Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 155 of 352
Found at i:50861202 original size:47 final size:49
Alignment explanation
Indices: 50861078--50861203 Score: 123
Period size: 47 Copynumber: 2.6 Consensus size: 49
50861068 TATTATCAAG
* *
50861078 AATTTTATGAAATTATATATTATTAAATTATATGTAATAATAATTATTTTA
1 AATTTTATCAAATCATATATT-TT-AATTATATGTAATAATAATTATTTTA
* *** * *
50861129 AATTATA-CAAATTCATATAAGATAATT-TAT-TAGTTATAATTATTTTA
1 AATTTTATCAAA-TCATATATTTTAATTATATGTAATAATAATTATTTTA
*
50861176 AATTTTATTAAATCATATATTTTAATTA
1 AATTTTATCAAATCATATATTTTAATTA
50861204 AAATATATAA
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
47 33 0.56
48 6 0.10
49 4 0.07
50 4 0.07
51 12 0.20
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.50
Consensus pattern (49 bp):
AATTTTATCAAATCATATATTTTAATTATATGTAATAATAATTATTTTA
Found at i:50861205 original size:18 final size:17
Alignment explanation
Indices: 50861177--50861224 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
50861167 ATTATTTTAA
50861177 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAAT-ATAT
50861194 ATTTTAATTAAAATATAT
1 ATTTTAATT-AAATATAT
* *
50861212 AATTTAATAAAAT
1 ATTTTAATTAAAT
50861225 TCTTAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 9 0.33
18 14 0.52
19 4 0.15
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:50861415 original size:26 final size:28
Alignment explanation
Indices: 50861386--50861446 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
50861376 TATGAATTTT
*
50861386 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
50861412 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
50861440 TAAAATT
1 TATAATT
50861447 CTTGATAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:50861444 original size:47 final size:46
Alignment explanation
Indices: 50861393--50861536 Score: 113
Period size: 47 Copynumber: 3.1 Consensus size: 46
50861383 TTTTATAATT
50861393 TAAAATAATTATTATTACATATAATTTAATAATAATATATAATTTCA
1 TAAAATAATTATTATTA-ATATAATTTAATAATAATATATAATTTCA
* ** * *
50861440 TAAAAT--TCT-TGA-TAATA-AATTTTCTTATATGAATTTATACAATT--
1 TAAAATAAT-TATTATTAATATAA-TTTAATA-AT-AATATATA-ATTTCA
* *
50861484 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATTATTATT-AATATAATTTAATAATAATATATAATTTCA
50861531 TAAAAT
1 TAAAAT
50861537 TCTTAATAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 26
0.65 0.11 0.24
Matches are distributed among these distances:
42 2 0.03
43 8 0.11
44 10 0.14
45 14 0.19
46 12 0.17
47 15 0.21
48 9 0.12
49 2 0.03
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (46 bp):
TAAAATAATTATTATTAATATAATTTAATAATAATATATAATTTCA
Found at i:50861456 original size:91 final size:90
Alignment explanation
Indices: 50861361--50861568 Score: 326
Period size: 91 Copynumber: 2.3 Consensus size: 90
50861351 TAATTATAAC
* * * *
50861361 TAATAAATTATCTTATATGAATTTTTATAATTTAAAATAATTATTATTACATATAATTTAATAAT
1 TAATAAATT-TCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
50861426 AATATATAATTTCATAAAATTCTTGA
65 AATATATAATTTCATAAAATTCTTAA
50861452 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAA-TTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
50861517 GATATATAATTTCATAAAATTCTTAA
65 AATATATAATTTCATAAAATTCTTAA
50861543 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAAT-TTCTTATATGAATTTA
50861569 CTAAAATCAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
91 87 0.81
92 21 0.19
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (90 bp):
TAATAAATTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAATA
ATATATAATTTCATAAAATTCTTAA
Found at i:50861528 original size:44 final size:43
Alignment explanation
Indices: 50861386--50861528 Score: 119
Period size: 44 Copynumber: 3.2 Consensus size: 43
50861376 TATGAATTTT
* *
50861386 TATAATTTAAAATAATTATTATTACATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
** * * * *
50861430 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
50861477 TACAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
50861521 TATAATTT
1 TATAATTT
50861529 CATAAAATTC
Statistics
Matches: 74, Mismatches: 16, Indels: 18
0.69 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 32 0.43
45 7 0.09
46 7 0.09
47 22 0.30
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.46
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:50861543 original size:47 final size:47
Alignment explanation
Indices: 50861411--50861549 Score: 137
Period size: 47 Copynumber: 3.0 Consensus size: 47
50861401 TTATTATTAC
* *
50861411 ATATAATTTAATAATAATATATAATTTCATAAAATTCTTGATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
* * * ** *
50861458 AT-T--TTCTTAT-ATGAATTTATACAATT--TAAAATAATTAATATTAA
1 ATATAATT-TAATAATG-ATATATA-ATTTCATAAAATTCTTAATAATAA
50861502 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
1 ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
50861549 A
1 A
50861550 ATGTTCTTAT
Statistics
Matches: 69, Mismatches: 14, Indels: 18
0.68 0.14 0.18
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 13 0.19
47 23 0.33
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (47 bp):
ATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAATAA
Found at i:50868121 original size:48 final size:48
Alignment explanation
Indices: 50868065--50868163 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
50868055 TGATAGAAGT
50868065 ATGAAATATTACCCATATTTGGCAATATGCGGTCAGAAATAAGCATGG
1 ATGAAATATTACCCATATTTGGCAATATGCGGTCAGAAATAAGCATGG
*
50868113 ATGAAATATTACCCATATTTGGCAATATGGGGTCAGAAATAAGCATGG
1 ATGAAATATTACCCATATTTGGCAATATGCGGTCAGAAATAAGCATGG
50868161 ATG
1 ATG
50868164 GATGTCGAAC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (48 bp):
ATGAAATATTACCCATATTTGGCAATATGCGGTCAGAAATAAGCATGG
Found at i:50878714 original size:3 final size:3
Alignment explanation
Indices: 50878706--50878730 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
50878696 GTTTTAAGTA
50878706 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
50878731 TTAATGAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:50879426 original size:20 final size:19
Alignment explanation
Indices: 50879372--50879436 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 19
50879362 TTTTATGAAT
*
50879372 AAAAGATTTATTAATTAAA
1 AAAAAATTTATTAATTAAA
*
50879391 AAGATAAA-TTA-AAATTAAA
1 AA-A-AAATTTATTAATTAAA
50879410 AAAAATATTTATTAATTAAA
1 AAAAA-ATTTATTAATTAAA
50879430 AATAAAA
1 AA-AAAA
50879437 AACTTGAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
17 2 0.05
18 2 0.05
19 14 0.38
20 14 0.38
21 5 0.14
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (19 bp):
AAAAAATTTATTAATTAAA
Found at i:50881533 original size:32 final size:32
Alignment explanation
Indices: 50881487--50881568 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
50881477 TGTCAATCAT
*
50881487 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
** * *
50881519 TTCAATATGTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
50881551 TTCAAAATCCAACAAATT
1 TTCAATATCCAACAAATT
50881569 AAATTTTCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.05
32 39 0.95
ACGTcount: A:0.51, C:0.17, G:0.04, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:50885995 original size:40 final size:40
Alignment explanation
Indices: 50885940--50886017 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
50885930 GGAATGAGAG
* * *
50885940 TTGCCTGAGAAAGAGAGAAAGAGATGAATGAGATTTGCCT
1 TTGCCAGAGAAAGAGAGAAAAAGAGGAATGAGATTTGCCT
50885980 TTGCCAGAGAAAGAGAGAAAAAGAGGAATGAGATTTGC
1 TTGCCAGAGAAAGAGAGAAAAAGAGGAATGAGATTTGC
50886018 AGAAAAAGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (40 bp):
TTGCCAGAGAAAGAGAGAAAAAGAGGAATGAGATTTGCCT
Found at i:50886017 original size:34 final size:34
Alignment explanation
Indices: 50885926--50886035 Score: 100
Period size: 40 Copynumber: 3.1 Consensus size: 34
50885916 AGACCTTGCG
* *
50885926 AAGAGGAATGAGAGTTGCCTGAGAAAGAGAGAAA
1 AAGAGGAATGAGATTTGCCAGAGAAAGAGAGAAA
* *
50885960 GAGATGAATGAGATTTGCCTTTGCCAGAGAAAGAGAGAAA
1 AAGAGGAATGAGA------TTTGCCAGAGAAAGAGAGAAA
50886000 AAGAGGAATGAGATTTG-CAGA-AAA-AGAGAAA
1 AAGAGGAATGAGATTTGCCAGAGAAAGAGAGAAA
*
50886031 GAGAG
1 AAGAG
50886036 AAAAATGATG
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
31 11 0.17
32 3 0.05
33 4 0.06
34 15 0.24
40 30 0.48
ACGTcount: A:0.46, C:0.06, G:0.33, T:0.15
Consensus pattern (34 bp):
AAGAGGAATGAGATTTGCCAGAGAAAGAGAGAAA
Found at i:50886554 original size:6 final size:7
Alignment explanation
Indices: 50886518--50886552 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
50886508 AATTAGATTT
50886518 TTAAAAA
1 TTAAAAA
50886525 TTAAAAA
1 TTAAAAA
50886532 TTAAAAA
1 TTAAAAA
*
50886539 ATAATAAA
1 TTAA-AAA
50886547 TTAAAA
1 TTAAAA
50886553 TTTTTAAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TTAAAAA
Found at i:50889210 original size:20 final size:20
Alignment explanation
Indices: 50889164--50889315 Score: 66
Period size: 20 Copynumber: 7.6 Consensus size: 20
50889154 GTATAAACTA
*
50889164 TAATTCATCCATATAACTAG
1 TAATTCATCCATATAACCAG
* * *
50889184 TAGTTCATCCGTATAACCCG
1 TAATTCATCCATATAACCAG
*
50889204 TAATTCAT-CAGTAATAA-CAA
1 TAATTCATCCA-T-ATAACCAG
* * *
50889224 TAATTTATCCGTATCAA-AAG
1 TAATTCATCCATAT-AACCAG
***
50889244 TAATTCATTTGTATTAA-CAG
1 TAATTCATCCATA-TAACCAG
* *
50889264 TAATTCATACATATCAA-CAA
1 TAATTCATCCATAT-AACCAG
*
50889284 TAATTCATTCA-ATTCAA-CAG
1 TAATTCATCCATA-T-AACCAG
50889304 TAATTCATCCAT
1 TAATTCATCCAT
50889316 TAATACAATA
Statistics
Matches: 101, Mismatches: 23, Indels: 15
0.73 0.17 0.11
Matches are distributed among these distances:
19 5 0.05
20 90 0.89
21 6 0.06
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (20 bp):
TAATTCATCCATATAACCAG
Found at i:50889247 original size:40 final size:41
Alignment explanation
Indices: 50889203--50889291 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 41
50889193 CGTATAACCC
* * *
