGCC
* *
37980924 AATG-CATGTCCCAGACATGTCTTACACT
1 GATGCCATGTCCCAGACAGGTCTTACACT
37980952 AGCACACATA
Statistics
Matches: 110, Mismatches: 10, Indels: 10
0.85 0.08 0.08
Matches are distributed among these distances:
94 23 0.21
95 6 0.05
96 1 0.01
97 30 0.27
98 49 0.45
99 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (95 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTTCTATATATCGAGGCCAATGCATATCCCAGAC
AAGTCTTACACTGGCTCTCATAATATGGCC
Found at i:37980904 original size:48 final size:47
Alignment explanation
Indices: 37980731--37980951 Score: 216
Period size: 49 Copynumber: 4.6 Consensus size: 47
37980721 CATCTAAGTT
* *
37980731 GATGCCATGTCCCAAACAGGTCTTACACTGACT-TCTATATATCGAGGCC
1 GATG-CATGTCCCAGACAGGTCTTACACTGGCTCTC-ATATATCG-GGCC
* * * * * *
37980780 AATGCAATATCCCAGATAAGTCTTACATTGGCTCTCATCTATCGGTGCC
1 GATGC-ATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGG-GCC
*
37980829 GATGCCATGTCCCAGACAGGTCTTACACTGGCT-TGCATATCTCAGGGCC
1 GATG-CATGTCCCAGACAGGTCTTACACTGGCTCT-CATATATC-GGGCC
* *
37980878 GATGCATATCCCAGACATGTCTTACACTGGCTCTCATAATAT--GGCC
1 GATGCATGTCCCAGACAGGTCTTACACTGGCTCTCAT-ATATCGGGCC
* *
37980924 AATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACAGGTCTTACACT
37980952 AGCACACATA
Statistics
Matches: 144, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
46 30 0.21
48 32 0.22
49 77 0.53
50 5 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACAGGTCTTACACTGGCTCTCATATATCGGGCC
Found at i:37987877 original size:36 final size:34
Alignment explanation
Indices: 37987822--37987894 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 34
37987812 AATTGAAAGA
*
37987822 GAAAAGAAAATAATTCAATTCCAAATGGAAATAG
1 GAAAAGAAAATAATCCAATTCCAAATGGAAATAG
* * *
37987856 GAAAAGAGAGAATAATCCAATTTCAAATTGAAGTAG
1 GAAAAGA-A-AATAATCCAATTCCAAATGGAAATAG
37987892 GAA
1 GAA
37987895 TACAAAAGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 7 0.21
35 1 0.03
36 25 0.76
ACGTcount: A:0.53, C:0.08, G:0.18, T:0.21
Consensus pattern (34 bp):
GAAAAGAAAATAATCCAATTCCAAATGGAAATAG
Found at i:37988681 original size:20 final size:18
Alignment explanation
Indices: 37988644--37988694 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
37988634 CTATAGCAAC
37988644 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
37988661 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
37988681 TTACAACTTTACAA
1 TCACAA-TTTACAA
37988695 AATAGCCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:37995494 original size:28 final size:28
Alignment explanation
Indices: 37995431--37995530 Score: 130
Period size: 27 Copynumber: 3.5 Consensus size: 28
37995421 ATAGTGAGTC
*
37995431 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATACAATCAAACT
37995458 CGCACACTTAGTGCTATACAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
* * *
37995486 CGCACACTTAGTGCTGTACAAATTTTAAACC
1 CGCACACTTAGTGCTATAC-AA--TCAAACT
37995517 CGCACACTTAGTGC
1 CGCACACTTAGTGC
37995531 CAATTTCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 2 0.03
31 19 0.29
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:37998805 original size:20 final size:18
Alignment explanation
Indices: 37998768--37998818 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
37998758 CTATAGCAAC
37998768 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
37998785 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
37998805 TTACAACTTTACAA
1 TCACAA-TTTACAA
37998819 AATAGCCATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:38005617 original size:28 final size:28
Alignment explanation
Indices: 38005554--38005653 Score: 130
Period size: 27 Copynumber: 3.5 Consensus size: 28
38005544 ATAGTGAGTC
*
38005554 CGCACACTTAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATACAATCAAACT
38005581 CGCACACTTAGTGCTATACAATCAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
* * *
38005609 CGCACACTTAGTGCTGTACAAATTTTAAACC
