Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 164 of 182
Found at i:49872649 original size:69 final size:68
Alignment explanation
Indices: 49872444--49872993 Score: 814
Period size: 68 Copynumber: 7.9 Consensus size: 68
49872434 ATCATTTCCA
* *
49872444 ATCCGCTTGAAATTGAAGTAGAGTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
49872509 GTC
66 GTC
* *
49872512 ATCCCCTTGAAATCGAAGTAGAGTGGATAACACG-CTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
49872576 GTC
66 GTC
* *
49872579 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
*
49872644 TGTC
65 CGTC
* *
49872648 ATCCCCTTGAAATTGAAGTAGAGAGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
49872713 GTC
66 GTC
49872716 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
49872781 GTC
66 GTC
* * *
49872784 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAGGAGTAA
1 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTA--AG-AG
*
49872849 CATCGTTTCC
62 CAACG--T-C
* * * * *
49872859 TATCCTCTTGAAATTGAAGTAAAACTAGATATCAAGTCTTTATCTCTGAAATTGAAGTAAGAGCA
1 -ATCCTCTTGAAATTGAAGT-AGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCA
49872924 ACGTC
64 ACGTC
* *
49872929 ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTCTGAAATTGAAATAAGAGCAA
1 ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAA
49872994 GATCATTTCC
Statistics
Matches: 437, Mismatches: 33, Indels: 23
0.89 0.07 0.05
Matches are distributed among these distances:
67 53 0.12
68 174 0.40
69 140 0.32
70 1 0.00
71 3 0.01
72 5 0.01
73 5 0.01
74 3 0.01
75 1 0.00
76 50 0.11
77 2 0.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (68 bp):
ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:49872871 original size:76 final size:74
Alignment explanation
Indices: 49872438--49873050 Score: 542
Period size: 68 Copynumber: 8.7 Consensus size: 74
49872428 AACAAAATCA
* * * * *
49872438 TTTCCAATCCGCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTCATCTCTGAAATTGAAGTA-
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAG
* *
49872501 AGAGCAACG
66 AGAACATCG
* * * *
49872510 --T-C-ATCCCCTTGAAATCGAAGTAGAG-TGGATAACACG-CTTTATCTCTGAAATTGAAGTA-
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAG
* *
49872568 AGAGCAACG
66 AGAACATCG
* *
49872577 --T-C-ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTA-
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAG
*
49872637 AGAGCAAT-G
66 AGAAC-ATCG
* * * *
49872646 --T-C-ATCCCCTTGAAATTGAAGTAGAG-AGGATAACACGTCTTTATCTCTGAAATTGAAGTA-
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAG
* *
49872705 AGAGCAACG
66 AGAACATCG
* *
49872714 --T-C-ATCCTCTTGAAATTGAAGTAGAG-TGGATAACACGTCTTTATCTCTGAAATTGAAGTA-
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAG
* *
49872773 AGAGCAACG
66 AGAACATCG
* *
49872782 --T-C-ATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTCATCTCTGAAATTGAAGTAG
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTA-
49872843 GAGTAACATCG
65 GAG-AACATCG
** * *
49872854 TTTCCTATCCTCTTGAAATTGAAGTAAAACTAGATATCAAGTCTTTATCTCTGAAATTGAAGTA-
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAG
* *
49872918 AGAGCAACG
66 AGAACATCG
* * * *
49872927 --T-C-ATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGCCTTTATCTCTGAAATTGAAATAA
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGT-A
* *
49872988 GAGCAAGATCA
65 GAG-AACATCG
* *
49872999 TTTCCTATCCTCTAGAAATTGAAGTAAAGTTGGATAGCAAAGTCTTTATCTC
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAAC-AAGTCTTTATCTC
49873051 CCTGAAGAGC
Statistics
Matches: 477, Mismatches: 44, Indels: 35
0.86 0.08 0.06
Matches are distributed among these distances:
67 54 0.11
68 170 0.36
69 133 0.28
70 4 0.01
71 5 0.01
72 8 0.02
73 5 0.01
74 4 0.01
75 2 0.00
76 81 0.17
77 11 0.02
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (74 bp):
TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAG
AGAACATCG
Found at i:49873359 original size:27 final size:27
Alignment explanation
Indices: 49873329--49873383 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
49873319 TTTTCGTTTA
*
49873329 ATTTAGAGTTAAATTGATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
* *
49873356 ATTTAAATTTAAATTTATTTTAAATTT
1 ATTTAAAGTTAAATTGATTTTAAATTT
49873383 A
1 A
49873384 AATTTAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
ATTTAAAGTTAAATTGATTTTAAATTT
Found at i:49873365 original size:6 final size:6
Alignment explanation
Indices: 49873347--49873445 Score: 73
Period size: 6 Copynumber: 16.8 Consensus size: 6
49873337 TTAAATTGAT
*
49873347 TTTAAA TTT--A TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTTAATTA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA--A
* * ** * *
49873394 TTTAAA TTT-AC TTTGAA TTTAAA -TTAAA TAAAAA TTAAAA CATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
49873441 TTTAA
1 TTTAA
49873446 CATTAAAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
4 4 0.05
5 13 0.18
6 47 0.64
7 4 0.05
8 6 0.08
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.49
Consensus pattern (6 bp):
TTTAAA
Found at i:49873365 original size:17 final size:17
Alignment explanation
Indices: 49873347--49873418 Score: 89
Period size: 17 Copynumber: 4.5 Consensus size: 17
49873337 TTAAATTGAT
49873347 TTTAAATTTA-TTTAAA
1 TTTAAATTTACTTTAAA
*
49873363 TTTAAATTTATTTTAAA
1 TTTAAATTTACTTTAAA
*
49873380 TTTAAATTTA-ATT--A
1 TTTAAATTTACTTTAAA
*
49873394 TTTAAATTTACTTTGAA
1 TTTAAATTTACTTTAAA
49873411 TTTAAATT
1 TTTAAATT
49873419 AAATAAAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
14 11 0.22
15 2 0.04
16 12 0.24
17 25 0.50
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
TTTAAATTTACTTTAAA
Found at i:49873377 original size:11 final size:10
Alignment explanation
Indices: 49873337--49873414 Score: 51
Period size: 11 Copynumber: 7.9 Consensus size: 10
49873327 TAATTTAGAG
*
49873337 TTAAATTGATT
1 TTAAATTTA-T
49873348 TTAAATTTAT
1 TTAAATTTAT
49873358 TT-AA---AT
1 TTAAATTTAT
49873364 TTAAATTTATT
1 TTAAATTTA-T
49873375 TTAAATTTAAAT
1 TTAAATTT--AT
49873387 TT-AA-TTAT
1 TTAAATTTAT
49873395 TTAAATTTACT
1 TTAAATTTA-T
*
49873406 TTGAATTTA
1 TTAAATTTA
49873415 AATTAAATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 20
0.71 0.03 0.26
Matches are distributed among these distances:
6 4 0.07
7 2 0.04
8 4 0.07
9 4 0.07
10 9 0.16
11 28 0.51
12 3 0.05
13 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (10 bp):
TTAAATTTAT
Found at i:49873430 original size:37 final size:37
Alignment explanation
Indices: 49873349--49873426 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 37
49873339 AAATTGATTT
* *
49873349 TAAATTTATTTAAATTTAAATTTATTTTAAATTTAAA
1 TAAAATTATTTAAATTTAAATTTAATTTAAATTTAAA
** *
49873386 TTTAATTATTTAAATTT-ACTTTGAATTTAAA-TTAAA
1 TAAAATTATTTAAATTTAAATTT-AATTTAAATTTAAA
49873422 TAAAA
1 TAAAA
49873427 ATTAAAACAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
36 12 0.36
37 21 0.64
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (37 bp):
TAAAATTATTTAAATTTAAATTTAATTTAAATTTAAA
Found at i:49874171 original size:15 final size:15
Alignment explanation
Indices: 49874151--49874193 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
49874141 CATTGGTAAC
*
49874151 AATAATAATATTGAT
1 AATAATAATATTAAT
* *
49874166 AATAATAACAGTAAT
1 AATAATAATATTAAT
49874181 AATAATAAATATT
1 AATAAT-AATATT
49874194 TTATAATAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (15 bp):
AATAATAATATTAAT
Found at i:49875207 original size:30 final size:30
Alignment explanation
Indices: 49875171--49875584 Score: 517
Period size: 30 Copynumber: 13.8 Consensus size: 30
49875161 AATTGTCTAG
*
49875171 AAATTACATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
**
49875201 AAATTACATTTTGACCTTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
** *
49875231 AAATTACATTTTGACCCTGAAACTTTTTCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
49875261 AAATTACATTTTAACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
49875291 AAATTACATTTTGACCCTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
** * **
49875321 AAATTATGTTTTAACCTTAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* * *
49875351 AAATTACATCTTGACCCCAAAATTTTTTCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
49875381 AAATTATATTTTGACCCCGAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* ***
49875411 AAATTACATTTTAACCTTGAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