50889203 GTAATTCATCAGTAATAACAATAATTTATCCGTATCAA-AA
1 GTAATTCATCAGTAATAACAATAATTCATACATATCAACAA
** * *
50889243 GTAATTCATTTGTATTAACAGTAATTCATACATATCAACAA
1 GTAATTCATCAGTAATAACAATAATTCATACATATCAACAA
50889284 -TAATTCAT
1 GTAATTCAT
50889292 TCAATTCAAC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
40 39 0.95
41 2 0.05
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.36
Consensus pattern (41 bp):
GTAATTCATCAGTAATAACAATAATTCATACATATCAACAA
Found at i:50889292 original size:40 final size:40
Alignment explanation
Indices: 50889235--50889311 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
50889225 AATTTATCCG
**
50889235 TATCAAAAGTAATTCATTTGTATT-AACAGTAATTCATACA
1 TATCAAAAGTAATTCA-TTCAATTCAACAGTAATTCATACA
50889275 TATCAACAA-TAATTCATTCAATTCAACAGTAATTCAT
1 TATCAA-AAGTAATTCATTCAATTCAACAGTAATTCAT
50889312 CCATTAATAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 5 0.15
40 26 0.79
41 2 0.06
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (40 bp):
TATCAAAAGTAATTCATTCAATTCAACAGTAATTCATACA
Found at i:50889538 original size:26 final size:24
Alignment explanation
Indices: 50889509--50889567 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
50889499 GTCATGGTCG
*
50889509 GTAAACTCCTTCTGAGCTGATAAACA
1 GTAAACT-CTTCTGAGCT-AAAAACA
* *
50889535 GTAAGCTCTTTTGAGCTAAAAACA
1 GTAAACTCTTCTGAGCTAAAAACA
*
50889559 GTAAGCTCT
1 GTAAACTCT
50889568 ATTCAGCTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 15 0.50
25 9 0.30
26 6 0.20
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (24 bp):
GTAAACTCTTCTGAGCTAAAAACA
Found at i:50889549 original size:25 final size:25
Alignment explanation
Indices: 50889521--50889624 Score: 94
Period size: 24 Copynumber: 4.4 Consensus size: 25
50889511 AAACTCCTTC
* *
50889521 TGAGCTGATAAACAGTAAGCTCTTT
1 TGAGCTGAAAAACAGTAAGCTCTAT
50889546 TGAGCT-AAAAACAGTAAGCTCTAT
1 TGAGCTGAAAAACAGTAAGCTCTAT
* *
50889570 TCAGCTG---AACAGTAAGCTTTAT
1 TGAGCTGAAAAACAGTAAGCTCTAT
* * * *
50889592 CGAGCTG--AATCGGTAAGCTCTAA
1 TGAGCTGAAAAACAGTAAGCTCTAT
50889615 TGAGCTGAAA
1 TGAGCTGAAA
50889625 CAGTAAACTT
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
22 19 0.30
23 17 0.27
24 21 0.33
25 7 0.11
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (25 bp):
TGAGCTGAAAAACAGTAAGCTCTAT
Found at i:50889587 original size:46 final size:46
Alignment explanation
Indices: 50889530--50889635 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 46
50889520 CTGAGCTGAT
* *
50889530 AAACAGTAAGCTCTT-TTGAGCTAAAAACAGTAAGCTCTATTCAGCTG
1 AAACAGTAAGCT-TTATCGAGCT-AAAACAGTAAGCTCTAATCAGCTG
* * * *
50889577 -AACAGTAAGCTTTATCGAGCTGAATCGGTAAGCTCTAATGAGCTG
1 AAACAGTAAGCTTTATCGAGCTAAAACAGTAAGCTCTAATCAGCTG
*
50889622 AAACAGTAAACTTT
1 AAACAGTAAGCTTT
50889636 TATAAGCTGA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
45 21 0.42
46 29 0.58
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (46 bp):
AAACAGTAAGCTTTATCGAGCTAAAACAGTAAGCTCTAATCAGCTG
Found at i:50889610 original size:23 final size:22
Alignment explanation
Indices: 50889533--50889656 Score: 79
Period size: 23 Copynumber: 5.4 Consensus size: 22
50889523 AGCTGATAAA
* * *
50889533 CAGTAAGCTCTTTTGAGCTAAAAA
1 CAGTAAGCT-TTATGAGCT-GAAT
* *
50889557 CAGTAAGCTCTATTCAGCTGAA-
1 CAGTAAGCTTTA-TGAGCTGAAT
50889579 CAGTAAGCTTTATCGAGCTGAAT
1 CAGTAAGCTTTAT-GAGCTGAAT
* * *
50889602 CGGTAAGCTCTAATGAGCTGAAA
1 CAGTAAGCT-TTATGAGCTGAAT
* *
50889625 CAGTAAACTTTTATAAGCTGAAT
1 CAGTAAGC-TTTATGAGCTGAAT
**
50889648 TGGTAAGCT
1 CAGTAAGCT
50889657 CGTAAGATCT
Statistics
Matches: 78, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
21 1 0.01
22 19 0.24
23 40 0.51
24 18 0.23
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (22 bp):
CAGTAAGCTTTATGAGCTGAAT
Found at i:50889622 original size:45 final size:46
Alignment explanation
Indices: 50889559--50889657 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 46
50889549 GCTAAAAACA
* * *
50889559 GTAAGCTCTATTCAGCTG-AACAGTAAGC-TTTATCGAGCTGAATCG
1 GTAAGCTCTAATCAGCTGAAACAGTAAACTTTTAT-AAGCTGAATCG
* *
50889604 GTAAGCTCTAATGAGCTGAAACAGTAAACTTTTATAAGCTGAATTG
1 GTAAGCTCTAATCAGCTGAAACAGTAAACTTTTATAAGCTGAATCG
50889650 GTAAGCTC
1 GTAAGCTC
50889658 GTAAGATCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
45 16 0.34
46 26 0.55
47 5 0.11
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (46 bp):
GTAAGCTCTAATCAGCTGAAACAGTAAACTTTTATAAGCTGAATCG
Found at i:50893827 original size:45 final size:45
Alignment explanation
Indices: 50893582--50893970 Score: 234
Period size: 45 Copynumber: 8.6 Consensus size: 45
50893572 AGGAAATTAT
* * * *
50893582 TAAGACCATAGTTGAAAGACACTATGACACTATAC-CA-GAAATAAA
1 TAAGACCATAGTTGAAAGACACTATGACA-T-CACGAATCAAATGAA
* * * * * *
50893627 TAAGACCATAGTTGAAAGACACTATGGCATCA-TACTAGAAACGAG
1 TAAGACCATAGTTGAAAGACACTATGACATCACGAAT-CAAATGAA
* ** * * * *
50893672 TAAGACCATAGCTGAAAGACGTTATGACATCACGATTCTATTGAG
1 TAAGACCATAGTTGAAAGACACTATGACATCACGAATCAAATGAA
** ** * * *
50893717 TAAGACCATAACTGAAAGACGTTATGACATCACGATTC-TATCGAG
1 TAAGACCATAGTTGAAAGACACTATGACATCACGAATCAAAT-GAA
* * * * *
50893762 TAAGAGCATAGCTGAAAGACATTATGGCATCATGAATCAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGACATCACGAATCAAATGAA
* * * **
50893807 TAAGACCATAGTTGAAAGACACTATGGCAACAAGAAAGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGACATCACG-AATCAAATGAA
* * * **
50893853 TAAGACCATAGTTGAAAAACACTAAGGCGA-CACGACAGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGAC-ATCACGA-ATCAAATGAA
* * * * *
50893899 TTAGAACATGGTTGAAAGACACTATGACATCA--AGTCGAGAATAAA
1 TAAGACCATAGTTGAAAGACACTATGACATCACGAATC-A-AATGAA
* *
50893944 TAAGACCATGGTTGAAAGACACCATGA
1 TAAGACCATAGTTGAAAGACACTATGA
50893971 AACCCTCTGA
Statistics
Matches: 281, Mismatches: 51, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
43 1 0.00
44 4 0.01
45 199 0.71
46 76 0.27
47 1 0.00
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.20
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGACATCACGAATCAAATGAA
Found at i:50893862 original size:46 final size:45
Alignment explanation
Indices: 50893762--50893965 Score: 201
Period size: 46 Copynumber: 4.5 Consensus size: 45
50893752 TTCTATCGAG
* * * * * **
50893762 TAAGAGCATAGCTGAAAGACATTATGGCATCATGAATCAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACAAGAAGAAAATGAA
50893807 TAAGACCATAGTTGAAAGACACTATGGCAACAAGAAAGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACAAG-AAGAAAATGAA
* * * *
50893853 TAAGACCATAGTTGAAAAACACTAAGGCGACACGACAGAAAATGAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACAAGA-AGAAAATGAA
* * * * * ** * *
50893899 TTAGAACATGGTTGAAAGACACTATGACATCAAGTCGAGAATAAA
1 TAAGACCATAGTTGAAAGACACTATGGCAACAAGAAGAAAATGAA
*
50893944 TAAGACCATGGTTGAAAGACAC
1 TAAGACCATAGTTGAAAGACAC
50893966 CATGAAACCC
Statistics
Matches: 131, Mismatches: 26, Indels: 4
0.81 0.16 0.02
Matches are distributed among these distances:
45 57 0.44
46 74 0.56
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (45 bp):
TAAGACCATAGTTGAAAGACACTATGGCAACAAGAAGAAAATGAA
Found at i:50895849 original size:20 final size:21
Alignment explanation
Indices: 50895819--50895860 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
50895809 GGATGTCATC
*
50895819 ATTTGAAAAAATATTAAAAAT
1 ATTTGAAAAAATATAAAAAAT
50895840 ATTT-AAAAAATATAAAAAAT
1 ATTTGAAAAAATATAAAAAAT
50895860 A
1 A
50895861 CAAAAATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
ATTTGAAAAAATATAAAAAAT
Found at i:50895858 original size:10 final size:9
Alignment explanation
Indices: 50895824--50895872 Score: 53
Period size: 9 Copynumber: 5.1 Consensus size: 9
50895814 TCATCATTTG
50895824 AAAAAATATT
1 AAAAAATA-T
*
50895834 AAAAATATTT
1 AAAAA-ATAT
50895844 AAAAAATAT
1 AAAAAATAT
*
50895853 AAAAAATAC
1 AAAAAATAT
50895862 AAAAATATAT
1 AAAAA-ATAT
50895872 A
1 A
50895873 TTTTTTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 16 0.48
10 15 0.45
11 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAAAATAT
Found at i:50896307 original size:29 final size:29
Alignment explanation
Indices: 50896265--50896399 Score: 120
Period size: 30 Copynumber: 4.7 Consensus size: 29
50896255 CAAAAAAAAT
50896265 ATAAAAA-AT-AAAAATTATTAAACTTTA
1 ATAAAAATATAAAAAATTATTAAACTTTA
*
50896292 ATAAAAATATAAAAAAATATTTAAACTTTA
1 ATAAAAATATAAAAAATTA-TTAAACTTTA
*
50896322 CTAAAAAT-TAGAAAAA-TATATAAA-TTGTA
1 ATAAAAATATA-AAAAATTAT-TAAACTT-TA
* * * * *
50896351 A-AAAAATATAAAAAACTCTAAAATTTTT
1 ATAAAAATATAAAAAATTATTAAACTTTA
50896379 ATAAAAATCATAAAAAATTAT
1 ATAAAAAT-ATAAAAAATTAT
50896400 AAAATACATC
Statistics
Matches: 89, Mismatches: 8, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
27 7 0.08
28 21 0.24
29 29 0.33
30 32 0.36
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (29 bp):
ATAAAAATATAAAAAATTATTAAACTTTA
Found at i:50896316 original size:30 final size:30
Alignment explanation
Indices: 50896265--50896365 Score: 115
Period size: 29 Copynumber: 3.5 Consensus size: 30
50896255 CAAAAAAAAT
*
50896265 ATAAAAA-AT-AAAAATTA-TTAAACTTTA
1 ATAAAAATATAAAAAAATATTTAAACTTTA
50896292 ATAAAAATATAAAAAAATATTTAAACTTTA
1 ATAAAAATATAAAAAAATATTTAAACTTTA
* * *
50896322 CTAAAAAT-TAGAAAAATATATAAA-TTGTA
1 ATAAAAATATAAAAAAATATTTAAACTT-TA
50896351 A-AAAAATATAAAAAA
1 ATAAAAATATAAAAAA
50896366 CTCTAAAATT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
27 7 0.11
28 10 0.16
29 29 0.46
30 17 0.27
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (30 bp):
ATAAAAATATAAAAAAATATTTAAACTTTA
Found at i:50896663 original size:10 final size:10
Alignment explanation
Indices: 50896648--50896692 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
50896638 TTCTTACGAC
50896648 TTTATAAATT
1 TTTATAAATT
50896658 TTTATAAATTT
1 TTTATAAA-TT
* *
50896669 TTTCTATATT
1 TTTATAAATT
*
50896679 TTTATAGATT
1 TTTATAAATT
50896689 TTTA
1 TTTA
50896693 CACTTTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTATAAATT
Found at i:50896679 original size:21 final size:21