1 CGCACACTTAGTGCTATAC-AA--TCAAACT
38005640 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38005654 CAATTTCATG
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 2 0.03
31 19 0.29
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:38007270 original size:120 final size:120
Alignment explanation
Indices: 38007046--38007293 Score: 331
Period size: 120 Copynumber: 2.1 Consensus size: 120
38007036 CGGAATACAA
* *
38007046 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACGACTTGCACAAATG
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACGACTAGCACAAATG
* *
38007111 CCTTCGGGTCTTAGCCCGGATAGAACGACTTGCACAAATGCCTTCGGGTA-TTAGC
66 CCTTCGGGTCTTAACCCGGATAGAACGACTAGCACAAATGCCTTCGGG-ACTTAGC
* * * *
38007166 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGAAT-GTAGTCG-CTAGCACAAT
1 CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGAATAG-A-ACGACTAGCACAAA
* ** * *
38007229 TGCCTTCGGGTCTTAACCCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
64 TGCCTTCGGGTCTTAACCCGGATAGAACGACTAGCACAAATGCCTTCGGGACTTAGC
38007286 CCGGATAT
1 CCGGATAT
38007294 CATTCAATTG
Statistics
Matches: 111, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
119 2 0.02
120 107 0.96
121 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (120 bp):
CCGGATATAACAACATGCACGAATGCCTTCGGGTCTTAGCCCGAATAGAACGACTAGCACAAATG
CCTTCGGGTCTTAACCCGGATAGAACGACTAGCACAAATGCCTTCGGGACTTAGC
Found at i:38007293 original size:40 final size:40
Alignment explanation
Indices: 38007046--38007293 Score: 282
Period size: 40 Copynumber: 6.2 Consensus size: 40
38007036 CGGAATACAA
* * *
38007046 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* *
38007086 CCGAATAGAACGACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* *
38007126 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * *
38007166 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
38007206 CCGAATGTAGTCG-CTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACGACTTGCACAAATGCCTTCGGGTCTTAGC
** * * * *
38007246 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
38007286 CCGGATAT
1 CCGGATAT
38007294 CATTCAATTG
Statistics
Matches: 176, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
40 175 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAACGACTTGCACAAATGCCTTCGGGTCTTAGC
Found at i:38010548 original size:49 final size:48
Alignment explanation
Indices: 38010493--38010678 Score: 189
Period size: 49 Copynumber: 3.8 Consensus size: 48
38010483 CATCTAAGTC
* *
38010493 GATGCCATGTCCCAGACAGGTCTTACACTGACTTACATAAGTCGAGGCT
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTT-CATAACTCGAGGCT
* * * * *
38010542 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATCTATTGGTGTC-
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCT-TCAT-AACTCGAGGCT
* * *
38010591 AATGACATGTCCCAGACAGGTCTTACACTGGCTTGCATATCTCGAGG-T
1 GATGCCATGTCCCAGACAGGTCTTACACTGGCTT-CATAACTCGAGGCT
* *
38010639 CGATG-CATGTCCCAGACATGTGTTACACTGGCTCTCATAA
1 -GATGCCATGTCCCAGACAGGTCTTACACTGGCT-TCATAA
38010679 TGTGGTCGAT
Statistics
Matches: 113, Mismatches: 18, Indels: 13
0.78 0.12 0.09
Matches are distributed among these distances:
48 34 0.30
49 73 0.65
50 6 0.05
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGGCTTCATAACTCGAGGCT
Found at i:38010607 original size:98 final size:97
Alignment explanation
Indices: 38010498--38010676 Score: 279
Period size: 98 Copynumber: 1.8 Consensus size: 97
38010488 AAGTCGATGC
*
38010498 CATGTCCCAGACAGGTCTTACACTGACTTACATAAGTCGAGG-CTGATGCCATGTCCCAGACAGG
1 CATGTCCCAGACAGGTCTTACACTGACTTACATAACTCGAGGTC-GATG-CATGTCCCAGACAGG
38010562 TCTTACACTGGCTCTCATCTATTGGTGTCAATGA
64 TCTTACACTGGCTCTCATCTATTGGTGTCAATGA
* * * * *
38010596 CATGTCCCAGACAGGTCTTACACTGGCTTGCATATCTCGAGGTCGATGCATGTCCCAGACATGTG
1 CATGTCCCAGACAGGTCTTACACTGACTTACATAACTCGAGGTCGATGCATGTCCCAGACAGGTC
38010661 TTACACTGGCTCTCAT
66 TTACACTGGCTCTCAT
38010677 AATGTGGTCG