49875441 AAATTACATATTAACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* *
49875471 TAATTACATTTTAACCCCAAAACTTTTCCA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
49875501 AAATTACATTTTGACCCCAAAACTTTTCTA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
* * * *
49875531 AAATTATATTTTGACCCCGAGAC-TTTCAA
1 AAATTACATTTTGACCCCAAAACTTTTCCA
*
49875560 AAATTACCATTTT-ACCCCCAAACTT
1 AAATTA-CATTTTGACCCCAAAACTT
49875585 CCCTAAATCC
Statistics
Matches: 335, Mismatches: 47, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
29 19 0.06
30 316 0.94
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.37
Consensus pattern (30 bp):
AAATTACATTTTGACCCCAAAACTTTTCCA
Found at i:49875620 original size:59 final size:57
Alignment explanation
Indices: 49875557--49875752 Score: 176
Period size: 59 Copynumber: 3.4 Consensus size: 57
49875547 CCGAGACTTT
* * *
49875557 CAAAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTCAACCCCGATTTCCC
1 CAAAAATTACCATTTTACCCCCAAACTTTCC-AAATTCCATTTTTAACCCCGATTT-CC
* * * * ** * * ** * *
49875616 CAAAACTTACCGTTTTGCCTCTGAACTTTCCAAAATTTCATTTTTGACCTTGTTTTTGC
1 CAAAAATTACCATTTTACCCCCAAACTTTCC-AAATTCCATTTTTAACCCCG-ATTTCC
* * * *
49875675 CAAAATTTACCATTTTATTCCCCAAACTTTCCAAATTCCATTTTTAGCCCCGATTTCA
1 CAAAAATTACCATTTTA-CCCCCAAACTTTCCAAATTCCATTTTTAACCCCGATTTCC
49875733 CAAAAATTACCATTTTACCC
1 CAAAAATTACCATTTTACCC
49875753 TTAAAAACCC
Statistics
Matches: 102, Mismatches: 33, Indels: 6
0.72 0.23 0.04
Matches are distributed among these distances:
57 2 0.02
58 19 0.19
59 68 0.67
60 13 0.13
ACGTcount: A:0.29, C:0.31, G:0.05, T:0.36
Consensus pattern (57 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCCAAATTCCATTTTTAACCCCGATTTCC
Found at i:49883485 original size:19 final size:18
Alignment explanation
Indices: 49883463--49883506 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
49883453 TTTTTTTATG
49883463 AATAAAATAATTTTGTAAA
1 AATAAAATAATTTTG-AAA
* *
49883482 AATAAATTACTTTTGAAA
1 AATAAAATAATTTTGAAA
*
49883500 TATAAAA
1 AATAAAA
49883507 GTTTTATTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (18 bp):
AATAAAATAATTTTGAAA
Found at i:49891134 original size:18 final size:17
Alignment explanation
Indices: 49891083--49891134 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 17
49891073 GCCTGACCCA
* *
49891083 TTTTAAATT-TATAATA
1 TTTTATATTATATAATT
* *
49891099 TTTTATATTATGTTATT
1 TTTTATATTATATAATT
49891116 TTTATATATTATATAATT
1 TTT-TATATTATATAATT
49891134 T
1 T
49891135 AGAACACATT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
16 8 0.29
17 7 0.25
18 13 0.46
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (17 bp):
TTTTATATTATATAATT
Found at i:49893388 original size:27 final size:23
Alignment explanation
Indices: 49893354--49893414 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 23
49893344 AATTGCATGA
49893354 TTTAAAAAAATTAATGAAATTATAATT
1 TTTAAAAAAATTAA--AAATTAT-A-T
49893381 TTTGAAAATAAATTAAAAATTATAT
1 TTT-AAAA-AAATTAAAAATTATAT
49893406 TTTAAAAAA
1 TTTAAAAAA
49893415 TGGAATCGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
23 2 0.06
24 4 0.12
25 4 0.12
26 1 0.03
27 10 0.31
28 4 0.12
29 7 0.22
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.39
Consensus pattern (23 bp):
TTTAAAAAAATTAAAAATTATAT
Found at i:49893413 original size:25 final size:27
Alignment explanation
Indices: 49893357--49893414 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 27
49893347 TGCATGATTT
49893357 AAAAAAATTAATGAAATTATAATTTTTGA
1 AAAAAAATTAA-GAAATTATAATTTTT-A
*
49893386 AAATAAATTAA-AAATTAT-A-TTTTA
1 AAAAAAATTAAGAAATTATAATTTTTA
49893410 AAAAA
1 AAAAA
49893415 TGGAATCGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 5 0.19
25 4 0.15
26 1 0.04
27 7 0.26
29 10 0.37
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.36
Consensus pattern (27 bp):
AAAAAAATTAAGAAATTATAATTTTTA
Found at i:49895616 original size:10 final size:11
Alignment explanation
Indices: 49895589--49895626 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
49895579 AGAGTTTTTC
49895589 ATTTTAATAAT
1 ATTTTAATAAT
*
49895600 ATTTTAATTAT
1 ATTTTAATAAT
49895611 -TTTTAAATAAT
1 ATTTT-AATAAT
49895622 ATTTT
1 ATTTT
49895627 GATATTATCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 4 0.17
11 15 0.65
12 4 0.17
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
ATTTTAATAAT
Found at i:49902137 original size:11 final size:11
Alignment explanation
Indices: 49902117--49902156 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
49902107 ATGACAGTAA
49902117 AACAACAACAT
1 AACAACAACAT
* *
49902128 AACAATAACAA
1 AACAACAACAT
49902139 AACAACAACAT
1 AACAACAACAT
49902150 AACAACA
1 AACAACA
49902157 GTAAACAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.68, C:0.25, G:0.00, T:0.07
Consensus pattern (11 bp):
AACAACAACAT
Found at i:49905675 original size:34 final size:34
Alignment explanation
Indices: 49905602--49905675 Score: 78
Period size: 34 Copynumber: 2.2 Consensus size: 34
49905592 TGTTTAAATC
* *
49905602 AATTATCATGTTGGAATACTGCATTTATTGAATC
1 AATTATCATGTTAGAATACTGCATTTATTGAATA
* * * *
49905636 GATTATCATGTTAGAATATTG-TTTCTTTTGAATA
1 AATTATCATGTTAGAATACTGCATT-TATTGAATA
49905670 AATTAT
1 AATTAT
49905676 TTATATGTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
33 2 0.06
34 30 0.94
ACGTcount: A:0.32, C:0.08, G:0.14, T:0.46
Consensus pattern (34 bp):
AATTATCATGTTAGAATACTGCATTTATTGAATA
Found at i:49908590 original size:51 final size:51
Alignment explanation
Indices: 49908513--49908609 Score: 176
Period size: 51 Copynumber: 1.9 Consensus size: 51
49908503 ATGGACATCA
49908513 AAAAATCAAAAGTGATGTCATCTGAACCTTATCGTTTTTGGCAAAATTCTT
1 AAAAATCAAAAGTGATGTCATCTGAACCTTATCGTTTTTGGCAAAATTCTT
* *
49908564 AAAATTCAAAAGTGATGTCATTTGAACCTTATCGTTTTTGGCAAAA
1 AAAAATCAAAAGTGATGTCATCTGAACCTTATCGTTTTTGGCAAAA
49908610 CGTTTCTCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (51 bp):
AAAAATCAAAAGTGATGTCATCTGAACCTTATCGTTTTTGGCAAAATTCTT
Found at i:49911691 original size:23 final size:22
Alignment explanation
Indices: 49911645--49911690 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
49911635 CATTTGAAGT
49911645 AATTAATATAAATTATTTTTAA
1 AATTAATATAAATTATTTTTAA
*
49911667 AATTAATTATACA-TATTTTTAA
1 AATTAA-TATAAATTATTTTTAA
49911689 AA
1 AA
49911691 ACTTAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTAATATAAATTATTTTTAA
Found at i:49918865 original size:59 final size:58
Alignment explanation
Indices: 49918794--49919090 Score: 420
Period size: 59 Copynumber: 5.1 Consensus size: 58
49918784 CTCGGGGGTG
* *
49918794 AAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGAGATTTTAGAAAGTTCAGGCATA
1 AAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATG-GATTTTGGAAAGTTCAGGGATA
* * **
49918853 AAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTCGGGGGCA
1 AAATGGTAATTTTTGGTGAAATCGGGGTTAAAAAT-GGATTTTGGAAAGTTCAGGGATA
49918912 AAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGAGATTTTGGAAAGTTC-GAGGATA
1 AAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATG-GATTTTGGAAAGTTCAG-GGATA
*
49918970 AAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTCAGGGGTA
1 AAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGG-ATTTTGGAAAGTTCAGGGATA
* * *
49919029 AAATGGTGATTTTTTGGTGAAATCGGGGTT-AAAATGGAATTTTAGAAAGTTCAGGGGTA
1 AAATGGT-AATTTTTGGTGAAATCGGGGTTAAAAATGG-ATTTTGGAAAGTTCAGGGATA
49919088 AAA
1 AAA
49919091 ATATAATTTA
Statistics
Matches: 219, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
57 2 0.01
58 53 0.24
59 141 0.64
60 23 0.11
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (58 bp):
AAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGATTTTGGAAAGTTCAGGGATA
Found at i:49918971 original size:28 final size:27
Alignment explanation
Indices: 49918824--49918975 Score: 71
Period size: 28 Copynumber: 5.3 Consensus size: 27
49918814 ATCGGGGTTA
*
49918824 AAAATGAGATTTTAGAAAGTTC-AGGCAT
1 AAAATG-GATTTTGGAAAGTTCGAGG-AT
*
49918852 AAAATGGTAATTTTTGGTGAAA--TCGAGGTT
1 AAAATGG--A-TTTT-G-GAAAGTTCGAGGAT
* **
49918882 AAAAATGGGATTTTGGAAAGTTCGGGGGC
1 -AAAAT-GGATTTTGGAAAGTTCGAGGAT
* *
49918911 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGG--A-TTTT-G-GAAAGTTCGAGGAT
49918941 AAAATGAGATTTTGGAAAGTTCGAGGAT
1 AAAATG-GATTTTGGAAAGTTCGAGGAT
49918969 AAAATGG
1 AAAATGG
49918976 TAATTTTTGG
Statistics
Matches: 97, Mismatches: 9, Indels: 37
0.68 0.06 0.26
Matches are distributed among these distances:
26 4 0.04