Alignment explanation
Indices: 50896655--50896753 Score: 69
Period size: 21 Copynumber: 4.5 Consensus size: 21
50896645 GACTTTATAA
50896655 ATTTTTATAAATTTTTTCTAT
1 ATTTTTATAAATTTTTTCTAT
* *
50896676 ATTTTTATAGATTTTTAC-ACT
1 ATTTTTATAAATTTTTTCTA-T
* *
50896697 TTTTTTATAAAATTTTACATTTTAT
1 ATTTTTAT-AAATTTT---TTCTAT
*
50896722 GTTTTTAT-AATATTTTTCTAT
1 ATTTTTATAAAT-TTTTTCTAT
50896743 -TTTTTAATAAA
1 ATTTTT-ATAAA
50896754 AATTAAATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
20 6 0.10
21 31 0.51
22 8 0.13
23 3 0.05
24 3 0.05
25 9 0.15
26 1 0.02
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTTTTATAAATTTTTTCTAT
Found at i:50896784 original size:27 final size:29
Alignment explanation
Indices: 50896754--50896807 Score: 69
Period size: 27 Copynumber: 1.9 Consensus size: 29
50896744 TTTTAATAAA
50896754 AATTAAAT-ATTTCTTAT-A-TTTTATTAC
1 AATTAAATAATTT-TTATAACTTTTATTAC
*
50896781 AATTTAATAATTTTTATAACTTTTATT
1 AATTAAATAATTTTTATAACTTTTATT
50896808 GATCTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 11 0.48
28 5 0.22
29 7 0.30
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (29 bp):
AATTAAATAATTTTTATAACTTTTATTAC
Found at i:50897313 original size:21 final size:21
Alignment explanation
Indices: 50897272--50897327 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
50897262 AAAAAAAATT
*
50897272 TATAAAGAAAATTATACGTTTA
1 TATAAA-AAATTTATACGTTTA
* *
50897294 TATAAAAATTTTATATGTTTA
1 TATAAAAAATTTATACGTTTA
50897315 TATAAAAAATTTA
1 TATAAAAAATTTA
50897328 AATATATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 24 0.80
22 6 0.20
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (21 bp):
TATAAAAAATTTATACGTTTA
Found at i:50897335 original size:19 final size:19
Alignment explanation
Indices: 50897313--50897364 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
50897303 TTTATATGTT
50897313 TATATAAAAAATTTAAATA
1 TATATAAAAAATTTAAATA
* * *
50897332 TATATTAGAAATTTTAATA
1 TATATAAAAAATTTAAATA
* *
50897351 T-TTTAAAAATTTTA
1 TATATAAAAAATTTA
50897365 TAAATCACAT
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TATATAAAAAATTTAAATA
Found at i:50897351 original size:17 final size:17
Alignment explanation
Indices: 50897331--50897364 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50897321 AAATTTAAAT
*
50897331 ATATATTAGAAATTTTA
1 ATATATTAAAAATTTTA
*
50897348 ATATTTTAAAAATTTTA
1 ATATATTAAAAATTTTA
50897365 TAAATCACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
ATATATTAAAAATTTTA
Found at i:50901021 original size:14 final size:15
Alignment explanation
Indices: 50900985--50901025 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
50900975 ATTTCTTTTT
50900985 TTTAATTA-TACTAAC
1 TTTAATTATTA-TAAC
*
50901000 TTTTATTATTAT-AC
1 TTTAATTATTATAAC
50901014 TTTAATTATTAT
1 TTTAATTATTAT
50901026 TATATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 13 0.57
15 8 0.35
16 2 0.09
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTAATTATTATAAC
Found at i:50901510 original size:23 final size:19
Alignment explanation
Indices: 50901468--50901506 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
50901458 CTGATAAGTA
50901468 TAAAAATGTTTGTCATGAG
1 TAAAAATGTTTGTCATGAG
50901487 TAAAAATGTTTGTCATGAG
1 TAAAAATGTTTGTCATGAG
50901506 T
1 T
50901507 GAGTCAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (19 bp):
TAAAAATGTTTGTCATGAG
Found at i:50901750 original size:38 final size:38
Alignment explanation
Indices: 50901699--50901775 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
50901689 CGTAACTGGC
* * *
50901699 AGGTTATGGCATCATATGGAAAGAAAACCATATTGTGT
1 AGGTTATGACATCATATAGAAAGAAAACCATATCGTGT
*
50901737 AGGTTATGACATCATATAGAAAGAAGACCATATCGTGT
1 AGGTTATGACATCATATAGAAAGAAAACCATATCGTGT
50901775 A
1 A
50901776 AGATTGTAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.22, T:0.27
Consensus pattern (38 bp):
AGGTTATGACATCATATAGAAAGAAAACCATATCGTGT
Found at i:50908794 original size:21 final size:21
Alignment explanation
Indices: 50908770--50908833 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
50908760 TAAAGAACAT
*
50908770 TTACCTTGCGAGAAAGATGAC
1 TTACATTGCGAGAAAGATGAC
* * * *
50908791 TTACATTG-TAG-AGGA-CAT
1 TTACATTGCGAGAAAGATGAC
50908809 TTACATTGCGAGAAAGATGAC
1 TTACATTGCGAGAAAGATGAC
50908830 TTAC
1 TTAC
50908834 TTCAGTAGAT
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
18 9 0.29
19 5 0.16
20 5 0.16
21 12 0.39
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (21 bp):
TTACATTGCGAGAAAGATGAC
Found at i:50908798 original size:39 final size:39
Alignment explanation
Indices: 50908754--50908833 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
50908744 AAGATAAGTG
*
50908754 ACATTGTAAAGAACATTTACCTTGCGAGAAAGATGACTT
1 ACATTGTAAAGAACATTTACATTGCGAGAAAGATGACTT
* *
50908793 ACATTGTAGAGGACATTTACATTGCGAGAAAGATGACTT
1 ACATTGTAAAGAACATTTACATTGCGAGAAAGATGACTT
50908832 AC
1 AC
50908834 TTCAGTAGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.28
Consensus pattern (39 bp):
ACATTGTAAAGAACATTTACATTGCGAGAAAGATGACTT
Found at i:50910390 original size:48 final size:48
Alignment explanation
Indices: 50910301--50910425 Score: 151
Period size: 48 Copynumber: 2.6 Consensus size: 48
50910291 TTCCAAAAAT
* * * * *
50910301 AATATTATTTTAATAGTTTAATATTAAATTTAATTTTATATTCATCTA
1 AATAATATTTTATTAATTTAATATTAAATTTAATCTAATATTCATCTA
* * *
50910349 AATAGTATTTTATTAATTTAATATTAAATTTAATCTAATATTTATCTT
1 AATAATATTTTATTAATTTAATATTAAATTTAATCTAATATTCATCTA
* *
50910397 GATAAATATTATATTAATTTAATATTAAA
1 AAT-AATATTTTATTAATTTAATATTAAA
50910426 GTGATTAAGT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
48 43 0.65
49 23 0.35
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.52
Consensus pattern (48 bp):
AATAATATTTTATTAATTTAATATTAAATTTAATCTAATATTCATCTA
Found at i:50923676 original size:13 final size:13
Alignment explanation
Indices: 50923655--50923726 Score: 63
Period size: 13 Copynumber: 5.3 Consensus size: 13
50923645 GCTTTTTATT
50923655 ATTATTATTTTTA
1 ATTATTATTTTTA
* *
50923668 ATTAATATTTTAA
1 ATTATTATTTTTA
*
50923681 ATATATTATTTTAAA
1 AT-TATTATTTT-TA
*
50923696 AGTTTTTATTTTTA
1 A-TTATTATTTTTA
* *
50923710 ATTTTTATTTTTT
1 ATTATTATTTTTA
50923723 ATTA
1 ATTA
50923727 ATAACTTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
13 27 0.55
14 10 0.20
15 11 0.22
16 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.65
Consensus pattern (13 bp):
ATTATTATTTTTA
Found at i:50924037 original size:18 final size:18
Alignment explanation
Indices: 50924004--50924038 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50923994 TTTAAATATA
*
50924004 AAAATAATAATTATATTT
1 AAAATAATAATAATATTT
*
50924022 AAAATAATTATAATATT
1 AAAATAATAATAATATT
50924039 AGTTGGAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATAATAATAATATTT
Found at i:50932553 original size:26 final size:26
Alignment explanation
Indices: 50932524--50932630 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
50932514 TGGTACAAAT
50932524 TGATAATAGG-TTAGGTAAATGTTCCA
1 TGATAAT-GGATTAGGTAAATGTTCCA
*
50932550 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
50932576 TGATAATGG-TTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
50932601 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
50932627 TGAT
1 TGAT
50932631 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
25 26 0.34
26 51 0.66
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:50932594 original size:51 final size:52
Alignment explanation
Indices: 50932524--50932630 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
50932514 TGGTACAAAT
50932524 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
50932576 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
50932627 TGAT
1 TGAT
50932631 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 46 0.87
52 7 0.13
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:50934294 original size:27 final size:27
Alignment explanation
Indices: 50934256--50934393 Score: 131
Period size: 27 Copynumber: 5.1 Consensus size: 27
50934246 AAGCGTCCTA
*
50934256 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
* * * *
50934283 GTGGCTCTGCCA-TATATATCTGTTTTA
1 GTGGCTCTGCCACAAT-TATCTGATCTG
* * *
50934310 GTGGCTATGCCACGATTATTTGATCTG
1 GTGGCTCTGCCACAATTATCTGATCTG
*
50934337 GTGGCTCTGCCAC-A-TATACTTGTTCTG
1 GTGGCTCTGCCACAATTAT-C-TGATCTG
50934364 GTGGCTCTGCCACAA-TATCTGTATCTG
1 GTGGCTCTGCCACAATTATCTG-ATCTG
50934391 GTG
1 GTG
50934394 ACTTCGTCAC
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
25 3 0.03
26 5 0.06
27 76 0.84
28 6 0.07
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATTATCTGATCTG
Found at i:50934336 original size:54 final size:53
Alignment explanation
Indices: 50934253--50934393 Score: 185
Period size: 54 Copynumber: 2.6 Consensus size: 53
50934243 AGGAAGCGTC
*
50934253 CTAGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATA-TCTGTT
1 CTAGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATACT-TGTT
* *
50934307 TTAGTGGCTATGCCACGATTATTTGATCTGGTGGCTCTGCCACATATACTTGTT
1 CTAGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATACTTGTT
* * *
50934361 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTAGTGGCTATGCCACATTATCTG-ATCTGGTG
50934394 ACTTCGTCAC
Statistics
Matches: 76, Mismatches: 9, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
53 6 0.08
54 69 0.91
55 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (53 bp):
CTAGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATACTTGTT
Found at i:50936241 original size:27 final size:28
Alignment explanation
Indices: 50936201--50936340 Score: 166
Period size: 27 Copynumber: 5.2 Consensus size: 28
50936191 AGCATGGCTG
* *
50936201 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
50936227 CCAGATACATATA-ATCGTGGCAGGGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
50936255 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