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
97 31 0.42
98 42 0.57
99 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (97 bp):
CATGTCCCAGACAGGTCTTACACTGACTTACATAACTCGAGGTCGATGCATGTCCCAGACAGGTC
TTACACTGGCTCTCATCTATTGGTGTCAATGA
Found at i:38011404 original size:20 final size:18
Alignment explanation
Indices: 38011367--38011417 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
38011357 CTATAGCAAC
38011367 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
38011384 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
38011404 TTACAACTTTACAA
1 TCACAA-TTTACAA
38011418 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:38012462 original size:43 final size:42
Alignment explanation
Indices: 38012393--38012555 Score: 150
Period size: 43 Copynumber: 3.8 Consensus size: 42
38012383 ATCTTGAACA
* * * *
38012393 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAAACGTGGCCTTACACGAAATCAAATA-CG
*
38012436 ATGCCACTGTCCCAAACAG-GGCCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAAAC-GTGGCCTTACACGAAATCAAATACG
* * * * *
38012478 ATGCCGATATCCCAGACATGGTCTTACACGTAAATCTCAAAT-CG
1 ATGCCAATGTCCCAAACGTGGCCTTACACG-AAA--TCAAATACG
* * *
38012522 ATGCCAAGGTCCCAGACGTGGTCTTACACGAAAT
1 ATGCCAATGTCCCAAACGTGGCCTTACACGAAAT
38012556 TACATACCGA
Statistics
Matches: 100, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
41 1 0.01
42 25 0.25
43 39 0.39
44 29 0.29
45 6 0.06
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAAACGTGGCCTTACACGAAATCAAATACG
Found at i:38012550 original size:86 final size:85
Alignment explanation
Indices: 38012393--38012555 Score: 204
Period size: 86 Copynumber: 1.9 Consensus size: 85
38012383 ATCTTGAACA
* * * **
38012393 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAAACAGGGC
1 ATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAAGGTCCCAAACAGGGC
38012458 CTTACACGAAATCAAATACG
66 CTTACACGAAATCAAATACG
* * *
38012478 ATGCCGATATCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAGGTCCCAGAC-GT
1 ATGCCAATATCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCCAAGGTCCCAAACAG-
*
38012541 GGTCTTACACGAAAT
63 GGCCTTACACGAAAT
38012556 TACATACCGA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
85 28 0.42
86 36 0.55
87 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (85 bp):
ATGCCAATATCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCAAGGTCCCAAACAGGGC
CTTACACGAAATCAAATACG
Found at i:38015527 original size:15 final size:17
Alignment explanation
Indices: 38015492--38015530 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
38015482 TCATTTCTTG
38015492 CTTTTGTTCTTTTTAATT
1 CTTTT-TTCTTTTTAATT
38015510 CTTTTTTC-TTTT-ATT
1 CTTTTTTCTTTTTAATT
38015525 CTTTTT
1 CTTTTT
38015531 ATTGATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 4 0.19
17 3 0.14
18 5 0.24
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.77
Consensus pattern (17 bp):
CTTTTTTCTTTTTAATT
Found at i:38017085 original size:17 final size:19
Alignment explanation
Indices: 38017065--38017105 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
38017055 ATATATTTTT
*
38017065 AAAATATA-T-AATACATC
1 AAAATATACTAAAAACATC
38017082 AAAA-ATACTAAAAACATC
1 AAAATATACTAAAAACATC
38017100 AAAATA
1 AAAATA
38017106 AATATTTCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.15
17 5 0.25
18 11 0.55
19 1 0.05
ACGTcount: A:0.66, C:0.12, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATATACTAAAAACATC
Found at i:38017220 original size:30 final size:30
Alignment explanation
Indices: 38017186--38017248 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
38017176 ACTTAAAAAT
38017186 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
38017216 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
38017246 CAA
1 CAA
38017249 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:38017849 original size:24 final size:24
Alignment explanation
Indices: 38017814--38017887 Score: 112