27 9 0.09
28 28 0.29
29 12 0.12
30 24 0.25
31 10 0.10
32 10 0.10
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.30
Consensus pattern (27 bp):
AAAATGGATTTTGGAAAGTTCGAGGAT
Found at i:49918982 original size:117 final size:117
Alignment explanation
Indices: 49918785--49919083 Score: 485
Period size: 117 Copynumber: 2.5 Consensus size: 117
49918775 CTTTGGATGC
*
49918785 TCGGGGGTGAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGAGATTTTAGAAAGTTCAGGC
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGAGATTTTAGAAAGTTCAGGC
*
49918850 ATAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGT
65 ATAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
* *
49918903 TCGGGGGCAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGAGATTTTGGAAAGTTCGAGG-
1 TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGAGATTTTAGAAAGTTC-AGGC
*
49918967 ATAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGT
65 ATAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
* *
49919020 TCAGGGGTAAAATGGTGATTTTTTGGTGAAATCGGGGTTAAAATG-GAATTTTAGAAAGTTCAGG
1 TCGGGGGTAAAATGGT-AATTTTTGGTGAAATCGGGGTTAAAATGAG-ATTTTAGAAAGTTCAGG
49919084 GGTAAAAATA
Statistics
Matches: 169, Mismatches: 9, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
117 90 0.53
118 79 0.47
ACGTcount: A:0.33, C:0.04, G:0.30, T:0.32
Consensus pattern (117 bp):
TCGGGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAATGAGATTTTAGAAAGTTCAGGCA
TAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGT
Found at i:49919090 original size:28 final size:28
Alignment explanation
Indices: 49919000--49919090 Score: 80
Period size: 28 Copynumber: 3.1 Consensus size: 28
49918990 ATCGGGGTTA
*
49919000 AAAATGGAATTTTGGAAAGTTCAGGGGT
1 AAAATGGAATTTTAGAAAGTTCAGGGGT
* *
49919028 AAAATGGTGATTTTTTGGTGAAA--TC-GGGGTT
1 AAAAT-G-GA-ATTTT--AGAAAGTTCAGGGG-T
49919059 AAAATGGAATTTTAGAAAGTTCAGGGGT
1 AAAATGGAATTTTAGAAAGTTCAGGGGT
49919087 AAAA
1 AAAA
49919091 ATATAATTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
26 4 0.08
28 16 0.32
29 7 0.14
30 7 0.14
31 12 0.24
33 4 0.08
ACGTcount: A:0.36, C:0.03, G:0.30, T:0.31
Consensus pattern (28 bp):
AAAATGGAATTTTAGAAAGTTCAGGGGT
Found at i:49921019 original size:6 final size:6
Alignment explanation
Indices: 49921010--49921087 Score: 54
Period size: 6 Copynumber: 13.0 Consensus size: 6
49921000 TTAATACAAT
* * *
49921010 TTTAAA TTT-AA -TTAAA TTCAAA TTTTAA -GTAAA TTTAAA TTTAAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA
* **
49921056 TAGATAAA TTTAAA TTTAAA AATAAA TTTAAA
1 T--TTAAA TTTAAA TTTAAA TTTAAA TTTAAA
49921088 ACCAATTTAA
Statistics
Matches: 54, Mismatches: 12, Indels: 12
0.69 0.15 0.15
Matches are distributed among these distances:
4 2 0.04
5 7 0.13
6 36 0.67
7 4 0.07
8 4 0.07
9 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:49921027 original size:17 final size:15
Alignment explanation
Indices: 49920994--49921053 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 15
49920984 TTTCATTTAA
*
49920994 TTAAGTTTAATACAATT
1 TTAAATTTAATA-AA-T
49921011 TTAAATTTAATTAAAT
1 TTAAATTTAA-TAAAT
*
49921027 TCAAATTTTAAGTAAAT
1 TTAAA-TTTAA-TAAAT
49921044 TTAAATTTAA
1 TTAAATTTAA
49921054 AATAGATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 10 0.27
17 25 0.68
18 2 0.05
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (15 bp):
TTAAATTTAATAAAT
Found at i:49921065 original size:21 final size:18
Alignment explanation
Indices: 49921010--49921087 Score: 72
Period size: 17 Copynumber: 4.3 Consensus size: 18
49921000 TTAATACAAT
*
49921010 TTTAAATTT--AATTAAA
1 TTTAAATTTAAAAATAAA
* * *
49921026 TTCAAATTT-TAAGTAAA
1 TTTAAATTTAAAAATAAA
49921043 TTTAAATTTAAAATAGATAAA
1 TTTAAATTT-AAA-A-ATAAA
49921064 TTTAAATTTAAAAATAAA
1 TTTAAATTTAAAAATAAA
49921082 TTTAAA
1 TTTAAA
49921088 ACCAATTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.15
17 14 0.27
18 11 0.21
19 2 0.04
20 4 0.08
21 13 0.25
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (18 bp):
TTTAAATTTAAAAATAAA
Found at i:49921999 original size:174 final size:176
Alignment explanation
Indices: 49921682--49922296 Score: 705
Period size: 174 Copynumber: 3.5 Consensus size: 176
49921672 ATTTTGTATG
* * * * * *
49921682 TCAACACGTACCTTATTCT-GGAATTAACACGTG-TTTTCTATATGTG-GGTTTGCATGCATAGT
1 TCAACACGTACCCTATTCTAGG-ATTAACACGTGATTTTCTACATGTGAGATTTACGTGCATGGT
* *
49921744 AGTGCGAACCCA-TCCAGTGCGAGCTCATGAAAGGATGTGAACACCTCATGTGCGAATCCTATAT
65 AGTGCGAACCCACCCCA-TGCGAGCTCATGAAAGGATGTGAACACCTCACGTGCGAATCCTATAT
* * * * * *
49921808 TATACGGTTCTTAGATGATGTGACATCGTAAGTAGATCTCCATGCATA
129 GATACGGTTCCTAGATGATGTGACATCATAGGTAGGTCCCCATGCATA
* * * *
49921856 TCAACATGTACCCTGTTCTAGGATTAACACGTGA-TTTCTACATGTGAG-TTTTCGTGTATGGTA
1 TCAACACGTACCCTATTCTAGGATTAACACGTGATTTTCTACATGTGAGATTTACGTGCATGGTA
* * * * *
49921919 GTGTGAACCCACCCCAAGCAAGCTCATGAAAGGATGTGAATACCTCACGTGCGAATCCTAAATGA
66 GTGCGAACCCACCCCATGCGAGCTCATGAAAGGATGTGAACACCTCACGTGCGAATCCTATATGA
49921984 TACGGTTCCTAGATGATGTGACATCATAGGTAGGTCCCCATGCATA
131 TACGGTTCCTAGATGATGTGACATCATAGGTAGGTCCCCATGCATA
* * * * * *
49922030 TCAACATGTA-CCTGTTCTAGGATTAACACG-CATTTTCAACATGT-AGATTTCCGTGTATGGTA
1 TCAACACGTACCCTATTCTAGGATTAACACGTGATTTTCTACATGTGAGATTTACGTGCATGGTA
* * * * * * *
49922092 GCGCGAACGCACACCATGCGAGCTCATGAAAGGATGTGAACACTTTACGTGAGAATCATATATGA
66 GTGCGAACCCACCCCATGCGAGCTCATGAAAGGATGTGAACACCTCACGTGCGAATCCTATATGA
* * *
49922157 TACGGTCCCTAAATGATGTGACGTCATAGGTAGGTCCCCATGCAT-
131 TACGGTTCCTAGATGATGTGACATCATAGGTAGGTCCCCATGCATA
* * * * *
49922202 GCAAACACATACTCTATTCTAGGATTAACACGT-ATTTTCTACGTGTG-GATTCACGTGCATGGT
1 TC-AACACGTACCCTATTCTAGGATTAACACGTGATTTTCTACATGTGAGATTTACGTGCATGGT
* *
49922265 GGTGCGAACCCACCCCGTGCGAGCTCATGAAA
65 AGTGCGAACCCACCCCATGCGAGCTCATGAAA
49922297 TGCAAACACC
Statistics
Matches: 377, Mismatches: 54, Indels: 20
0.84 0.12 0.04
Matches are distributed among these distances:
172 4 0.01
173 145 0.38
174 222 0.59
175 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (176 bp):
TCAACACGTACCCTATTCTAGGATTAACACGTGATTTTCTACATGTGAGATTTACGTGCATGGTA
GTGCGAACCCACCCCATGCGAGCTCATGAAAGGATGTGAACACCTCACGTGCGAATCCTATATGA
TACGGTTCCTAGATGATGTGACATCATAGGTAGGTCCCCATGCATA
Found at i:49926674 original size:29 final size:29
Alignment explanation
Indices: 49926640--49926697 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
49926630 TTTTAGGGAC
*
49926640 TGTATCAAATTAATCCCTCTATTATTAAA
1 TGTATCAAATTAATCCCTCTAGTATTAAA
* * *
49926669 TGTATCAATTTAATCTCTGTAGTATTAAA
1 TGTATCAAATTAATCCCTCTAGTATTAAA
49926698 AAAATCAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (29 bp):
TGTATCAAATTAATCCCTCTAGTATTAAA
Found at i:49943162 original size:195 final size:195
Alignment explanation
Indices: 49942828--49943214 Score: 722
Period size: 195 Copynumber: 2.0 Consensus size: 195
49942818 TGCACTGAAA
49942828 TAGTATGAGAAACTTCACCCACAACCGCACATGTATTTTTATCTTTACAATCAATACATTCATTC
1 TAGTATGAGAAACTTCACCCACAACCGCACATGTATTTTTATCTTTACAATCAATACATTCATTC
49942893 ACCAATGAAGCTCCAAAGGATTCTTCCTCACTAGGAGATATCAACTCTACAACATCAGACCCAGA
66 ACCAATGAAGCTCCAAAGGATTCTTCCTCACTAGGAGATATCAACTCTACAACATCAGACCCAGA
* *
49942958 TGCTTTTTCCATTATGCCATTTTTTTCTATGTTTACATCGGAACATGTATTCTTCAAACCATTGC
131 TGCTTTTTCCATTAAGCCATTTTTTTCTATGTTTACATCGGAACATGTATCCTTCAAACCATTGC
*
49943023 TAGTATGAGAAACTTCACCCAC-ACCTGCACATGTATTTTTATCTTTACAATCCATACATTCATT
1 TAGTATGAGAAACTTCACCCACAACC-GCACATGTATTTTTATCTTTACAATCAATACATTCATT
49943087 CACCAATGAAGCTCCAAAGGATTCTTCCTCACTAGGAGATATCAACTCTACAACATCAGACCCAG
65 CACCAATGAAGCTCCAAAGGATTCTTCCTCACTAGGAGATATCAACTCTACAACATCAGACCCAG
*
49943152 ATGTTTTTTCCATTAAGCCATTTTTTTCTATGTTTACATCGGAACATGTATCCTTCAAACCAT
130 ATGCTTTTTCCATTAAGCCATTTTTTTCTATGTTTACATCGGAACATGTATCCTTCAAACCAT
49943215 CACTAGTTTG
Statistics
Matches: 187, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
194 3 0.02
195 184 0.98
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.33
Consensus pattern (195 bp):
TAGTATGAGAAACTTCACCCACAACCGCACATGTATTTTTATCTTTACAATCAATACATTCATTC
ACCAATGAAGCTCCAAAGGATTCTTCCTCACTAGGAGATATCAACTCTACAACATCAGACCCAGA
TGCTTTTTCCATTAAGCCATTTTTTTCTATGTTTACATCGGAACATGTATCCTTCAAACCATTGC
Found at i:49955242 original size:165 final size:165
Alignment explanation
Indices: 49955030--49955517 Score: 547
Period size: 165 Copynumber: 2.9 Consensus size: 165
49955020 GATCACATTA
* **
49955030 CTTTTTAATTTAACGGTATATATTCTTTTCAG-CTTCATTTAGTAAGCATGTTTTTAGAATTTTT