50936282 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
50936309 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
50936336 CCAGA
1 CCAGA
50936341 ACACTTCCTC
Statistics
Matches: 102, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
26 5 0.05
27 81 0.79
28 16 0.16
ACGTcount: A:0.34, C:0.23, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:50937987 original size:26 final size:26
Alignment explanation
Indices: 50937951--50938060 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
50937941 CATGAAATTC
50937951 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
50937977 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
50938003 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
50938029 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
50938055 TTATCA
1 TTATCA
50938061 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:50940156 original size:49 final size:48
Alignment explanation
Indices: 50940100--50940273 Score: 240
Period size: 49 Copynumber: 3.5 Consensus size: 48
50940090 CTGGTATGCA
50940100 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATGCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAT-CGGTACACG
* * ** * *
50940149 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATC-GGTACACG
*
50940199 TAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAT-CGGTACACG
*
50940248 TATTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
50940274 CGTGACCTCA
Statistics
Matches: 107, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
49 66 0.62
50 41 0.38
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (48 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCGGTACACG
Found at i:50940259 original size:99 final size:99
Alignment explanation
Indices: 50940098--50940281 Score: 341
Period size: 99 Copynumber: 1.9 Consensus size: 99
50940088 ATCTGGTATG
* *
50940098 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATGCGGTACACGTAGTAGCCTGCACT
1 CATAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACT
50940163 TAGTACTACACACGTGACCTAACCATCTGATACA
66 TAGTACTACACACGTGACCTAACCATCTGATACA
*
50940197 CATAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTATTAGCCTGCACT
1 CATAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACT
50940262 TAGTACTACACACGTGACCT
66 TAGTACTACACACGTGACCT
50940282 CACAATAGAT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 82 1.00
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (99 bp):
CATAGTAACCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACT
TAGTACTACACACGTGACCTAACCATCTGATACA
Found at i:50942519 original size:47 final size:47
Alignment explanation
Indices: 50942447--50942613 Score: 162
Period size: 49 Copynumber: 3.4 Consensus size: 47
50942437 GGTATAATAC
* *
50942447 CGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-CATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GCTCATCAAATCAAGG
* *
50942494 CGATGCCATGTCCCAGACATAGTCTTACACTGACT-ATCGAAATCGAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-CTCATC-AAATCAAGG
* *
50942542 CTGACGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACATATC-CGTG
1 C-GATGCCATGTCCCAGACATGGTCTTACACT-GCTCATCA-A-ATCAAG-G
*
50942592 CCGATGCCATGTCCTAGACATG
1 -CGATGCCATGTCCCAGACATG
50942614 ATACTGACAC
Statistics
Matches: 101, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
46 4 0.04
47 32 0.32
48 7 0.07
49 34 0.34
50 23 0.23
51 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.25
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGCTCATCAAATCAAGG
Found at i:50943934 original size:14 final size:14
Alignment explanation
Indices: 50943915--50943943 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
50943905 AGCACTCAAA
50943915 CGCCAAAATTAATT
1 CGCCAAAATTAATT
50943929 CGCCAAAATTAATT
1 CGCCAAAATTAATT
50943943 C
1 C
50943944 ACTAAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (14 bp):
CGCCAAAATTAATT
Found at i:50943950 original size:14 final size:14
Alignment explanation
Indices: 50943917--50943952 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
50943907 CACTCAAACG
*
50943917 CCAAAATTAATTCG
1 CCAAAATTAATTCA
50943931 CCAAAATTAATTCA
1 CCAAAATTAATTCA
*
50943945 CTAAAATT
1 CCAAAATT
50943953 TTCATGCACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (14 bp):
CCAAAATTAATTCA
Found at i:50957092 original size:35 final size:35
Alignment explanation
Indices: 50957046--50957115 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
50957036 GGTGTTTGTC
50957046 TCTATAAGGTATTTAGCCTAGACTGGTAATCTCGA
1 TCTATAAGGTATTTAGCCTAGACTGGTAATCTCGA
50957081 TCTATAAGGTATTTAGCCTAGACTGGTAATCTCGA
1 TCTATAAGGTATTTAGCCTAGACTGGTAATCTCGA
50957116 CATCACCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (35 bp):
TCTATAAGGTATTTAGCCTAGACTGGTAATCTCGA
Found at i:50967208 original size:40 final size:40
Alignment explanation
Indices: 50967153--50967249 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
50967143 GATTCAGATA
* * *
50967153 TATATATTGCACTTAGTGTGCAATTCAGAATAACTTTGAC
1 TATATATAGCACTTAGTGTACAATTCAGAATAACTTCGAC
* * * * *
50967193 TATATATAGCACTTAGTGTACGATTCGGGATAGCTTCGGC
1 TATATATAGCACTTAGTGTACAATTCAGAATAACTTCGAC
*
50967233 TATATATGGCACTTAGT
1 TATATATAGCACTTAGT
50967250 TTGTGAGGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (40 bp):
TATATATAGCACTTAGTGTACAATTCAGAATAACTTCGAC
Found at i:50967302 original size:41 final size:37
Alignment explanation
Indices: 50967221--50967334 Score: 140
Period size: 36 Copynumber: 3.0 Consensus size: 37
50967211 TACGATTCGG
*
50967221 GATAGCTTCGGCTATATATGGCACTTAGTTTGTGAG-
1 GATAGCTTCGGCTATATATGGCACTTAGTGTGTGAGA
*
50967257 GATAGCTTCGGATATATATGGCACTTAGTGTGTGAGACCAA
1 GATAGCTTCGGCTATATATGGCACTTAGTGTGTGAG----A
* * *
50967298 GATAGCTTTGGCTATGTATGGCACTTAGTGTGCGAGA
1 GATAGCTTCGGCTATATATGGCACTTAGTGTGTGAGA
50967335 TATTGAGTAC
Statistics
Matches: 67, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
36 34 0.51
37 1 0.01
41 32 0.48
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (37 bp):
GATAGCTTCGGCTATATATGGCACTTAGTGTGTGAGA
Found at i:50979182 original size:19 final size:19
Alignment explanation
Indices: 50979158--50979195 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
50979148 CTGTATAAGA
50979158 AACGTTAAATTGTTTTATT
1 AACGTTAAATTGTTTTATT
50979177 AACGTTAAATTGTTTTATT
1 AACGTTAAATTGTTTTATT
50979196 TCTAATTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.53
Consensus pattern (19 bp):
AACGTTAAATTGTTTTATT
Found at i:50980976 original size:73 final size:73
Alignment explanation
Indices: 50980850--50980999 Score: 246
Period size: 73 Copynumber: 2.1 Consensus size: 73
50980840 CTCCATTCAT
* * *
50980850 TGGGTTATTTGAGGCGCTATAAGGAAGCATGTGCTTCGGCCCACTCAATTCGGTGGACTGTATTT
1 TGGGTTATTTGAGGCGCTATAAGGAAGCACGTGCTTCGGCCCAATCAACTCGGTGGACTGTATTT
50980915 GATATTTG
66 GATATTTG
* * *
50980923 TGGGTTATTTGAGGTGCTATAAGGAAGCGCGTGCTTCGGCCCAATCAACTCGGTGGACTGTGTTT
1 TGGGTTATTTGAGGCGCTATAAGGAAGCACGTGCTTCGGCCCAATCAACTCGGTGGACTGTATTT
50980988 GATATTTG
66 GATATTTG
50980996 TGGG
1 TGGG
50981000 AGTTCAGAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.33
Consensus pattern (73 bp):
TGGGTTATTTGAGGCGCTATAAGGAAGCACGTGCTTCGGCCCAATCAACTCGGTGGACTGTATTT
GATATTTG
Found at i:50986168 original size:47 final size:47
Alignment explanation
Indices: 50986110--50986359 Score: 351
Period size: 47 Copynumber: 5.3 Consensus size: 47
50986100 TGTACAAGTA
* * *
50986110 TATATATGTGATAGGGCTGAGTGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
50986157 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* *
50986204 TGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
* * *
50986251 CATATAAGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG
* *
50986298 TATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGGAA-GTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAACATG
*
50986345 TATAAATGTGATAAG
1 TATATATGTGATAAG
50986360 TTCCGAAGGG
Statistics
Matches: 185, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
46 1 0.01
47 181 0.98
48 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG
Found at i:50988363 original size:39 final size:39
Alignment explanation
Indices: 50988304--50988490 Score: 239
Period size: 39 Copynumber: 4.6 Consensus size: 39
50988294 AACACAAATG
* *
50988304 CCTTCGGGACTTAGCTCGGATATAACACCAGCACGAATA
1 CCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATA
* *
50988343 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATA
*
50988382 CCTTCGGGACTTAGCTCGGACATAACACCAGCACGAATGCCACGAA
1 CCTTCGGGACTTAGCCCGGACATAACACCAGCACGAAT-------A
*
50988428 TGCCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATG
1 --CCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATA
50988469 CCTTCGGGACTTAGCCCGGACA
1 CCTTCGGGACTTAGCCCGGACA
50988491 CACACACAAT
Statistics
Matches: 132, Mismatches: 7, Indels: 18
0.84 0.04 0.11
Matches are distributed among these distances:
39 95 0.72
48 37 0.28
ACGTcount: A:0.28, C:0.32, G:0.23, T:0.18
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATA
Found at i:50988450 original size:48 final size:48
Alignment explanation
Indices: 50988374--50988470 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
50988364 ATAACACCAG
*
50988374 CACGAATGCCTTCGGGACTTAGCTCGGACATAACACCAGCACGAATGC
1 CACGAATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATGC
50988422 CACGAATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATGC
1 CACGAATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATGC
50988470 C
1 C
50988471 TTCGGGACTT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.29, C:0.33, G:0.23, T:0.15
Consensus pattern (48 bp):
CACGAATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACGAATGC
Found at i:50998838 original size:8 final size:8
Alignment explanation
Indices: 50998827--50998851 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
50998817 CTAAAGTGTT