Period size: 24 Copynumber: 3.1 Consensus size: 24
38017804 TAAATTCCTT
*
38017814 TACGTCCCATAAATGGCTCTCATA
1 TACGTCCCATAAAGGGCTCTCATA
* *
38017838 TACGTCCAATAAAGGGCTCTTATA
1 TACGTCCCATAAAGGGCTCTCATA
*
38017862 TACGTCCCATAAAGGGCACTCATA
1 TACGTCCCATAAAGGGCTCTCATA
38017886 TA
1 TA
38017888 ATAGTGCGCA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (24 bp):
TACGTCCCATAAAGGGCTCTCATA
Found at i:38019725 original size:25 final size:24
Alignment explanation
Indices: 38019697--38019745 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
38019687 TTTCTATCAT
38019697 ATTACTAA-ATTTACAATTAAAAATA
1 ATTA-TAATATTTA-AATTAAAAATA
*
38019722 ATTATAATATTTAATTTAAAAATA
1 ATTATAATATTTAAATTAAAAATA
38019746 TTAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (24 bp):
ATTATAATATTTAAATTAAAAATA
Found at i:38019753 original size:13 final size:15
Alignment explanation
Indices: 38019727--38019758 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
38019717 AAATAATTAT
38019727 AATATTTAATTTAAA
1 AATATTTAATTTAAA
38019742 AATA-TTAA-TTAAA
1 AATATTTAATTTAAA
38019755 AATA
1 AATA
38019759 AAATAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 4 0.24
15 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AATATTTAATTTAAA
Found at i:38020260 original size:13 final size:15
Alignment explanation
Indices: 38020226--38020262 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
38020216 TAATTATCAC
38020226 TTAATTAATATTAGAG
1 TTAATT-ATATTAGAG
38020242 TTAATTATATTA-A-
1 TTAATTATATTAGAG
38020255 TTAATTAT
1 TTAATTAT
38020263 CAGTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 8 0.38
14 1 0.05
15 6 0.29
16 6 0.29
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TTAATTATATTAGAG
Found at i:38027247 original size:40 final size:40
Alignment explanation
Indices: 38027102--38027287 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
38027092 GCTACTCGTT
*
38027102 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
38027142 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
38027182 CAAATGCCTTCGGGACGTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38027222 CAAATGCCTTC-GGATCTTAGTCCGGATATAATCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38027263 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38027288 CATCATTCGA
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38040097 original size:40 final size:40
Alignment explanation
Indices: 38040048--38040214 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
38040038 TCTTCGGAAT
* ** *
38040048 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
* * *** *
38040087 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
38040127 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
*
38040167 TTAGCCCGGATATAATC-ACTCGCATAAATGCCTTCGGG-C
1 TTAGCCCGGATATAA-CAACTCGCACAAATGCCTTCGGGTC
38040206 TTAGCCCGG
1 TTAGCCCGG
38040215 GTATCATTCA
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 13 0.12
40 94 0.87
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTC
Found at i:38048132 original size:40 final size:40
Alignment explanation
Indices: 38048034--38048180 Score: 172
Period size: 40 Copynumber: 3.7 Consensus size: 40
38048024 ATAACCACAA
* * * *** *
38048034 GCACAATTGCCTTCGGGTCTTAACCC-GATTTGGTAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
38048073 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
38048113 GCACGAATGCCTTCGGGTCTTAGCCCGAATATAATC-ACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* *
38048153 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
38048181 GTATCATTCA
Statistics
Matches: 93, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 24 0.26
40 68 0.73
41 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:38053859 original size:27 final size:27
Alignment explanation
Indices: 38053829--38053884 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
38053819 TATTGAAAAC