1 CTTTTTAATTTAACGGTACATATTC-TTTCAGTC-TCATTTAGTAAGCACATTTTTAGAATTTTT
* *
49955094 CAATAACATTTTCTTATTTGCTTTTTACTCTAACATACATATTGTCTCAGCCAT-ATTTAATAAG
64 CAATAACATTTTCTTATTTGCTTTTTAATCTAACATACATATTCTCTCAGCC-TCATTTAATAAG
*
49955158 CACATTTTTAGAATTTTCCTATAACA-TTGTTTTATTT
128 CACATTTTTAGAATTTTCCAATAACATTTGTTTTATTT
* *
49955195 GCTTTTCAATTTAACGGTACATATTCTTTGAGTCTCATTTAGTAAGCACATTTTTAGAATTTTTC
1 -CTTTTTAATTTAACGGTACATATTCTTTCAGTCTCATTTAGTAAGCACATTTTTAGAATTTTTC
* * * * * * *
49955260 AGTAACATTTTCTTGTTTGCTTTTTAATCTAACGGTATATATTCTTTCAGCCTCGTTTAGTAAGC
65 AATAACATTTTCTTATTTGCTTTTTAATCTAAC-ATACATATTCTCTCAGCCTCATTTAATAAGC
*
49955325 ACATTTTTAGAATTTTCCAATAACATTTTTTTTATTT
129 ACATTTTTAGAATTTTCCAATAACATTTGTTTTATTT
* * * * *
49955362 -TTTTTAATGTAACGGTACATA-TCTTTCCCGTCTCATTTAATAAACACATTTTTA-AAATTTTC
1 CTTTTTAATTTAACGGTACATATTCTTT-CAGTCTCATTTAGTAAGCACATTTTTAGAATTTTTC
* * ** * * * * ** *
49955424 TAATAATATTTCCTTATTTAATTTTTAATCTAATAATACATATTCTTTTAGTCTCATTTGGTAAA
65 -AATAACATTTTCTTATTTGCTTTTTAATCTAA-CATACATATTCTCTCAGCCTCATTTAATAAG
* * *
49955489 CACCTTTTTAGAAATTTCCAACAACATTT
128 CACATTTTTAGAATTTTCCAATAACATTT
49955518 CCTTGTACAT
Statistics
Matches: 275, Mismatches: 40, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
164 12 0.04
165 182 0.66
166 71 0.26
167 10 0.04
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (165 bp):
CTTTTTAATTTAACGGTACATATTCTTTCAGTCTCATTTAGTAAGCACATTTTTAGAATTTTTCA
ATAACATTTTCTTATTTGCTTTTTAATCTAACATACATATTCTCTCAGCCTCATTTAATAAGCAC
ATTTTTAGAATTTTCCAATAACATTTGTTTTATTT
Found at i:49955256 original size:83 final size:82
Alignment explanation
Indices: 49955030--49955517 Score: 484
Period size: 83 Copynumber: 5.9 Consensus size: 82
49955020 GATCACATTA
* * ** *
49955030 CTTTTTAATTTAACGGTATATATTCTTTTCAG-CTTCATTTAGTAAGCATGTTTTTAGAATTTTT
1 CTTTTTAATCTAACGGTACATATTC-TTTCAGTC-TCATTTAGTAAGCACATTTTTAGAATTTTC
49955094 CAATAACATTTTCTTATTTG
64 CAATAACATTTT-TTATTTG
* * * * * *
49955114 CTTTTTACTCTAAC-ATACATATTGTCTCAGCCAT-ATTTAATAAGCACATTTTTAGAATTTTCC
1 CTTTTTAATCTAACGGTACATATTCTTTCAGTC-TCATTTAGTAAGCACATTTTTAGAATTTTCC
*
49955177 TATAACATTGTTTTATTTG
65 AATAACATT-TTTTATTTG
* * * *
49955196 CTTTTCAATTTAACGGTACATATTCTTTGAGTCTCATTTAGTAAGCACATTTTTAGAATTTTTCA
1 CTTTTTAATCTAACGGTACATATTCTTTCAGTCTCATTTAGTAAGCACATTTTTAGAATTTTCCA
* *
49955261 GTAACATTTTCTTGTTTG
66 ATAACATTTT-TTATTTG
* * *
49955279 CTTTTTAATCTAACGGTATATATTCTTTCAGCCTCGTTTAGTAAGCACATTTTTAGAATTTTCCA
1 CTTTTTAATCTAACGGTACATATTCTTTCAGTCTCATTTAGTAAGCACATTTTTAGAATTTTCCA
49955344 ATAACATTTTTTTTATTT-
66 ATAACA--TTTTTTATTTG
* * * * * *
49955362 -TTTTTAATGTAACGGTACATA-TCTTTCCCGTCTCATTTAATAAACACATTTTTAAAATTTTCT
1 CTTTTTAATCTAACGGTACATATTCTTT-CAGTCTCATTTAGTAAGCACATTTTTAGAATTTTCC
* * *
49955425 AATAATATTTCCTTATTTA
65 AATAACATTT-TTTATTTG
* *** * * * * *
49955444 ATTTTTAATCTAATAATACATATTCTTTTAGTCTCATTTGGTAAACACCTTTTTAGAAATTTCCA
1 CTTTTTAATCTAACGGTACATATTCTTTCAGTCTCATTTAGTAAGCACATTTTTAGAATTTTCCA
*
49955509 ACAACATTT
66 ATAACATTT
49955518 CCTTGTACAT
Statistics
Matches: 333, Mismatches: 59, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
80 3 0.01
81 11 0.03
82 113 0.34
83 180 0.54
84 22 0.07
85 4 0.01
ACGTcount: A:0.29, C:0.15, G:0.08, T:0.48
Consensus pattern (82 bp):
CTTTTTAATCTAACGGTACATATTCTTTCAGTCTCATTTAGTAAGCACATTTTTAGAATTTTCCA
ATAACATTTTTTATTTG
Found at i:49955469 original size:248 final size:248
Alignment explanation
Indices: 49955030--49955501 Score: 587
Period size: 248 Copynumber: 1.9 Consensus size: 248
49955020 GATCACATTA
* * ** *
49955030 CTTTTTAATTTAACGGTATATATTCTTTTCAGCTTCATTTAGTAAGCATGTTTTTAGAATTTTTC
1 CTTTTTAATCTAACGGTATATATTCTTTTCAGCCTCATTTAGTAAGCACATTTTTAGAATTTTCC
* *
49955095 AATAACATTTTCTTATTTGCTTTTTACTCTAACATACATATTGTCTCAGCCATATTTAATAAGCA
66 AATAACATTTTCTTATTT-CTTTTTAATCTAACATACATATTGTCTCAGCCATATTTAATAAACA
* * ** * **
49955160 CATTTTTAGAATTTTCCTATAACATTGTTTTATTTGCTTTTCAATTTAACGGTACATATTCTTTG
130 CATTTTTAAAATTTTCCTATAACATTGTCTTATTTAATTTTCAATCTAACAATACATATTCTTTG
*
49955225 AGTCTCATTTAGTAAGCACATTTTTAGAATTTTTCAGTAACATTTTCTTGTTTG
195 AGTCTCATTTAGTAAACACATTTTTAGAATTTTTCAGTAACATTTTCTTGTTTG
*
49955279 CTTTTTAATCTAACGGTATATATTC-TTTCAGCCTCGTTTAGTAAGCACATTTTTAGAATTTTCC
1 CTTTTTAATCTAACGGTATATATTCTTTTCAGCCTCATTTAGTAAGCACATTTTTAGAATTTTCC
* * * * * *
49955343 AATAACATTTTTTTTATTT-TTTTTAATGTAACGGTACATATCTTTC-CCGTC-TCATTTAATAA
66 AATAACA-TTTTCTTATTTCTTTTTAATCTAAC-ATACATAT-TGTCTCAGCCAT-ATTTAATAA
* * *
49955405 ACACATTTTTAAAATTTT-CTAATAATATT-TCCTTATTTAATTTTTAATCTAATAATACATATT
127 ACACATTTTTAAAATTTTCCT-ATAACATTGT-CTTATTTAATTTTCAATCTAACAATACATATT
* * *
49955468 CTTTTAGTCTCATTTGGTAAACACCTTTTTAGAA
190 CTTTGAGTCTCATTTAGTAAACACATTTTTAGAA
49955502 ATTTCCAACA
Statistics
Matches: 189, Mismatches: 28, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
247 15 0.08
248 137 0.72
249 37 0.20
ACGTcount: A:0.28, C:0.15, G:0.08, T:0.49
Consensus pattern (248 bp):
CTTTTTAATCTAACGGTATATATTCTTTTCAGCCTCATTTAGTAAGCACATTTTTAGAATTTTCC
AATAACATTTTCTTATTTCTTTTTAATCTAACATACATATTGTCTCAGCCATATTTAATAAACAC
ATTTTTAAAATTTTCCTATAACATTGTCTTATTTAATTTTCAATCTAACAATACATATTCTTTGA
GTCTCATTTAGTAAACACATTTTTAGAATTTTTCAGTAACATTTTCTTGTTTG
Found at i:49956508 original size:19 final size:20
Alignment explanation
Indices: 49956484--49956522 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
49956474 TAATGTTATC
49956484 TTTTTATAAA-AA-TTAATTA
1 TTTTTA-AAATAATTTAATTA
49956503 TTTTTAAAATAATTTAATTA
1 TTTTTAAAATAATTTAATTA
49956523 AAATATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 8 0.44
20 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTTTAAAATAATTTAATTA
Found at i:49957547 original size:31 final size:29
Alignment explanation
Indices: 49957505--49957570 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
49957495 AAATTTTAAA
* *
49957505 TTAATAATAATAAAATTATATTTTAACTCTT
1 TTAAAAATAAT-AAATTATAATTTAA-TCTT
*
49957536 TTAAAAATAATAAATTTTAATTTAATCTT
1 TTAAAAATAATAAATTATAATTTAATCTT
*
49957565 CTAAAA
1 TTAAAA
49957571 TAAAATTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 9 0.29
30 12 0.39
31 10 0.32
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (29 bp):
TTAAAAATAATAAATTATAATTTAATCTT
Found at i:49958062 original size:26 final size:26
Alignment explanation
Indices: 49958014--49958065 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
49958004 GTCCCTCTAT
*
49958014 TATACTTAATTTTGAGATTTAATTTA
1 TATACTTAATTTTGAGATATAATTTA
*
49958040 TATACTTTAATTTTTAG-TATAATTTA
1 TATAC-TTAATTTTGAGATATAATTTA
49958066 ACATCTATAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.56
Consensus pattern (26 bp):
TATACTTAATTTTGAGATATAATTTA
Found at i:49960152 original size:21 final size:20
Alignment explanation
Indices: 49960126--49960182 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 20
49960116 TGTTTTTTTG
49960126 TTTTTTTTACTGTTTTGGTTA
1 TTTTTTTTACTGTTTTGG-TA
*
49960147 TTTTTTTTTCTGTTTT-G-A
1 TTTTTTTTACTGTTTTGGTA
49960165 -TTTTTTTACTGTTTTGGT
1 TTTTTTTTACTGTTTTGGT
49960183 GCTTTTTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 14 0.44
18 2 0.06
20 1 0.03
21 15 0.47
ACGTcount: A:0.07, C:0.05, G:0.14, T:0.74
Consensus pattern (20 bp):
TTTTTTTTACTGTTTTGGTA
Found at i:49960170 original size:16 final size:17
Alignment explanation
Indices: 49960121--49960180 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 17
49960111 TATATTGTTT
*
49960121 TTTTGTTTTTTTTACTG
1 TTTTGATTTTTTTACTG
*
49960138 TTTTGGTTATTTTTTTTTCTG
1 TTTT-G--A-TTTTTTTACTG
49960159 TTTTGATTTTTTTACTG
1 TTTTGATTTTTTTACTG
49960176 TTTTG
1 TTTTG
49960181 GTGCTTTTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
17 19 0.53
18 2 0.06
20 1 0.03
21 14 0.39
ACGTcount: A:0.07, C:0.05, G:0.13, T:0.75
Consensus pattern (17 bp):
TTTTGATTTTTTTACTG
Found at i:49960189 original size:21 final size:20
Alignment explanation
Indices: 49960124--49960190 Score: 68
Period size: 21 Copynumber: 3.4 Consensus size: 20
49960114 ATTGTTTTTT
49960124 TGTTTTTTTTACTGTTTTGG
1 TGTTTTTTTTACTGTTTTGG
* *
49960144 TTATTTTTTTTTCTG-TTT--
1 -TGTTTTTTTTACTGTTTTGG
*
49960162 TGATTTTTTTACTGTTTTGG
1 TGTTTTTTTTACTGTTTTGG
49960182 TGCTTTTTT
1 TG-TTTTTT
49960191 GTTGTTGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
17 11 0.31
18 3 0.08
20 5 0.14
21 17 0.47
ACGTcount: A:0.06, C:0.06, G:0.15, T:0.73
Consensus pattern (20 bp):
TGTTTTTTTTACTGTTTTGG
Found at i:49960200 original size:39 final size:38
Alignment explanation
Indices: 49960115--49960201 Score: 113