50998827 AAAATGTG
1 AAAATGTG
50998835 AAAATGTG
1 AAAATGTG
50998843 AAAATGTG
1 AAAATGTG
50998851 A
1 A
50998852 GGGTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AAAATGTG
Found at i:50999349 original size:43 final size:43
Alignment explanation
Indices: 50999301--50999382 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
50999291 TCGACAACGT
* * *
50999301 ATTTGATTTCGTGTAAGACC-CTGTCTGGGACAGTGGCATCGAC
1 ATTTGATTACATGTAAGACCAC-GTCTGAGACAGTGGCATCGAC
*
50999344 ATTTGATTACATGTAAGACCACGTCTGAGACATTGGCAT
1 ATTTGATTACATGTAAGACCACGTCTGAGACAGTGGCAT
50999383 TGTACGAGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 33 0.97
44 1 0.03
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (43 bp):
ATTTGATTACATGTAAGACCACGTCTGAGACAGTGGCATCGAC
Found at i:51006924 original size:43 final size:43
Alignment explanation
Indices: 51006868--51007039 Score: 172
Period size: 43 Copynumber: 4.0 Consensus size: 43
51006858 CATAGGATTT
* * *
51006868 TCGATATGTGATTTCCTGTAAGACCACGTCTGGGACGTTGGCA
1 TCGATATTTGATTTCGTGTAAGACCACGTCTGGGACATTGGCA
* * * * *
51006911 TCGAT-TTGAGATTTACGTGTAAG-CTATGTCTGGGACATCGTCA
1 TCGATATT-TGATTT-CGTGTAAGACCACGTCTGGGACATTGGCA
* * *
51006954 TC-ATATTTGATTTCGTGTAATACC-CTGTCTGGGATAGTGGCA
1 TCGATATTTGATTTCGTGTAAGACCAC-GTCTGGGACATTGGCA
* *
51006996 TCGATATTTGATTACATGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATTTGATTTCGTGTAAGACCACGTCTGGGACATTGGCA
51007039 T
1 T
51007040 TATACAAGCT
Statistics
Matches: 101, Mismatches: 21, Indels: 14
0.74 0.15 0.10
Matches are distributed among these distances:
41 7 0.07
42 23 0.23
43 63 0.62
44 8 0.08
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (43 bp):
TCGATATTTGATTTCGTGTAAGACCACGTCTGGGACATTGGCA
Found at i:51009359 original size:5 final size:5
Alignment explanation
Indices: 51009317--51009345 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
51009307 TAAGTTGAAG
51009317 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
51009346 CAACTAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:51009383 original size:3 final size:3
Alignment explanation
Indices: 51009375--51009400 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
51009365 AAGGAAGATA
51009375 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
51009401 ACAACTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:51009514 original size:16 final size:16
Alignment explanation
Indices: 51009493--51009531 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
51009483 TAATAATAAT
*
51009493 AATATACAAAAA-TTAA
1 AATATA-AAAAAGTAAA
51009509 AATATAAAAAAGTAAA
1 AATATAAAAAAGTAAA
51009525 AATATAA
1 AATATAA
51009532 GTATAAGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (16 bp):
AATATAAAAAAGTAAA
Found at i:51012893 original size:17 final size:17
Alignment explanation
Indices: 51012873--51012933 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
51012863 ATTAGTAATT
51012873 AAAAATAAAACTAAAAC
1 AAAAATAAAACTAAAAC
* **
51012890 -AAAA-AAAATTAGTAATT
1 AAAAATAAAACTA--AAAC
51012907 AAAAATAAAACTAAAAC
1 AAAAATAAAACTAAAAC
51012924 AAAAATAAAA
1 AAAAATAAAA
51012934 TGCAATAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
15 6 0.18
16 4 0.12
17 14 0.41
18 4 0.12
19 6 0.18
ACGTcount: A:0.75, C:0.07, G:0.02, T:0.16
Consensus pattern (17 bp):
AAAAATAAAACTAAAAC
Found at i:51012899 original size:34 final size:34
Alignment explanation
Indices: 51012856--51012928 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
51012846 CCAGAAGTAA
51012856 AAAAAAAATTAGTAATTAAAAATAAAACTAAAAC
1 AAAAAAAATTAGTAATTAAAAATAAAACTAAAAC
51012890 AAAAAAAATTAGTAATTAAAAATAAAACTAAAAC
1 AAAAAAAATTAGTAATTAAAAATAAAACTAAAAC
51012924 AAAAA
1 AAAAA
51012929 TAAAATGCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (34 bp):
AAAAAAAATTAGTAATTAAAAATAAAACTAAAAC
Found at i:51031471 original size:25 final size:25
Alignment explanation
Indices: 51031423--51031471 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
51031413 CATAATTGAA
* * *
51031423 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
51031448 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
51031472 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:51031914 original size:43 final size:43
Alignment explanation
Indices: 51031866--51031951 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
51031856 TATGTGATTG
51031866 ATATTGAAATGGAAAAAATGAGAAATGAATATGAGATGAGAAA
1 ATATTGAAATGGAAAAAATGAGAAATGAATATGAGATGAGAAA
* * *
51031909 ATATTGAAATGGAAAATATGAGAAATGATTCTGAGATGAGAAA
1 ATATTGAAATGGAAAAAATGAGAAATGAATATGAGATGAGAAA
51031952 TGAAATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.52, C:0.01, G:0.23, T:0.23
Consensus pattern (43 bp):
ATATTGAAATGGAAAAAATGAGAAATGAATATGAGATGAGAAA
Found at i:51031935 original size:16 final size:16
Alignment explanation
Indices: 51031871--51031935 Score: 61
Period size: 15 Copynumber: 4.4 Consensus size: 16
51031861 GATTGATATT
*
51031871 GAAATGGAAAAAATGA
1 GAAATGGAAAATATGA
51031887 GAAAT-G--AATATGA
1 GAAATGGAAAATATGA
*
51031900 G--ATGAGAAAATAT-T
1 GAAATG-GAAAATATGA
51031914 GAAATGGAAAATATGA
1 GAAATGGAAAATATGA
51031930 GAAATG
1 GAAATG
51031936 ATTCTGAGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
11 2 0.05
13 8 0.21
14 1 0.03
15 14 0.36
16 14 0.36
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (16 bp):
GAAATGGAAAATATGA
Found at i:51036118 original size:24 final size:24
Alignment explanation
Indices: 51036086--51036174 Score: 101
Period size: 24 Copynumber: 3.7 Consensus size: 24
51036076 TCTTACTTAT
51036086 TCGCACACATAGTGCCACGTTTTC
1 TCGCACACATAGTGCCACGTTTTC
* **
51036110 TCGCACACATAGTGCCATGTAATC
1 TCGCACACATAGTGCCACGTTTTC
*
51036134 TCTCACACATAGTGCCACTTAGTTTT-
1 TCGCACACATAGTGCCAC---GTTTTC
51036160 T-GCACACATAGTGCC
1 TCGCACACATAGTGCC
51036175 GCATAACCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
24 37 0.69
25 13 0.24
26 1 0.02
27 3 0.06
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (24 bp):
TCGCACACATAGTGCCACGTTTTC
Found at i:51036190 original size:49 final size:49
Alignment explanation
Indices: 51036088--51036197 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 49
51036078 TTACTTATTC
** *
51036088 GCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCATGTAATCTCT
1 GCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCACATAACCTCT
*
51036137 -CACACATAGTGCCACTTAGTTTT-T-GCACACATAGTGCCGCATAACCT-T
1 GCACACATAGTGCCAC---GTTTTCTCGCACACATAGTGCCACATAACCTCT
51036185 GCACACATAGTGC
1 GCACACATAGTGC
51036198 TGATATTTCT
Statistics
Matches: 53, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
48 16 0.30
49 31 0.58
50 1 0.02
51 5 0.09
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (49 bp):
GCACACATAGTGCCACGTTTTCTCGCACACATAGTGCCACATAACCTCT
Found at i:51038868 original size:40 final size:42
Alignment explanation
Indices: 51038801--51038897 Score: 139
Period size: 40 Copynumber: 2.4 Consensus size: 42
51038791 TGACTATGAT
*
51038801 TGGCACTAAGTGTGC-AGTTTAATATAGCTTCGGCTATA-AA
1 TGGCACTAAGTGTGCGAGTTTAACATAGCTTCGGCTATAGAA
**
51038841 TGGCACTAAGTGTGCGAG-TTGGCATAGCTTCGGCTATAGAA
1 TGGCACTAAGTGTGCGAGTTTAACATAGCTTCGGCTATAGAA
51038882 -GGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
51038898 TACCGATTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 48 0.92
41 4 0.08
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.28
Consensus pattern (42 bp):
TGGCACTAAGTGTGCGAGTTTAACATAGCTTCGGCTATAGAA
Found at i:51040063 original size:20 final size:21
Alignment explanation
Indices: 51040032--51040072 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
51040022 GCAGGGGAAG
51040032 GAAAGAAAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
51040053 GAAAG-AAGAAAAAGAGAAAA
1 GAAAGAAAGAAAAAGAGAAAA
51040073 TTGAAGGTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (21 bp):
GAAAGAAAGAAAAAGAGAAAA
Found at i:51042566 original size:46 final size:46
Alignment explanation
Indices: 51042505--51042631 Score: 175
Period size: 46 Copynumber: 2.8 Consensus size: 46
51042495 AATGAAATGT
*
51042505 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGAAAATGAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAAT-AA
*
51042552 -TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAAATAA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATAA
* * * * *
51042597 GTAACACCATAGTTGAAAGACACTATGGCATCATG
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATG
51042632 TTAAAGATAA
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
45 2 0.03
46 70 0.97
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.20
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATAA
Found at i:51046699 original size:15 final size:15
Alignment explanation
Indices: 51046679--51046718 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
51046669 ATTTGGACAC
*
51046679 AAATGTATAG-CTCGA
1 AAATGTAT-GTCTCAA
51046694 AAATGTATGTCTCAA
1 AAATGTATGTCTCAA
51046709 AAATGTATGT
1 AAATGTATGT
51046719 TTACTTGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.04
15 22 0.96
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (15 bp):
AAATGTATGTCTCAA
Found at i:51055552 original size:14 final size:14
Alignment explanation
Indices: 51055533--51055560 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51055523 TTTGTTTGCA
51055533 TGTAAAATATTTTC
1 TGTAAAATATTTTC
51055547 TGTAAAATATTTTC
1 TGTAAAATATTTTC
51055561 ATTGTTTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.07, T:0.50
Consensus pattern (14 bp):
TGTAAAATATTTTC
Found at i:51056660 original size:14 final size:14
Alignment explanation
Indices: 51056641--51056678 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
51056631 TTTAAAAAAT
51056641 AAATTATTTTTCAA
1 AAATTATTTTTCAA
*
51056655 AAATTATTTTTCAG
1 AAATTATTTTTCAA
*
51056669 AAACTATTTT
1 AAATTATTTT
51056679 CAATAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (14 bp):
AAATTATTTTTCAA