38053829 ATCAAGATGTCTTCTATAAACACAACT
1 ATCAAGATGTCTTCTATAAACACAACT
38053856 ATCAAGATGTCTTCTATAAACACAACT
1 ATCAAGATGTCTTCTATAAACACAACT
38053883 AT
1 AT
38053885 GAACTGATCC
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:0.41, C:0.21, G:0.07, T:0.30
Consensus pattern (27 bp):
ATCAAGATGTCTTCTATAAACACAACT
Found at i:38060839 original size:68 final size:70
Alignment explanation
Indices: 38060741--38060896 Score: 167
Period size: 68 Copynumber: 2.2 Consensus size: 70
38060731 CATCATGTGT
* * ** * * *
38060741 ACAAGAGAGCTACGAGATACTATGTAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CC
1 ACAAGAGAGCTACGAGAGAATAAATAGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CACC
38060803 ATGTAG
65 ATGTAG
** *
38060809 ACAAGAGAGCTACGAGAGAGATAAAT-GTAGCTAGGTTGCATGTGTGATTCCAAGTGAAGGACAC
1 ACAAGAGAGCTACGAGAGA-ATAAATAGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACAC
38060873 CATGTAG
64 CATGTAG
38060880 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
38060897 TAAATTGGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
68 37 0.51
69 4 0.05
70 1 0.01
71 31 0.42
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (70 bp):
ACAAGAGAGCTACGAGAGAATAAATAGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACCA
TGTAG
Found at i:38067751 original size:13 final size:13
Alignment explanation
Indices: 38067733--38067758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
38067723 GCTCGACAGG
38067733 GACACGCCCATGT
1 GACACGCCCATGT
38067746 GACACGCCCATGT
1 GACACGCCCATGT
38067759 ACGATTGCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.38, G:0.23, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:38068440 original size:96 final size:96
Alignment explanation
Indices: 38068273--38068462 Score: 353
Period size: 96 Copynumber: 2.0 Consensus size: 96
38068263 AGGCTGAACA
*
38068273 CGACCCTGTCCTGCAGCTTGCATCTAAGTAAACCCCTGAGTACAGTTCTTAAACTGATGATCCAT
1 CGACCCTGTCCTGCAACTTGCATCTAAGTAAACCCCTGAGTACAGTTCTTAAACTGATGATCCAT
*
38068338 AGACCCACATCTAAAGCATGCCCCAGTTCGT
66 AAACCCACATCTAAAGCATGCCCCAGTTCGT
*
38068369 CGACCCTGTCCTGCAACTTGCATCTAAGTAAACCCCTGAGTACTGTTCTTAAACTGATGATCCAT
1 CGACCCTGTCCTGCAACTTGCATCTAAGTAAACCCCTGAGTACAGTTCTTAAACTGATGATCCAT
38068434 AAACCCACATCTAAAGCATGCCCCAGTTC
66 AAACCCACATCTAAAGCATGCCCCAGTTC
38068463 TTTTCCAACA
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 91 1.00
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (96 bp):
CGACCCTGTCCTGCAACTTGCATCTAAGTAAACCCCTGAGTACAGTTCTTAAACTGATGATCCAT
AAACCCACATCTAAAGCATGCCCCAGTTCGT
Found at i:38072267 original size:22 final size:22
Alignment explanation
Indices: 38072236--38072300 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
38072226 AATACGTTTG
* *
38072236 GCACAAAGCCATAGTCTAGATT
1 GCACAGAGCCATAATCTAGATT
* * *
38072258 GCACAGAGCCAT-TTTTAGGTT
1 GCACAGAGCCATAATCTAGATT
38072279 GTCACAGAGCCATAATC-AGATT
1 G-CACAGAGCCATAATCTAGATT
38072301 ACACGACTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 7 0.21
22 26 0.76
23 1 0.03
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (22 bp):
GCACAGAGCCATAATCTAGATT
Found at i:38076917 original size:48 final size:48
Alignment explanation
Indices: 38076830--38076967 Score: 127
Period size: 48 Copynumber: 2.9 Consensus size: 48
38076820 ATACATAGAT
* * * ** *
38076830 TTGGCTTTGGGCCATGATATCGGCACTTCAGGTTTGAGATTCATTGA-
1 TTGGCTTCGGGCCATGATATCAGCACTTCGGGTGCGAGATTCATTAAG
*
38076877 TGTGGCTTCGGGCCATGATATTAGCACTTCGGGTGCGAGATAT-ATTAAG
1 T-TGGCTTCGGGCCATGATATCAGCACTTCGGGTGCGAGAT-TCATTAAG
* * * * * *
38076926 TTGGCTTCGGGTCATAATATGAGCACTTAGTGTGCGAAATTC
1 TTGGCTTCGGGCCATGATATCAGCACTTCGGGTGCGAGATTC
38076968 CTAAGTATCC
Statistics
Matches: 74, Mismatches: 13, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
47 2 0.03
48 70 0.95
49 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (48 bp):
TTGGCTTCGGGCCATGATATCAGCACTTCGGGTGCGAGATTCATTAAG
Done.