Period size: 38 Copynumber: 2.3 Consensus size: 38
49960105 AAAAATTATA
* * *
49960115 TTGTTTTTTTGTTTTTTTTACTGTTTTGGTTATTTTTT
1 TTGTTGTTTTGATTTTTTTACTGTTTTGGTGATTTTTT
*
49960153 TT-TCTGTTTTGATTTTTTTACTGTTTTGGTGCTTTTTT
1 TTGT-TGTTTTGATTTTTTTACTGTTTTGGTGATTTTTT
49960191 GTTGTTGTTTT
1 -TTGTTGTTTT
49960202 TGTTGTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
37 1 0.02
38 32 0.76
39 8 0.19
40 1 0.02
ACGTcount: A:0.05, C:0.05, G:0.16, T:0.75
Consensus pattern (38 bp):
TTGTTGTTTTGATTTTTTTACTGTTTTGGTGATTTTTT
Found at i:49960220 original size:24 final size:23
Alignment explanation
Indices: 49960176--49960271 Score: 106
Period size: 24 Copynumber: 4.2 Consensus size: 23
49960166 TTTTTTACTG
* * * *
49960176 TTTTGGTGCTTTTTTGTTGTTGT
1 TTTTGTTGTTTTTTTGCTGTTAT
49960199 TTTTGTTGTTATTTTTGCTGTTAT
1 TTTTGTTGTT-TTTTTGCTGTTAT
* *
49960223 TTTTGTTGTTGTTTTTGTTGCTAT
1 TTTTGTTGTT-TTTTTGCTGTTAT
49960247 TTTTGTTG--TTTTTGCTGTTAT
1 TTTTGTTGTTTTTTTGCTGTTAT
49960268 TTTT
1 TTTT
49960272 ATTGCTGTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
21 15 0.24
23 8 0.13
24 40 0.63
ACGTcount: A:0.04, C:0.04, G:0.20, T:0.72
Consensus pattern (23 bp):
TTTTGTTGTTTTTTTGCTGTTAT
Found at i:49960233 original size:36 final size:36
Alignment explanation
Indices: 49960186--49960256 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
49960176 TTTTGGTGCT
*
49960186 TTTTTGTTGTTGTTTTTGTTGTTATTTTTGCTGTTA
1 TTTTTGTTGTTGTTTTTGTTGCTATTTTTGCTGTTA
*
49960222 TTTTTGTTGTTGTTTTTGTTGCTATTTTTGTTGTT
1 TTTTTGTTGTTGTTTTTGTTGCTATTTTTGCTGTT
49960257 TTTGCTGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.04, C:0.03, G:0.20, T:0.73
Consensus pattern (36 bp):
TTTTTGTTGTTGTTTTTGTTGCTATTTTTGCTGTTA
Found at i:49960271 original size:12 final size:12
Alignment explanation
Indices: 49960186--49960256 Score: 106
Period size: 12 Copynumber: 5.9 Consensus size: 12
49960176 TTTTGGTGCT
*
49960186 TTTTTGTTGTTG
1 TTTTTGTTGTTA
49960198 TTTTTGTTGTTA
1 TTTTTGTTGTTA
*
49960210 TTTTTGCTGTTA
1 TTTTTGTTGTTA
*
49960222 TTTTTGTTGTTG
1 TTTTTGTTGTTA
*
49960234 TTTTTGTTGCTA
1 TTTTTGTTGTTA
49960246 TTTTTGTTGTT
1 TTTTTGTTGTT
49960257 TTTGCTGTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 52 1.00
ACGTcount: A:0.04, C:0.03, G:0.20, T:0.73
Consensus pattern (12 bp):
TTTTTGTTGTTA
Found at i:49960271 original size:21 final size:22
Alignment explanation
Indices: 49960196--49960269 Score: 89
Period size: 21 Copynumber: 3.4 Consensus size: 22
49960186 TTTTTGTTGT
*
49960196 TGTT-TTTGTTGTTATTTTTGC
1 TGTTATTTGTTGTTGTTTTTGC
*
49960217 TGTTATTTTTGTTGTTGTTTTTGT
1 TGTTA--TTTGTTGTTGTTTTTGC
*
49960241 TGCTATTT-TTGTTGTTTTTGC
1 TGTTATTTGTTGTTGTTTTTGC
49960262 TGTTATTT
1 TGTTATTT
49960270 TTATTGCTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 23 0.51
22 3 0.07
24 19 0.42
ACGTcount: A:0.05, C:0.04, G:0.19, T:0.72
Consensus pattern (22 bp):
TGTTATTTGTTGTTGTTTTTGC
Found at i:49960280 original size:24 final size:24
Alignment explanation
Indices: 49960186--49960282 Score: 110
Period size: 24 Copynumber: 4.2 Consensus size: 24
49960176 TTTTGGTGCT
* * *
49960186 TTTTTGTTGTTGTTTTTGTTGTTA
1 TTTTTGCTGTTATTTTTGTTGTTG
49960210 TTTTTGCTGTTATTTTTGTTGTTG
1 TTTTTGCTGTTATTTTTGTTGTTG
* *
49960234 TTTTTGTTGCTA--TTT-TTGTTG
1 TTTTTGCTGTTATTTTTGTTGTTG
* *
49960255 TTTTTGCTGTTATTTTTATTGCTG
1 TTTTTGCTGTTATTTTTGTTGTTG
49960279 TTTT
1 TTTT
49960283 AGTTGTTTAG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
21 16 0.26
22 3 0.05
23 3 0.05
24 40 0.65
ACGTcount: A:0.05, C:0.04, G:0.19, T:0.72
Consensus pattern (24 bp):
TTTTTGCTGTTATTTTTGTTGTTG
Found at i:49961134 original size:22 final size:23
Alignment explanation
Indices: 49961109--49961155 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
49961099 GTGTTTATTT
49961109 TTTTAATTTAT-TAAATAATATA
1 TTTTAATTTATATAAATAATATA
* * *
49961131 TTTTATTTTATATAATTGATATA
1 TTTTAATTTATATAAATAATATA
49961154 TT
1 TT
49961156 CGAATATAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTAATTTATATAAATAATATA
Found at i:49962181 original size:2 final size:2
Alignment explanation
Indices: 49962174--49962203 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
49962164 GCAAAGTGTC
49962174 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
49962204 TGTACATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:49968615 original size:32 final size:32
Alignment explanation
Indices: 49968579--49968644 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
49968569 AAGGTAGGCT
*
49968579 AAAAGTATGAAAATCGAGAATATGATACAATA
1 AAAAGTATGAAAATAGAGAATATGATACAATA
49968611 AAAAGTATGAAAATAGAGAATATGATACAATA
1 AAAAGTATGAAAATAGAGAATATGATACAATA
49968643 AA
1 AA
49968645 CTACCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.59, C:0.05, G:0.15, T:0.21
Consensus pattern (32 bp):
AAAAGTATGAAAATAGAGAATATGATACAATA
Found at i:49968634 original size:15 final size:15
Alignment explanation
Indices: 49968584--49968635 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
49968574 AGGCTAAAAG
*
49968584 TATGAAAATCGAGAA
1 TATGAAAATAGAGAA
*
49968599 TATGATACAATA-AAAA
1 TATGA-A-AATAGAGAA
49968615 GTATGAAAATAGAGAA
1 -TATGAAAATAGAGAA
49968631 TATGA
1 TATGA
49968636 TACAATAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 14 0.47
16 8 0.27
17 8 0.27
ACGTcount: A:0.56, C:0.04, G:0.17, T:0.23
Consensus pattern (15 bp):
TATGAAAATAGAGAA
Found at i:49972381 original size:21 final size:21
Alignment explanation
Indices: 49972347--49972391 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
49972337 AATTTTATTA
** *
49972347 TTACAGTATTTAATCTTACCG
1 TTACAGTAAATAATCTTACAG
*
49972368 TTACAGTAAATAATTTTACAG
1 TTACAGTAAATAATCTTACAG
49972389 TTA
1 TTA
49972392 TCATTATTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.42
Consensus pattern (21 bp):
TTACAGTAAATAATCTTACAG
Found at i:49972782 original size:54 final size:54
Alignment explanation
Indices: 49972711--49972816 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
49972701 TCATATCAAG
49972711 CATTTCTCTATTCTATTTTGCACATTGTTTGAAACATAAAT-CTATTTTATTTAC
1 CATTTCTCTATTCTATTTTGCACATTGTTTGAAACAT-AATCCTATTTTATTTAC
* * * ** * *
49972765 CATTTTTCTATTTTATTTTTCATTTTGTTTGAATCATGATCCTATTTTATTT
1 CATTTCTCTATTCTATTTTGCACATTGTTTGAAACATAATCCTATTTTATTT
49972817 TTAATATTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.05
54 42 0.95
ACGTcount: A:0.24, C:0.14, G:0.06, T:0.57
Consensus pattern (54 bp):
CATTTCTCTATTCTATTTTGCACATTGTTTGAAACATAATCCTATTTTATTTAC
Found at i:49976319 original size:20 final size:20
Alignment explanation
Indices: 49976294--49976332 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
49976284 GAAACATAAA
49976294 TCTATTTTATTTATCATTTC
1 TCTATTTTATTTATCATTTC
*
49976314 TCTATTTTATTTTTCATTT
1 TCTATTTTATTTATCATTT
49976333 TGTTTGAATC
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:0.18, C:0.13, G:0.00, T:0.69
Consensus pattern (20 bp):
TCTATTTTATTTATCATTTC
Found at i:49991820 original size:33 final size:32
Alignment explanation
Indices: 49991782--49991844 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
49991772 ATTATAAAAC
*
49991782 TATATTATT-TAATATATTATTCATATTAAATGT
1 TATATTATTGTAATATA-TATACATA-TAAATGT
*
49991815 TATATTATTGTAATTTATATACATATAAAT
1 TATATTATTGTAATATATATACATATAAAT
49991845 AAAATATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 5 0.19
33 16 0.59
34 6 0.22
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (32 bp):
TATATTATTGTAATATATATACATATAAATGT
Found at i:49991865 original size:24 final size:24
Alignment explanation
Indices: 49991838--49991883 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
49991828 TTTATATACA
*
49991838 TATAAATAAAATATTTGTTAATAT
1 TATAAATAAAATATTTATTAATAT
**
49991862 TATATTTAAAATATTTATTAAT
1 TATAAATAAAATATTTATTAAT
49991884 TAAAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TATAAATAAAATATTTATTAATAT
Found at i:49991918 original size:25 final size:24
Alignment explanation
Indices: 49991893--49991942 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
49991883 TTAAAATATA
49991893 ATAATTAACTATTTTAATATTAATAAT
1 ATAA-TAACT-TTTTAATA-TAATAAT
49991920 ATAATAACTTTTTAATATAATAA
1 ATAATAACTTTTTAATATAATAA
49991943 ATTTATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.26
25 8 0.35
26 5 0.22
27 4 0.17
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAATAACTTTTTAATATAATAAT
Found at i:49995260 original size:14 final size:14
Alignment explanation