Found at i:51058873 original size:19 final size:19
Alignment explanation
Indices: 51058832--51058871 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
51058822 ATAATTAATT
*
51058832 AATTTTTAAAAAAATTTAA
1 AATTTTTAAAAAAATATAA
*
51058851 AATTTTTAAAATATATATAA
1 AATTTTTAAAA-AAATATAA
51058871 A
1 A
51058872 TTATAAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTTTTAAAAAAATATAA
Found at i:51064948 original size:48 final size:48
Alignment explanation
Indices: 51064811--51065037 Score: 318
Period size: 48 Copynumber: 4.8 Consensus size: 48
51064801 AGGGTAAATT
* *
51064811 GCCGATGCCATGCCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGT-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA--T-AATGTG
* *
51064861 --CGATGCCATGT-CCAAACATGGTCTTACATTGGCTCTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
*
51064906 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTTCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
* * *
51064954 GCCGATGTCATGTCCTAGACATGGTCTTACACTGGCTATCATAATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
*
51065002 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC
51065038 ACACATATCA
Statistics
Matches: 162, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
44 5 0.03
45 1 0.01
47 35 0.22
48 121 0.75
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
Found at i:51081217 original size:2 final size:2
Alignment explanation
Indices: 51081210--51081238 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
51081200 TGTTTCTAAC
51081210 TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51081239 GATTATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51088586 original size:1 final size:1
Alignment explanation
Indices: 51088580--51088610 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
51088570 TCTTCTATCC
*
51088580 TTTTTTTTTTTCTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
51088611 GGGGGGGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.03, G:0.00, T:0.97
Consensus pattern (1 bp):
T
Found at i:51102342 original size:20 final size:20
Alignment explanation
Indices: 51102317--51102355 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
51102307 TGTCTGGCTC
51102317 ATTTTAATTTTAATTTTTCA
1 ATTTTAATTTTAATTTTTCA
*
51102337 ATTTTATTTTTAATTTTTC
1 ATTTTAATTTTAATTTTTC
51102356 CCTCTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (20 bp):
ATTTTAATTTTAATTTTTCA
Found at i:51106932 original size:36 final size:36
Alignment explanation
Indices: 51106892--51106965 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
51106882 GACGTACGAC
51106892 ATGTTCCAGAATTGAAGAGAAATTTAATTTCATTGA
1 ATGTTCCAGAATTGAAGAGAAATTTAATTTCATTGA
*
51106928 ATGTTCCATAATTGAAGAGAAATTTAATTTCATTGA
1 ATGTTCCAGAATTGAAGAGAAATTTAATTTCATTGA
51106964 AT
1 AT
51106966 ACTCTTGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (36 bp):
ATGTTCCAGAATTGAAGAGAAATTTAATTTCATTGA
Found at i:51110192 original size:5 final size:5
Alignment explanation
Indices: 51110182--51110221 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
51110172 TTGTGTGTTC
*
51110182 TTTAT TTTAT TTTATT TTTATT TTTAT TCTAT TTTAT TTT
1 TTTAT TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTAT TTT
51110222 CACAAATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 21 0.66
6 11 0.34
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:51110203 original size:16 final size:15
Alignment explanation
Indices: 51110182--51110221 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
51110172 TTGTGTGTTC
*
51110182 TTTATTTTATTTTATT
1 TTTATTTTATTCTA-T
51110198 TTTATTTTTATTCTAT
1 TTTA-TTTTATTCTAT
51110214 TTTATTTT
1 TTTATTTT
51110222 CACAAATTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 9 0.41
17 9 0.41
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTATTTTATTCTAT
Found at i:51113796 original size:37 final size:37
Alignment explanation
Indices: 51113746--51113825 Score: 151
Period size: 37 Copynumber: 2.1 Consensus size: 37
51113736 TGAAAGATAG
51113746 GTTTTAGATTAACCTATTTTGTATTCGAGTTTTTGAT
1 GTTTTAGATTAACCTATTTTGTATTCGAGTTTTTGAT
51113783 GTTTTAGATTAACCTATTTTGTATTCGAGTTTTTGAT
1 GTTTTAGATTAACCTATTTTGTATTCGAGTTTTTGAT
51113820 GATTTT
1 G-TTTT
51113826 GAGTAATTAG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 38 0.90
38 4 0.10
ACGTcount: A:0.21, C:0.07, G:0.16, T:0.55
Consensus pattern (37 bp):
GTTTTAGATTAACCTATTTTGTATTCGAGTTTTTGAT
Found at i:51116787 original size:23 final size:23
Alignment explanation
Indices: 51116711--51116790 Score: 101
Period size: 23 Copynumber: 3.5 Consensus size: 23
51116701 TGAGTTGATG
*
51116711 AACAATAAGCTCTATTGAGCTGA
1 AACAATAAGCTCTATCGAGCTGA
**
51116734 AACGGTAAGCTCTATCGAGCTG-
1 AACAATAAGCTCTATCGAGCTGA
*
51116756 GACAATAAGCTC-ATACGAGCTGA
1 AACAATAAGCTCTAT-CGAGCTGA
51116779 AACAATAAGCTC
1 AACAATAAGCTC
51116791 CAATGAGTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
21 2 0.04
22 16 0.33
23 30 0.62
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (23 bp):
AACAATAAGCTCTATCGAGCTGA
Found at i:51123922 original size:173 final size:177
Alignment explanation
Indices: 51123617--51123953 Score: 459
Period size: 176 Copynumber: 1.9 Consensus size: 177
51123607 GGCACTCAAG
* * * *
51123617 TTATGTCAAAATTAAAGTATAGAGATTAAGTCTCAAATTTAAGCAAAATATAGGGATAGAAACTA
1 TTATGTCAAAATTAAAGTATAGAAATTAAATCTCAAAATTAAGCAAAATATAGAGATAGAAACTA
* * * *
51123682 AAATTTGACCATTCTCATATAAACTTAAACAATTAGATGGATTAGAATTGAAATTTAGTCATTAT
66 AAATTTAACCATTCTCATATAAACTTAAACAAATAGAGGGATTAGAATTGAAATTTAGCCATTAT
** *
51123747 TTTCTTGTGTCAAAAG-AGAAAAAAAAAGAATGGACAAGTACCTAAA
131 TTTCTCATGCCAAAAGAAGAAAAAAAAAGAATGGACAAGTACCTAAA
* * *
51123793 TTATGTCAAAATTGAAGTATAGAAATTAAATCTCAAAATTGAG-AAAATATA-ATATCA-AAACT
1 TTATGTCAAAATTAAAGTATAGAAATTAAATCTCAAAATTAAGCAAAATATAGAGAT-AGAAACT
* * *
51123855 AAAATTTAACCATTCTTATATAATCTT-TACAAATAGAGGGATTAGAATTGAAATTTAGCCATTA
65 AAAATTTAACCATTCTCATATAAACTTAAACAAATAGAGGGATTAGAATTGAAATTTAGCCATTA
51123919 TTTTCTCATGCCAAAAGAAAAGAAAAAAAAAGAAT
130 TTTTCTCATGCCAAAAG--AAGAAAAAAAAAGAAT
51123954 TGGGAGATGT
Statistics
Matches: 140, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
173 47 0.34
174 31 0.22
175 9 0.06
176 53 0.38
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (177 bp):
TTATGTCAAAATTAAAGTATAGAAATTAAATCTCAAAATTAAGCAAAATATAGAGATAGAAACTA
AAATTTAACCATTCTCATATAAACTTAAACAAATAGAGGGATTAGAATTGAAATTTAGCCATTAT
TTTCTCATGCCAAAAGAAGAAAAAAAAAGAATGGACAAGTACCTAAA
Found at i:51124323 original size:82 final size:80
Alignment explanation
Indices: 51124195--51124349 Score: 195
Period size: 82 Copynumber: 1.9 Consensus size: 80
51124185 TTATTTTCTA
* * * *
51124195 ATGCGAAAGAAAAGAATGGACATGTATCTTTTTACGAAGGCCTTAGGGCTTAACTTTTATACAGT
1 ATGCAAAAGAAAAGAATGGAAATGTATCTTTTAACGAAGGCCTTA-GGCCTAACTTTTATACAGT
51124260 AAGTATAGATTTTTTTG
65 -AGTATAGATTTTTTTG
* * * * *
51124277 ATGCAAAATAAAAGAATGGAAAAT-TATCTTTTAAGGAAGGCTTTAGGCCTATCTTTTATATAGT
1 ATGCAAAAGAAAAGAATGG-AAATGTATCTTTTAACGAAGGCCTTAGGCCTAACTTTTATACAGT
51124341 AGTATAGAT
65 AGTATAGAT
51124350 GTGGATGATT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
80 9 0.14
81 16 0.25
82 35 0.56
83 3 0.05
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (80 bp):
ATGCAAAAGAAAAGAATGGAAATGTATCTTTTAACGAAGGCCTTAGGCCTAACTTTTATACAGTA
GTATAGATTTTTTTG
Found at i:51133556 original size:41 final size:41
Alignment explanation
Indices: 51133499--51133582 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
51133489 TTGGGAGATG
*
51133499 TGCCTATATTGTAGTAAACATGTGATTGTTTTCTATGTATT
1 TGCCTATATTGTAGTAAACATGTAATTGTTTTCTATGTATT
51133540 TGCCTATATTGTAGTAAACATGTAATTGTTTTCTATGTATT
1 TGCCTATATTGTAGTAAACATGTAATTGTTTTCTATGTATT
51133581 TG
1 TG
51133583 AACAACGAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.25, C:0.10, G:0.17, T:0.49
Consensus pattern (41 bp):
TGCCTATATTGTAGTAAACATGTAATTGTTTTCTATGTATT
Found at i:51136041 original size:68 final size:68
Alignment explanation
Indices: 51135900--51136118 Score: 216
Period size: 68 Copynumber: 3.2 Consensus size: 68
51135890 TAGAGTTAGC
* ** *
51135900 GATTTAAGATCGTTTCC-TTATTTTGCAGCCCGCTGATTTAAGATCAC-AGCTAATCTACATAGC
1 GATTTAAGATCG-TGCCTTTATTTTATAGTCCGCTGATTTAAGATCACGA-CTAATCTACATAGC
* *
51135963 ACGCA
64 AAGTA
* * *
51135968 AATTTAAGATAACGT--CTCTT-TTTTATAGTCCGCTGATTTTAGGTCACGACTAATCTACATAG
1 GATTTAAGAT--CGTGCCT-TTATTTTATAGTCCGCTGATTTAAGATCACGACTAATCTACATAG
*
51136030 CAAGTT
63 CAAGTA
* *
51136036 GATTTAAAGATCGTGCCTTTATTTTATAGTCCGCTGATTTAATATCACGAC-AGATCTACATAAC
1 GATTT-AAGATCGTGCCTTTATTTTATAGTCCGCTGATTTAAGATCACGACTA-ATCTACATAGC
*
51136100 ATGTA
64 AAGTA
51136105 GATTTAAGATCGTG
1 GATTTAAGATCGTG
51136119 TCCCTATTTT
Statistics
Matches: 125, Mismatches: 16, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
67 4 0.03
68 63 0.50
69 56 0.45
70 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.36
Consensus pattern (68 bp):
GATTTAAGATCGTGCCTTTATTTTATAGTCCGCTGATTTAAGATCACGACTAATCTACATAGCAA
GTA
Found at i:51141117 original size:6 final size:6
Alignment explanation
Indices: 51141106--51141143 Score: 67
Period size: 6 Copynumber: 6.3 Consensus size: 6
51141096 TTCAAATTCC
*
51141106 CATATA CATATA CCTATA CATATA CATATA CATATA CA
1 CATATA CATATA CATATA CATATA CATATA CATATA CA
51141144 AATCATACCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (6 bp):
CATATA
Found at i:51141633 original size:23 final size:25
Alignment explanation
Indices: 51141583--51141633 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
51141573 GAACAAGAGA
51141583 CTCACAAAGAGCCATTAATCAGGAAG
1 CTCACAAAGAGCCA-TAATCAGGAAG
*
51141609 CTCACAAAGAGCC-T-ATTAGGAAG
1 CTCACAAAGAGCCATAATCAGGAAG
51141632 CT
1 CT
51141634 TATTCGGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 10 0.42
24 1 0.04
26 13 0.54
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.18
Consensus pattern (25 bp):
CTCACAAAGAGCCATAATCAGGAAG
Found at i:51144291 original size:49 final size:49
Alignment explanation
Indices: 51144212--51145106 Score: 1466
Period size: 49 Copynumber: 18.6 Consensus size: 49
51144202 TATTTGAATA
* *
51144212 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCTGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
51144259 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
51144308 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
51144357 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
51144406 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
51144457 AATGTGAAGGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
51144506 AATGTGAAAGTGTATATATATGTGATAAGGCCTAAAGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
51144555 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
51144604 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
51144653 AATGTGAAAGTG--TGTATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
51144700 AATGTGAAAGTGTATATATTTGTGATAAGGCCTAATGGCCGATATGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
51144749 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
51144796 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
51144845 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
51144892 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
51144939 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
51144986 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
51145033 AATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
51145080 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
51145107 TCCCGAAGGG
Statistics
Matches: 807, Mismatches: 31, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
47 333 0.41
48 1 0.00
49 425 0.53
51 48 0.06
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (49 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:51144320 original size:96 final size:95
Alignment explanation
Indices: 51144212--51145106 Score: 1429
Period size: 96 Copynumber: 9.3 Consensus size: 95
51144202 TATTTGAATA
* *
51144212 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCTGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
51144276 ATATGTGATAAGGCCTAATGGCCGATGTGATG
64 ATATGTGATAAGGCCTAATGGCCGATGTGATG
51144308 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
51144373 TATATGTGATAAGGCCTAATGGCCGATGTGATG
63 TATATGTGATAAGGCCTAATGGCCGATGTGATG
*
51144406 AATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 AATGTGAAAGTG---ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--
51144471 TATATATGTGATAAGGCCTAATGGCCGATGTGATG
61 TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
51144506 AATGTGAAAGTGTATATATATGTGATAAGGCCTAAAGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
51144571 TATATGTGATAAGGCCTAATGGCCGATGTGATG
63 TATATGTGATAAGGCCTAATGGCCGATGTGATG
*
51144604 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTGTA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
51144669 TATGTGATAAGGCCGAATGGCCAATGTGATG
65 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
51144700 AATGTGAAAGTGTATATATTTGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
51144765 TATGTGATAAGGCCGAATGGCCAATGTGATG
65 TATGTGATAAGGCCTAATGGCCGATGTGATG
51144796 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
51144861 TATGTGATAAGGCCTAATAGCCGATGTGATG
65 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
51144892 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
51144956 ATGTGATAAGGCCTAATGGCCGATGTGATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATG
51144986 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * *
51145050 ATGTGACAGGGCCGAGTGGCCAACGTGATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATG
* *
51145080 GATGTGAAAGTG-TATAAATGTGATAAG
1 AATGTGAAAGTGATATATATGTGATAAG
51145107 TCCCGAAGGG
Statistics
Matches: 767, Mismatches: 28, Indels: 10
0.95 0.03 0.01
Matches are distributed among these distances:
94 192 0.25
96 240 0.31
98 238 0.31
100 97 0.13
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (95 bp):
AATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:51145363 original size:37 final size:37
Alignment explanation
Indices: 51145225--51145362 Score: 249
Period size: 37 Copynumber: 3.7 Consensus size: 37
51145215 CCGAGCTCTA
51145225 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
51145262 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
51145299 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
* *
51145336 AAGACCCGATAACTTCGTGTGGAGATT
1 AAGACCCGATGACTACGTGTGGAGATT
51145363 TCGTCTGAGC
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:51147133 original size:43 final size:43
Alignment explanation
Indices: 51147072--51147157 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
51147062 AGTCCCCGAG
*
51147072 ATAGCTAAATTAAGCTATTACGATCTTGGAAACATGAAAATTA
1 ATAGCTAAATTAAGCTATTACGATCTTGGAAACATAAAAATTA
51147115 ATAGCTAAATTAAGCTATTACGATCTTGGAAACATAAAAATTA
1 ATAGCTAAATTAAGCTATTACGATCTTGGAAACATAAAAATTA
51147158 CTAAAAACGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.45, C:0.12, G:0.13, T:0.30
Consensus pattern (43 bp):
ATAGCTAAATTAAGCTATTACGATCTTGGAAACATAAAAATTA
Found at i:51154926 original size:23 final size:21
Alignment explanation
Indices: 51154896--51154944 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
51154886 ACTCAATTTC
*
51154896 TTTTATTTTATTATTACATATAA
1 TTTTATTTTAAT-TTACATA-AA
*
51154919 TTTTATTTTAATTTAGATAAA
1 TTTTATTTTAATTTACATAAA
51154940 TTTTA
1 TTTTA
51154945 AATTTGGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 7 0.29
22 6 0.25
23 11 0.46
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTATTTTAATTTACATAAA
Found at i:51156179 original size:31 final size:31
Alignment explanation
Indices: 51156144--51156209 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 31
51156134 GTAAAAAAAA
51156144 TTTTACCAACTTGTAA-GGA-CTCAAATTTTCT
1 TTTTACCAACTTGTAAGGGATCT-AAATTTT-T
*
51156175 TTTTACCAACTTTTAAGGGATCTAAATTTTT
1 TTTTACCAACTTGTAAGGGATCTAAATTTTT
51156206 TTTT
1 TTTT
51156210 CTCTTACTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 20 0.62
32 10 0.31
33 2 0.06
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.48
Consensus pattern (31 bp):
TTTTACCAACTTGTAAGGGATCTAAATTTTT
Found at i:51156431 original size:30 final size:30
Alignment explanation
Indices: 51156397--51156457 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
51156387 ATAAGTATGT
51156397 AAATTAAAATGATTAAATTGGAGAACACAC
1 AAATTAAAATGATTAAATTGGAGAACACAC
51156427 AAATTAAAATGATTAAATTGGAGAACACAC
1 AAATTAAAATGATTAAATTGGAGAACACAC
51156457 A
1 A
51156458 CTAAGCCACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.10, G:0.13, T:0.23
Consensus pattern (30 bp):
AAATTAAAATGATTAAATTGGAGAACACAC
Found at i:51159729 original size:41 final size:39
Alignment explanation
Indices: 51159686--51159822 Score: 152
Period size: 40 Copynumber: 3.4 Consensus size: 39
51159676 TATTATAATC
*
51159686 TCGCACACTAAGTGCCTTTCATAGCCGAAGCTATCTC-AGT
1 TCGCACACTAAGTGCCTTT-ATAGCCGAAACTATCTCGA-T
* * *
51159726 CTCGCACACTAAGTGCCATATATAGCCGAATCTATTTCGAT
1 -TCGCACACTAAGTGCC-TTTATAGCCGAAACTATCTCGAT
*
51159767 TCGCACACTAAGTG-CTTTATAGAGCTGAAACTATCTCGAT
1 TCGCACACTAAGTGCCTTTAT--AGCCGAAACTATCTCGAT
*
51159807 ACGCACACTAAGTGCC
1 TCGCACACTAAGTGCC
51159823 AAACGAAATT
Statistics
Matches: 83, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
38 4 0.05
39 1 0.01
40 42 0.51
41 33 0.40
42 3 0.04
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (39 bp):
TCGCACACTAAGTGCCTTTATAGCCGAAACTATCTCGAT
Found at i:51159801 original size:81 final size:83
Alignment explanation
Indices: 51159641--51159825 Score: 204
Period size: 81 Copynumber: 2.3 Consensus size: 83
51159631 AATACTTGAT
*
51159641 ATCTCGCACACTAAGTGCCAAAGCATAGCTAAAGCTATTATAATCTCGCACACTAAGTGCCTTTC
1 ATCTCGCACACTAAGTGCCAAAGCATAGCCAAAGCTATTATAATCTCGCACACTAAGTGCCTTTC
*
51159706 ATAGCCGAAGCTATCTC-
66 ATAGCCGAAACTATCTCG
* * * * *
51159723 AGTCTCGCACACTAAGTGCCATA-TATAGCCGAATCTATT-TCGAT-TCGCACACTAAGTG-CTT
1 A-TCTCGCACACTAAGTGCCAAAGCATAGCCAAAGCTATTAT-AATCTCGCACACTAAGTGCCTT
*
51159784 T-ATAGAGCTGAAACTATCTCG
64 TCAT--AGCCGAAACTATCTCG
*
51159805 AT-ACGCACACTAAGTGCCAAA
1 ATCTCGCACACTAAGTGCCAAA
51159826 CGAAATTGAT
Statistics
Matches: 88, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
79 2 0.02
80 21 0.24
81 29 0.33
82 16 0.18
83 20 0.23
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (83 bp):
ATCTCGCACACTAAGTGCCAAAGCATAGCCAAAGCTATTATAATCTCGCACACTAAGTGCCTTTC
ATAGCCGAAACTATCTCG
Found at i:51160270 original size:29 final size:28
Alignment explanation
Indices: 51160236--51160290 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
51160226 ATCTATTTCA
*
51160236 CAATTTAACCCCTCAATTTACATTTTTTT
1 CAATTTAACCCCT-AATATACATTTTTTT
* *
51160265 CAATTTAATCCCTAATATGCATTTTT
1 CAATTTAACCCCTAATATACATTTTT
51160291 ACTTAAAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (28 bp):
CAATTTAACCCCTAATATACATTTTTTT
Found at i:51161402 original size:37 final size:37
Alignment explanation
Indices: 51161341--51161419 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
51161331 TTATTACGAA
* * *
51161341 GTCTTACCCAGACATAATCTCCACACGA-AGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACAC-ATAGTCATCGG
*
51161378 GTCTTACCCGGACAAAATCCCCACACATAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACATAGTCATCGG
51161415 GTCTT
1 GTCTT
51161420 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACATAGTCATCGG
Found at i:51161616 original size:47 final size:47
Alignment explanation
Indices: 51161538--51161811 Score: 397
Period size: 47 Copynumber: 5.7 Consensus size: 47
51161528 CCCTTCGGGA
* * * * * *
51161538 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51161585 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51161632 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51161679 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51161728 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