Indices: 49995216--49995366 Score: 54
Period size: 14 Copynumber: 11.4 Consensus size: 14
49995206 AAATAAACCC
*
49995216 TAAACCTTAAATTA
1 TAAACCCTAAATTA
49995230 T-AACCCTAACA--A
1 TAAACCCTAA-ATTA
49995242 TAAACCCTAAATTA
1 TAAACCCTAAATTA
49995256 TAAA--C---A--A
1 TAAACCCTAAATTA
49995263 TAAACCCTAAATTA
1 TAAACCCTAAATTA
** **
49995277 TAAACAATAAACCA
1 TAAACCCTAAATTA
* ***
49995291 TAAACCATAAACCC
1 TAAACCCTAAATTA
* *
49995305 TAAAACCTAAACTA
1 TAAACCCTAAATTA
*
49995319 TTAA-CCTCAAATTA
1 TAAACCCT-AAATTA
* * *
49995333 TAAACTCTAAACTC
1 TAAACCCTAAATTA
*
49995347 TAAACCCCAAATTA
1 TAAACCCTAAATTA
*
49995361 CAAACC
1 TAAACC
49995367 ACAAACTCTA
Statistics
Matches: 102, Mismatches: 22, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
7 5 0.05
9 2 0.02
12 5 0.05
13 18 0.18
14 70 0.69
15 2 0.02
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCCTAAATTA
Found at i:49995265 original size:7 final size:7
Alignment explanation
Indices: 49995241--49995308 Score: 55
Period size: 7 Copynumber: 9.7 Consensus size: 7
49995231 AACCCTAACA
49995241 ATAAACC
1 ATAAACC
* **
49995248 CTAAATT
1 ATAAACC
*
49995255 ATAAACA
1 ATAAACC
49995262 ATAAACC
1 ATAAACC
* **
49995269 CTAAATT
1 ATAAACC
*
49995276 ATAAACA
1 ATAAACC
49995283 ATAAACC
1 ATAAACC
49995290 ATAAACC
1 ATAAACC
49995297 ATAAACC
1 ATAAACC
*
49995304 CTAAA
1 ATAAA
49995309 ACCTAAACTA
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.21
Consensus pattern (7 bp):
ATAAACC
Found at i:49995302 original size:21 final size:21
Alignment explanation
Indices: 49995237--49995294 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
49995227 TTATAACCCT
49995237 AACAATAAACCCTAAATTATA
1 AACAATAAACCCTAAATTATA
49995258 AACAATAAACCCTAAATTATA
1 AACAATAAACCCTAAATTATA
*
49995279 AACAATAAACCATAAA
1 AACAATAAACCCTAAA
49995295 CCATAAACCC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (21 bp):
AACAATAAACCCTAAATTATA
Found at i:49995336 original size:28 final size:28
Alignment explanation
Indices: 49995307--49995385 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 28
49995297 ATAAACCCTA
* *
49995307 AAAC-CTAAACTATTAACCTCAAATTAT
1 AAACTCTAAACTATAAACCCCAAATTAT
* *
49995334 AAACTCTAAACTCTAAACCCCAAATTAC
1 AAACTCTAAACTATAAACCCCAAATTAT
* *
49995362 AAAC-CACAAACTCTAAACCCCAAA
1 AAACTC-TAAACTATAAACCCCAAA
49995386 CCCCAAACCA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.11
28 40 0.89
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.20
Consensus pattern (28 bp):
AAACTCTAAACTATAAACCCCAAATTAT
Found at i:49995379 original size:14 final size:14
Alignment explanation
Indices: 49995341--49995400 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
49995331 TATAAACTCT
*
49995341 AAACTCTAAACCCC
1 AAACTCTAAACCAC
*
49995355 AAATTAC-AAACCAC
1 AAACT-CTAAACCAC
*
49995369 AAACTCTAAACCCC
1 AAACTCTAAACCAC
* * *
49995383 AAACCCCAAACCAT
1 AAACTCTAAACCAC
49995397 AAAC
1 AAAC
49995401 ACCAAACAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
13 1 0.03
14 34 0.94
15 1 0.03
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (14 bp):
AAACTCTAAACCAC
Found at i:49995392 original size:28 final size:28
Alignment explanation
Indices: 49995341--49995400 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
49995331 TATAAACTCT
**
49995341 AAACTCTAAACCCCAAATTACAAACCAC
1 AAACTCTAAACCCCAAACCACAAACCAC
* *
49995369 AAACTCTAAACCCCAAACCCCAAACCAT
1 AAACTCTAAACCCCAAACCACAAACCAC
49995397 AAAC
1 AAAC
49995401 ACCAAACAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (28 bp):
AAACTCTAAACCCCAAACCACAAACCAC
Found at i:49995407 original size:35 final size:34
Alignment explanation
Indices: 49995362--49995507 Score: 123
Period size: 35 Copynumber: 4.2 Consensus size: 34
49995352 CCCAAATTAC
* *
49995362 AAACCACAAACTCTAAACCCCAAACCCCAAACCAT
1 AAACC-CAAACTATAAACCCCAAACCCTAAACCAT
* * **
49995397 AAACACCAAACAATAAACCCCAAACCCTAGATTAT
1 AAAC-CCAAACTATAAACCCCAAACCCTAAACCAT
* **
49995432 AAACCCTAAATTATAAACCCCAAACCCTAAACCCC
1 AAACCC-AAACTATAAACCCCAAACCCTAAACCAT
** * *
49995467 AAACATTAAAC-ATTAAACCCTAAACCCTAAACCCT
1 AAAC-CCAAACTA-TAAACCCCAAACCCTAAACCAT
49995502 AAACCC
1 AAACCC
49995508 TTGTTTGTCT
Statistics
Matches: 87, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
34 3 0.03
35 83 0.95
36 1 0.01
ACGTcount: A:0.49, C:0.37, G:0.01, T:0.14
Consensus pattern (34 bp):
AAACCCAAACTATAAACCCCAAACCCTAAACCAT
Found at i:49995441 original size:7 final size:7
Alignment explanation
Indices: 49995369--49995508 Score: 84
Period size: 7 Copynumber: 20.0 Consensus size: 7
49995359 TACAAACCAC
*
49995369 AAACTCT
1 AAACCCT
*
49995376 AAACCCC
1 AAACCCT
*
49995383 AAACCCC
1 AAACCCT
*
49995390 AAACCAT
1 AAACCCT
49995397 AAACACC-
1 AAAC-CCT
**
49995404 AAACAAT
1 AAACCCT
*
49995411 AAACCCC
1 AAACCCT
49995418 AAACCCT
1 AAACCCT
* ***
49995425 AGATTAT
1 AAACCCT
49995432 AAACCCT
1 AAACCCT
***
49995439 AAATTAT
1 AAACCCT
*
49995446 AAACCCC
1 AAACCCT
49995453 AAACCCT
1 AAACCCT
*
49995460 AAACCCC
1 AAACCCT
**
49995467 AAACATT
1 AAACCCT
**
49995474 AAACATT
1 AAACCCT
49995481 AAACCCT
1 AAACCCT
49995488 AAACCCT
1 AAACCCT
49995495 AAACCCT
1 AAACCCT
49995502 AAACCCT
1 AAACCCT
49995509 TGTTTGTCTT
Statistics
Matches: 98, Mismatches: 33, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
7 97 0.99
8 1 0.01
ACGTcount: A:0.48, C:0.36, G:0.01, T:0.15
Consensus pattern (7 bp):
AAACCCT
Found at i:49997442 original size:20 final size:22
Alignment explanation
Indices: 49997417--49997464 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
49997407 AATGTTTATT
*
49997417 TAATATTTTA-CA-TAACATAA
1 TAATATTTTATAAGTAACATAA
49997437 TAATATTTTATAAGTAACATAA
1 TAATATTTTATAAGTAACATAA
49997459 TAATAT
1 TAATAT
49997465 ATATAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 10 0.40
21 1 0.04
22 14 0.56
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
TAATATTTTATAAGTAACATAA
Found at i:49998873 original size:55 final size:55
Alignment explanation
Indices: 49998814--49998917 Score: 163
Period size: 55 Copynumber: 1.9 Consensus size: 55
49998804 TTGTTTTAAT
* *
49998814 TGTTGAAATACTGTTTCTTTTGAATCGATCCTTTATATGTTTAAATCGATTGTCA
1 TGTTGAAATACTGGTTCTTTTGAATCAATCCTTTATATGTTTAAATCGATTGTCA
** *
49998869 TGTTGAAATACTGGTTCTTTTGAATCAATTGTTTATATTTTTAAATCGA
1 TGTTGAAATACTGGTTCTTTTGAATCAATCCTTTATATGTTTAAATCGA
49998918 GTGTTACATA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (55 bp):
TGTTGAAATACTGGTTCTTTTGAATCAATCCTTTATATGTTTAAATCGATTGTCA
Found at i:50001119 original size:11 final size:11
Alignment explanation
Indices: 50001100--50001165 Score: 71
Period size: 11 Copynumber: 6.0 Consensus size: 11
50001090 TTTTGATTTT
*
50001100 TTAAGTTTAAA
1 TTAAATTTAAA
50001111 TTAAATTTAAA
1 TTAAATTTAAA
**
50001122 TTTTATTTAAA
1 TTAAATTTAAA
* *
50001133 TTTATTTTAAA
1 TTAAATTTAAA
50001144 TTTAAATTT-AA
1 -TTAAATTTAAA
50001155 TTAAATTTAAA
1 TTAAATTTAAA
50001166 AATGATATTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
10 8 0.17
11 32 0.70
12 6 0.13
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:50001120 original size:6 final size:6
Alignment explanation
Indices: 50001099--50001165 Score: 72
Period size: 6 Copynumber: 12.0 Consensus size: 6
50001089 ATTTTGATTT
* * *
50001099 TTTAAG TTTAAA -TTAAA TTTAAA TTT-TA TTTAAA TTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
50001144 TTTAAA TTT-AA -TTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA
50001166 AATGATATTA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
4 2 0.04
5 17 0.33
6 32 0.63
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:50001131 original size:17 final size:18
Alignment explanation
Indices: 50001098--50001165 Score: 65
Period size: 17 Copynumber: 4.0 Consensus size: 18
50001088 GATTTTGATT
50001098 TTTTAAGTTTAAA-TTAAA
1 TTTTAA-TTTAAATTTAAA
* *
50001116 TTTAAATTT-TATTTAAA
1 TTTTAATTTAAATTTAAA
*
50001133 -TTTATTTTAAATTTAAA
1 TTTTAATTTAAATTTAAA
50001150 -TTTAA-TTAAATTTAAA
1 TTTTAATTTAAATTTAAA
50001166 AATGATATTA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
16 18 0.43
17 19 0.45
18 5 0.12
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (18 bp):
TTTTAATTTAAATTTAAA
Found at i:50001131 original size:22 final size:23
Alignment explanation
Indices: 50001099--50001165 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 23
50001089 ATTTTGATTT
*
50001099 TTTAAGTTTAAATTAAATTTAAA
1 TTTAAATTTAAATTAAATTTAAA
* * *
50001122 TTT-TATTTAAATTTATTTTAAA