51161777 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
51161812 AGAATCCTAA
Statistics
Matches: 211, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
46 1 0.00
47 115 0.55
49 95 0.45
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51161712 original size:49 final size:49
Alignment explanation
Indices: 51161538--51161790 Score: 392
Period size: 49 Copynumber: 5.3 Consensus size: 49
51161528 CCCTTCGGGA
* * * * *
51161538 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51161585 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51161632 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51161679 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51161728 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
51161777 CTTATCTCATATAT
1 CTTATCACATATAT
51161791 GCATGTTCAC
Statistics
Matches: 192, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.01
47 90 0.47
49 101 0.53
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51161800 original size:96 final size:96
Alignment explanation
Indices: 51161538--51161811 Score: 396
Period size: 96 Copynumber: 2.9 Consensus size: 96
51161528 CCCTTCGGGA
* * * * * * *
51161538 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
51161601 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
51161632 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
51161695 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51161728 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
51161793 A-TGTTCACATCCATCACAT
66 ACT-TTCACATTCATCACAT
51161812 AGAATCCTAA
Statistics
Matches: 163, Mismatches: 10, Indels: 12
0.88 0.05 0.06
Matches are distributed among these distances:
93 1 0.01
94 45 0.28
95 1 0.01
96 70 0.43
98 46 0.28
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51167970 original size:79 final size:79
Alignment explanation
Indices: 51167835--51168021 Score: 290
Period size: 79 Copynumber: 2.4 Consensus size: 79
51167825 TATTTAGATG
*
51167835 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAGTTCCGGGCAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAGTTCCGGGCAAGTCCCGAAGGCAT
51167900 TGGTGCGAGTTACT
66 TGGTGCGAGTTACT
* *
51167914 ATATCCGGGCTAAGT-CCAAAGGCATTTGTGCGAAGT-ACTA-TATCCGGGCTAAGTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTGACTAGT-TCCGGGC-AAGTCCCGAAGG
*
51167976 CATTTGTGCGAGTTACT
63 CATTGGTGCGAGTTACT
51167993 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
51168022 AGCAGTAGCT
Statistics
Matches: 98, Mismatches: 6, Indels: 7
0.88 0.05 0.06
Matches are distributed among these distances:
77 1 0.01
78 26 0.27
79 59 0.60
80 12 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTAGTTCCGGGCAAGTCCCGAAGGCAT
TGGTGCGAGTTACT
Found at i:51167993 original size:40 final size:40
Alignment explanation
Indices: 51167839--51168021 Score: 275
Period size: 39 Copynumber: 4.6 Consensus size: 40
51167829 TAGATGATAA
* *
51167839 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
51167879 CCGGGC-AAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
51167918 CCGGGCTAAGT-CCAAAGGCATTTGTGCGAAG-TACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATAT
*
51167957 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
51167997 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
51168022 AGCAGTAGCT
Statistics
Matches: 131, Mismatches: 7, Indels: 10
0.89 0.05 0.07
Matches are distributed among these distances:
38 1 0.01
39 70 0.53
40 60 0.46
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:51180194 original size:40 final size:40
Alignment explanation
Indices: 51180095--51180277 Score: 264
Period size: 40 Copynumber: 4.6 Consensus size: 40
51180085 GGATGATAAT
* * *
51180095 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATC
*
51180135 CGGGC-AAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
51180174 CGGGCTAAGTCCCGAAGGCATTTGTGTGAAG-TACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTTACTATATC
* *
51180214 CGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
51180254 CGGGCTAAGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
51180278 AGCAGTAGCT
Statistics
Matches: 129, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.01
39 35 0.27
40 91 0.71
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:51185898 original size:16 final size:16
Alignment explanation
Indices: 51185877--51185940 Score: 74
Period size: 16 Copynumber: 3.8 Consensus size: 16
51185867 TAGTGATATT
51185877 CAGGCTTTATGCCTAG
1 CAGGCTTTATGCCTAG
* *
51185893 CAGGCTTTATGCTGGTTAT
1 CAGGCTTTATGC---CTAG
51185912 CAGGCTTTATGCCTAG
1 CAGGCTTTATGCCTAG
*
51185928 CAGGCCTTATGCC
1 CAGGCTTTATGCC
51185941 GGTGAATTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
16 26 0.65
19 14 0.35
ACGTcount: A:0.17, C:0.25, G:0.25, T:0.33
Consensus pattern (16 bp):
CAGGCTTTATGCCTAG
Found at i:51185967 original size:41 final size:41
Alignment explanation
Indices: 51185909--51186092 Score: 223
Period size: 41 Copynumber: 4.5 Consensus size: 41
51185899 TTATGCTGGT
* *
51185909 TATCAGGCTT-TATGCCTAGCAGGCCTTATGCCGGTGAATTA
1 TATCAGGCTTAT-TGCCTAGCAGGCTTTATGCCGGTGTATTA
*
51185950 CATCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTA
1 TATCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTA
*
51185991 TTTCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTA
1 TATCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTA
* * * * **
51186032 TTTCAGTCCTATTGCCTAGCAGGC-TTGTGTTGGTGTATTA
1 TATCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTA
51186072 TA-CTAGGCTT-TATGCCTAGCA
1 TATC-AGGCTTAT-TGCCTAGCA
51186093 AATTTTATGT
Statistics
Matches: 127, Mismatches: 13, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 2 0.02
40 27 0.21
41 97 0.76
42 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.36
Consensus pattern (41 bp):
TATCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTA
Found at i:51186022 original size:82 final size:76
Alignment explanation
Indices: 51185876--51186092 Score: 222
Period size: 82 Copynumber: 2.7 Consensus size: 76
51185866 TTAGTGATAT
*
51185876 TCAGGCTT-TATGCCTAGCAGGCTTTATGCTGGTTATCAGGCTTTATGCCTAGCAGGCCTTATGC
1 TCAGGCTTAT-TGCCTAGCAGGCTTTATGCTGATTATCAGGCTTTATGCCTAGCAGGCCTTATGC
51185940 CGGTGAATTACA
65 CGGTGAATTACA
*
51185952 TCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATTTCAGGC-TTATTGCCTAGCAGGCT
1 TCAGGCTTATTGCCTAGCAGGCTTTATG-C--TG-ATTA--TCAGGCTTTA-TGCCTAGCAGGCC
* **
51186016 TTATGCCGGTGTATTATT
59 TTATGCCGGTGAATTACA
* * * *
51186034 TCAGTCCTATTGCCTAGCAGGCTTGTGTTGGTGTATTATACTAGGCTTTATGCCTAGCA
1 TCAGGCTTATTGCCTAGCAGGCTT-T-ATGCTG-ATTAT-C-AGGCTTTATGCCTAGCA
51186093 AATTTTATGT
Statistics
Matches: 119, Mismatches: 9, Indels: 21
0.80 0.06 0.14
Matches are distributed among these distances:
76 26 0.22
77 2 0.02
79 3 0.03
80 4 0.03
81 23 0.19
82 58 0.49
83 1 0.01
84 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.36
Consensus pattern (76 bp):
TCAGGCTTATTGCCTAGCAGGCTTTATGCTGATTATCAGGCTTTATGCCTAGCAGGCCTTATGCC
GGTGAATTACA
Found at i:51187185 original size:17 final size:17
Alignment explanation
Indices: 51187159--51187192 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51187149 TTTAAATTAT
* *
51187159 TTTTGTTTTGTTTGTAA
1 TTTTGATTTGTGTGTAA
51187176 TTTTGATTTGTGTGTAA
1 TTTTGATTTGTGTGTAA
51187193 GTGAAATTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.21, T:0.65
Consensus pattern (17 bp):
TTTTGATTTGTGTGTAA
Found at i:51193902 original size:41 final size:41
Alignment explanation
Indices: 51193678--51193901 Score: 294
Period size: 41 Copynumber: 5.5 Consensus size: 41
51193668 TTAGTGATAT
* *
51193678 TCAGGCTT-TATGCCTAGCAGGCTTTATGCTGGTGAATTATA
1 TCAGGCTTAT-TGCCTAGCAGGCTTTATGCCGGTGTATTATA
* *
51193719 TCAGGCTTATTGCCTAGCAGGCTTTATGCCAGTGAATTATA
1 TCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
*
51193760 TCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATT
1 TCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
*
51193801 TCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATT
1 TCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
* * * *
51193842 TTAGGCCTATTGCCTAGCAAGCTCTT-TGTCGGTGTATTATA
1 TCAGGCTTATTGCCTAGCAGGCT-TTATGCCGGTGTATTATA
51193883 -CTAGGCTT-TATGCCTAGCA
1 TC-AGGCTTAT-TGCCTAGCA
51193902 AATTTTATGT
Statistics
Matches: 167, Mismatches: 12, Indels: 8
0.89 0.06 0.04
Matches are distributed among these distances:
40 1 0.01
41 163 0.98
42 3 0.02
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (41 bp):
TCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATTATA
Found at i:51202773 original size:42 final size:43
Alignment explanation
Indices: 51202693--51202773 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
51202683 CCCAGACGTG
* *
51202693 GTCTTACATGTAATCAAATATTGATGCCACTGTCCCAGACAGA
1 GTCTTACACGAAATCAAATATTGATGCCACTGTCCCAGACAGA
*
51202736 GTCTTACACGAAATCAAATA-TGATGTCGA-TGTCCCAGA
1 GTCTTACACGAAATCAAATATTGATG-CCACTGTCCCAGA
51202774 TATGCTCTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
42 14 0.41
43 20 0.59
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (43 bp):
GTCTTACACGAAATCAAATATTGATGCCACTGTCCCAGACAGA
Found at i:51202783 original size:42 final size:43
Alignment explanation
Indices: 51202694--51202787 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 43
51202684 CCAGACGTGG
* * *
51202694 TCTTACATGTAATCAAATATTGATGCCACTGTCCCAGACAGAG
1 TCTTACACGAAATCAAATATTGATGCCACTGTCCCAGACAGAC
* *
51202737 TCTTACACGAAATCAAATA-TGATGTCGA-TGTCCCAGATATG-C
1 TCTTACACGAAATCAAATATTGATG-CCACTGTCCCAGACA-GAC
51202779 TCTTACACG
1 TCTTACACG
51202788 TATATCATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
42 24 0.55
43 20 0.45
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (43 bp):
TCTTACACGAAATCAAATATTGATGCCACTGTCCCAGACAGAC
Done.