1 TTTAAATTTAAATTAAATTTAAA
50001144 TTTAAATTT-AATTAAATTTAAA
1 TTTAAATTTAAATTAAATTTAAA
50001166 AATGATATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 29 0.81
23 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
TTTAAATTTAAATTAAATTTAAA
Found at i:50002922 original size:29 final size:29
Alignment explanation
Indices: 50002860--50002926 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
50002850 CAAATAGCCC
* *
50002860 AAAAATTGCATTTTGACCCCAAAATTTCA
1 AAAAATTACATTTTGACCCCAAAACTTCA
* *
50002889 AAAAATTACATTTTGACCCCGAAACTTCT
1 AAAAATTACATTTTGACCCCAAAACTTCA
*
50002918 GAAAATTAC
1 AAAAATTAC
50002927 CGTTTTATCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (29 bp):
AAAAATTACATTTTGACCCCAAAACTTCA
Found at i:50002951 original size:29 final size:29
Alignment explanation
Indices: 50002919--50003069 Score: 100
Period size: 29 Copynumber: 5.1 Consensus size: 29
50002909 GAAACTTCTG
*
50002919 AAAATTACCGTTTTATCCTCGAACTTTCC
1 AAAATTACCGTTTTAACCTCGAACTTTCC
* *
50002948 AAAATT-CCATTTTTAACC-CCAA-TTTCACC
1 AAAATTACC-GTTTTAACCTCGAACTTT--CC
* * *
50002977 AAAAAATACCATTTT-ACCCCTGAACTTTCC
1 -AAAATTACCGTTTTAACCTC-GAACTTTCC
*
50003007 AAAATT-CCATTTTTAACCTCG-A-TTTCACC
1 AAAATTACC-GTTTTAACCTCGAACTTT--CC
*
50003036 AAAAATTACCGTTTTACCCTCGAACTTTCC
1 -AAAATTACCGTTTTAACCTCGAACTTTCC
50003066 AAAA
1 AAAA
50003070 CTCTATTTTT
Statistics
Matches: 95, Mismatches: 11, Indels: 32
0.69 0.08 0.23
Matches are distributed among these distances:
27 6 0.06
28 8 0.08
29 34 0.36
30 34 0.36
31 7 0.07
32 6 0.06
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (29 bp):
AAAATTACCGTTTTAACCTCGAACTTTCC
Found at i:50003002 original size:59 final size:60
Alignment explanation
Indices: 50002919--50003350 Score: 549
Period size: 59 Copynumber: 7.3 Consensus size: 60
50002909 GAAACTTCTG
* * * *
50002919 AAAATTACCGTTTTA-TCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCA
1 AAAATTACCATTTTACCCCTCGAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
50002978 AAAAATACCATTTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCA
1 AAAATTACCATTTTACCCCTCGAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * * * *
50003037 AAAATTACCGTTTTA-CCCTCGAACTTTCCAAAACTCTATTTTTAACCCTGATTTCACCA
1 AAAATTACCATTTTACCCCTCGAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
50003096 AAAATTACCATTTTACCCCT-AAACTTTCAAAAATACCATTTTAAACCCCGATTTCACCA
1 AAAATTACCATTTTACCCCTCGAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * * *
50003155 AGAATTACCATCTTACCCCTCGAACTTTCTAAAATTCCATTTTTAACCCCGGTTTCACCA
1 AAAATTACCATTTTACCCCTCGAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
50003215 AAAATTACCATTTAAACCCC-CGAACTCTT-AAAAATTCCA-TTTAAACCCTGATTTCACCA
1 AAAATTACCATTT-TACCCCTCGAACT-TTCAAAAATTCCATTTTTAACCCCGATTTCACCA
* * *
50003274 AAAATTACCATTTTA-CCCTCAAACTCTCAAAAATTCCATTTTTAACCTCGATTTCACC-
1 AAAATTACCATTTTACCCCTCGAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
*
50003332 AAAATTACCATTTTGCCCC
1 AAAATTACCATTTTACCCC
50003351 CGAGTATCCA
Statistics
Matches: 323, Mismatches: 40, Indels: 20
0.84 0.10 0.05
Matches are distributed among these distances:
57 4 0.01
58 34 0.11
59 211 0.65
60 67 0.21
61 7 0.02
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (60 bp):
AAAATTACCATTTTACCCCTCGAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:50003080 original size:29 final size:29
Alignment explanation
Indices: 50002929--50003085 Score: 96
Period size: 30 Copynumber: 5.3 Consensus size: 29
50002919 AAAATTACCG
* *
50002929 TTTTATCCTCGAACTTTCCAAAATTCCAT
1 TTTTACCCTCGAACTTTCCAAAAATCCAT
50002958 TTTTAACCC-C-AA-TTTCACCAAAAAATACCA-
1 TTTT-ACCCTCGAACTTT--CC-AAAAAT-CCAT
*
50002988 TTTTACCC-CTGAACTTTCCAAAATTCCAT
1 TTTTACCCTC-GAACTTTCCAAAAATCCAT
* *
50003017 TTTTAACCTCG-A-TTTCACCAAAAATTACC-G
1 TTTTACCCTCGAACTTT--CCAAAAA-T-CCAT
* *
50003047 TTTTACCCTCGAACTTTCCAAAACTCTAT
1 TTTTACCCTCGAACTTTCCAAAAATCCAT
50003076 TTTTAACCCT
1 TTTT-ACCCT
50003086 GATTTCACCA
Statistics
Matches: 100, Mismatches: 10, Indels: 35
0.69 0.07 0.24
Matches are distributed among these distances:
27 6 0.06
28 7 0.07
29 36 0.36
30 37 0.37
31 8 0.08
32 6 0.06
ACGTcount: A:0.31, C:0.29, G:0.03, T:0.36
Consensus pattern (29 bp):
TTTTACCCTCGAACTTTCCAAAAATCCAT
Found at i:50003221 original size:178 final size:176
Alignment explanation
Indices: 50002919--50003342 Score: 584
Period size: 178 Copynumber: 2.4 Consensus size: 176
50002909 GAAACTTCTG
* * * * * *
50002919 AAAATTACCGTTTTATCCTCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAAAAAAT
1 AAAATTACCATTTTACCCTCAAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACC-AAAATT
* * *
50002984 ACCATTTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCTCGATTTCACCAAAAATTACCGTT
65 ACCATCTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATT
* * * * *
50003049 T-TACCCTCGAACT-TTCCAAAACTCTATTTTTAACCCTGATTTCACCA
130 TAAACCCCCGAACTCTT-AAAAACTCCA-TTTAAACCCTGATTTCACCA
* *
50003096 AAAATTACCATTTTACCC-CTAAACTTTCAAAAATACCATTTTAAACCCCGATTTCACCAAGAAT
1 AAAATTACCATTTTACCCTC-AAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCAA-AAT
* *
50003160 TACCATCTTACCCCTCGAACTTTCTAAAATTCCATTTTTAACCCCGGTTTCACCAAAAATTACCA
64 TACCATCTTACCCCT-GAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCA
*
50003225 TTTAAACCCCCGAACTCTTAAAAATTCCATTTAAACCCTGATTTCACCA
128 TTTAAACCCCCGAACTCTTAAAAACTCCATTTAAACCCTGATTTCACCA
* *
50003274 AAAATTACCATTTTACCCTCAAACTCTCAAAAATTCCATTTTTAACCTCGATTTCACCAAAATTA
1 AAAATTACCATTTTACCCTCAAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAATTA
50003339 CCAT
66 CCAT
50003343 TTTGCCCCCG
Statistics
Matches: 218, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
176 3 0.01
177 74 0.34
178 121 0.56
179 18 0.08
180 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (176 bp):
AAAATTACCATTTTACCCTCAAACTTTCAAAAATTCCATTTTTAACCCCGATTTCACCAAAATTA
CCATCTTACCCCTGAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTT
AAACCCCCGAACTCTTAAAAACTCCATTTAAACCCTGATTTCACCA
Found at i:50003233 original size:30 final size:29
Alignment explanation
Indices: 50002948--50003344 Score: 114
Period size: 30 Copynumber: 13.4 Consensus size: 29
50002938 CGAACTTTCC
* *
50002948 AAAATTCCATTTTTAACCCCAATTTCACCAA
1 AAAATTCCA-TTTAAACCCCGATTTCACC-A
* *
50002979 AAAATACCATTT-TACCCCTGAACTTT--CC-
1 AAAATTCCATTTAAACCCC-G-A-TTTCACCA
* *
50003007 AAAATTCCATTTTTAACCTCGATTTCACCA
1 AAAATTCCA-TTTAAACCCCGATTTCACCA
* *
50003037 AAAATTACCGTTT-TACCCTCGAACTTT--CC-
1 AAAATT-CCATTTAAACCC-CG-A-TTTCACCA
* * * *
50003066 AAAACTCTATTTTTAACCCTGATTTCACCA
1 AAAATTCCA-TTTAAACCCCGATTTCACCA
* *
50003096 AAAATTACCATTT-TACCCCTAAACTTT---CA
1 AAAATT-CCATTTAAACCCC--GA-TTTCACCA
*
50003125 AAAATACCATTTTAAACCCCGATTTCACCA
1 AAAATTCCA-TTTAAACCCCGATTTCACCA
* * *
50003155 AGAATTACCATCTT-ACCCCTCGAACTTT---CT
1 AAAATT-CCAT-TTAAACCC-CG-A-TTTCACCA
* *
50003185 AAAATTCCATTTTTAACCCCGGTTTCACCA
1 AAAATTCCA-TTTAAACCCCGATTTCACCA
** **
50003215 AAAATTACCATTTAAACCCCCGAACTC-TTA
1 AAAATT-CCATTTAAA-CCCCGATTTCACCA
*
50003245 AAAATTCCATTTAAACCCTGATTTCACCA
1 AAAATTCCATTTAAACCCCGATTTCACCA
* * ** *
50003274 AAAATTACCATTT-TACCCTCAAACTC-TCA
1 AAAATT-CCATTTAAACCC-CGATTTCACCA
* *
50003303 AAAATTCCATTTTTAACCTCGATTTCACC-
1 AAAATTCCA-TTTAAACCCCGATTTCACCA
50003332 AAAATTACCATTT
1 AAAATT-CCATTT
50003345 TGCCCCCGAG
Statistics
Matches: 268, Mismatches: 53, Indels: 92
0.65 0.13 0.22
Matches are distributed among these distances:
27 12 0.04
28 25 0.09
29 90 0.34
30 96 0.36
31 32 0.12
32 10 0.04
33 3 0.01
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATTCCATTTAAACCCCGATTTCACCA
Found at i:50010475 original size:14 final size:14
Alignment explanation
Indices: 50010452--50010491 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
50010442 TTTACTTAAC
*
50010452 ATAATAATAT-TTT
1 ATAATAATATATAT
50010465 ATAAGTAATATATAT
1 ATAA-TAATATATAT
50010480 ATAATAATATAT
1 ATAATAATATAT
50010492 GTAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 4 0.17
14 14 0.58
15 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATAATAATATATAT
Found at i:50013161 original size:23 final size:23
Alignment explanation
Indices: 50012989--50013148 Score: 137
Period size: 23 Copynumber: 6.9 Consensus size: 23
50012979 CGAAGTACTT
50012989 AACAGTAAGCACAC-AAGTGCTGGGGA
1 AACAGTAAGCACACAAAGTGC----GA
*
50013015 AACAGTAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * * **
50013037 ATCAGTAGGCGCACATAGCAC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * *
50013059 AATCAATAGGCACACGAAGTGTGA
1 AA-CAGTAAGCACACAAAGTGCGA
*
50013083 AACAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
50013106 AACAGTAAGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
50013129 AACAGTAAGCACACATAGTG
1 AACAGTAAGCACACAAAGTG
50013149 TTGAACGGTA
Statistics
Matches: 111, Mismatches: 20, Indels: 9
0.79 0.14 0.06
Matches are distributed among these distances:
22 18 0.16
23 71 0.64
24 3 0.03
26 14 0.13
27 5 0.05
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:50023703 original size:3 final size:3
Alignment explanation
Indices: 50023695--50023720 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
50023685 ATATATATAT
50023695 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
50023721 TAAAATGGAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:50024098 original size:23 final size:23
Alignment explanation
Indices: 50024050--50024098 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
50024040 CAACAATTTC
** *
50024050 ATTAAATTATTTATAAAAGTATA
1 ATTAAATTATTTATAAAAAAAAA
50024073 ATTAAATTATTTA-AAATAAAAAA
1 ATTAAATTATTTATAAA-AAAAAA
50024096 ATT
1 ATT
50024099 CAAAAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (23 bp):
ATTAAATTATTTATAAAAAAAAA
Found at i:50025032 original size:15 final size:15
Alignment explanation
Indices: 50025012--50025044 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
50025002 AACAATCCTA
50025012 CATGTTGACTTTGCC
1 CATGTTGACTTTGCC
50025027 CATGTTGACTTTGCC
1 CATGTTGACTTTGCC
50025042 CAT
1 CAT
50025045 ATTTATCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.27, G:0.18, T:0.39
Consensus pattern (15 bp):
CATGTTGACTTTGCC
Found at i:50029422 original size:24 final size:24
Alignment explanation
Indices: 50029388--50029438 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
50029378 AATTTGACTC
* *
50029388 AAACAATTAAACAAAGTTTAATTG
1 AAACAAATAAACAAAGTTTAACTG
*
50029412 AAACAAATAAACAGAGTTTAACTG
1 AAACAAATAAACAAAGTTTAACTG
50029436 AAA
1 AAA
50029439 GATTATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.57, C:0.10, G:0.10, T:0.24
Consensus pattern (24 bp):
AAACAAATAAACAAAGTTTAACTG
Found at i:50036528 original size:31 final size:31
Alignment explanation
Indices: 50036451--50036528 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
50036441 TTTAACGAAG
* **
50036451 AGTGACCAAAATAGAAACAATCTAAAATGTT
1 AGTGACCAAAATAAAAATGATCTAAAATGTT
*
50036482 AGTTACCAAAATAAAAATGATCTAAAATGTT
1 AGTGACCAAAATAAAAATGATCTAAAATGTT
* *
50036513 AGTGACTAAATTAAAA
1 AGTGACCAAAATAAAA
50036529 CTTTTTATAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.26
Consensus pattern (31 bp):
AGTGACCAAAATAAAAATGATCTAAAATGTT
Found at i:50039640 original size:61 final size:60
Alignment explanation
Indices: 50039522--50039641 Score: 143
Period size: 61 Copynumber: 2.0 Consensus size: 60
50039512 TTTGAGGATA
* *** *
50039522 AAATTGATAGAATTTATAAATATGGAGGGTCTAATTTATTGAATTATTTAGAATTAGAATT
1 AAATTGATAGAATATATAAATATGGAGGAAATAATGTATT-AATTATTTAGAATTAGAATT
* *
50039583 AAATTGATAGAATATATAAGTATTGAGGAAATAATGTATT-ATTATTATAGAAGTTAGAA
1 AAATTGATAGAATATATAAATATGGAGGAAATAATGTATTAATTATT-TAGAA-TTAGAA
50039642 AAGGCAACAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 6 0.12
60 5 0.10
61 39 0.78
ACGTcount: A:0.44, C:0.01, G:0.17, T:0.38
Consensus pattern (60 bp):
AAATTGATAGAATATATAAATATGGAGGAAATAATGTATTAATTATTTAGAATTAGAATT
Found at i:50040385 original size:21 final size:21
Alignment explanation
Indices: 50040356--50040407 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
50040346 TCTTGAATCT
*
50040356 TAAAATTTAGAGTCT-AGAGTA
1 TAAAGTTTAGAGTCTCA-AGTA
* *
50040377 TAAAGTTTAAAGTCTCAAGTT
1 TAAAGTTTAGAGTCTCAAGTA
50040398 TAAAGTTTAG
1 TAAAGTTTAG
50040408 GGTTTTAGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.37
Consensus pattern (21 bp):
TAAAGTTTAGAGTCTCAAGTA
Found at i:50041355 original size:9 final size:9
Alignment explanation
Indices: 50041351--50041391 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
50041341 TCATCACCAT
50041351 CATCATCAC
1 CATCATCAC
*
50041360 CATCATCAT
1 CATCATCAC
*
50041369 CATCATCAT
1 CATCATCAC
50041378 CATCATCAC
1 CATCATCAC
*
50041387 TATCA
1 CATCA
50041392 AATTTGGCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.34, C:0.37, G:0.00, T:0.29
Consensus pattern (9 bp):
CATCATCAC
Found at i:50041356 original size:3 final size:3
Alignment explanation
Indices: 50041341--50041385 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
50041331 CCAATTCAAT
* *
50041341 TCA TCA CCA TCA TCA TCA CCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
50041386 CTATCAAATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.38, G:0.00, T:0.29
Consensus pattern (3 bp):
TCA
Found at i:50043501 original size:18 final size:17
Alignment explanation
Indices: 50043478--50043511 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
50043468 AAGATACTCC
*
50043478 TATTTTTTTTATAAAAAA
1 TATTTTTATTA-AAAAAA
50043496 TATTTTTATTAAAAAA
1 TATTTTTATTAAAAAA
50043512 TAGTATAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTTTTATTAAAAAAA
Found at i:50043503 original size:15 final size:16
Alignment explanation
Indices: 50043483--50043513 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
50043473 ACTCCTATTT
50043483 TTTTTA-TAAAAAATA
1 TTTTTATTAAAAAATA
50043498 TTTTTATTAAAAAATA
1 TTTTTATTAAAAAATA
50043514 GTATAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTTATTAAAAAATA
Found at i:50055330 original size:59 final size:59
Alignment explanation
Indices: 50055238--50055364 Score: 254
Period size: 59 Copynumber: 2.2 Consensus size: 59
50055228 TTGGTATGAA
50055238 ACGATGGAGCATTACAGCTTTGAGGGGGTAAAAAGACAGAAGAGAGTGGAGAAGATAAC
1 ACGATGGAGCATTACAGCTTTGAGGGGGTAAAAAGACAGAAGAGAGTGGAGAAGATAAC
50055297 ACGATGGAGCATTACAGCTTTGAGGGGGTAAAAAGACAGAAGAGAGTGGAGAAGATAAC
1 ACGATGGAGCATTACAGCTTTGAGGGGGTAAAAAGACAGAAGAGAGTGGAGAAGATAAC
50055356 ACGATGGAG
1 ACGATGGAG
50055365 GGGGGTAAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 68 1.00
ACGTcount: A:0.40, C:0.10, G:0.35, T:0.15
Consensus pattern (59 bp):
ACGATGGAGCATTACAGCTTTGAGGGGGTAAAAAGACAGAAGAGAGTGGAGAAGATAAC
Found at i:50059339 original size:59 final size:58
Alignment explanation
Indices: 50059233--50059370 Score: 213
Period size: 59 Copynumber: 2.4 Consensus size: 58
50059223 TATGGATACC
*
50059233 CGGGGGCAAAATGGTAATTTTGGTATAATCGAGGTTAAAAATAGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTGGTATAATCGAGGTTAAAAATAGAATTTTAAAAGATT
* * * *
50059291 CGGGGGTAAAATGGCAATTTTCGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTT-GGTATAATCGAGGTTAAAAATAGAATTTTAAAAGATT
*
50059350 TGGGGGTAAAATGGTAATTTT
1 CGGGGGTAAAATGGTAATTTT
50059371 TGAAAGTTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 19 0.26
59 53 0.74
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.32
Consensus pattern (58 bp):
CGGGGGTAAAATGGTAATTTTGGTATAATCGAGGTTAAAAATAGAATTTTAAAAGATT
Found at i:50059368 original size:29 final size:29
Alignment explanation
Indices: 50059277--50059428 Score: 89
Period size: 30 Copynumber: 5.2 Consensus size: 29
50059267 TTAAAAATAG
* *
50059277 AATTTTAAAAGATTCGGGGGTAAAATGGC
1 AATTTTAAAAGATTTGGGGGTAAAATGGT
**** * * *
50059306 AATTTTCGGTGTAATCGGGGTTAAAAATGG-
1 AATTTTAAAAG-ATTTGGGGGT-AAAATGGT
50059336 AATTTTAAAAGATTTGGGGGTAAAATGGT
1 AATTTTAAAAGATTTGGGGGTAAAATGGT
* * *
50059365 AATTTTTGAAAG-TTTTGGGGTCAAAA-GAT
1 AA-TTTTAAAAGATTTGGGGGT-AAAATGGT
* *
50059394 AATTTTGGAAAAG-TTTTGGGGTCAAAT-GT
1 AATTTT--AAAAGATTTGGGGGTAAAATGGT
50059423 AATTTT
1 AATTTT
50059429 GGAAAAGTTG
Statistics
Matches: 96, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
28 11 0.11
29 38 0.40
30 40 0.42
31 7 0.07
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (29 bp):
AATTTTAAAAGATTTGGGGGTAAAATGGT
Found at i:50059385 original size:59 final size:60
Alignment explanation
Indices: 50059265--50059569 Score: 170
Period size: 59 Copynumber: 5.1 Consensus size: 60
50059255 GTATAATCGA
* * * ** * *
50059265 GGTTAAAAATAGAATTTT-AAAAGATTCGGGGGTAAAATGGCAATTTTCG-GTGTAATCGG
1 GGTTAAAAATGGAATTTTGAAAAGATTTGGGGGTAAAATGGTAATTTTCGAAAGT-TTTGG
*
50059324 GGTTAAAAATGGAATTTT-AAAAGATTTGGGGGTAAAATGGTAATTTTTGAAAGTTTTGG
1 GGTTAAAAATGGAATTTTGAAAAGATTTGGGGGTAAAATGGTAATTTTCGAAAGTTTTGG
* * * * * *
50059383 GGTCAAAAGAT--AATTTTGGAAAAG-TTTTGGGGTCAAAT-GTAATTTTGGAAAAGTTGTAG
1 GGTTAAAA-ATGGAATTTT-GAAAAGATTTGGGGGTAAAATGGTAATTTTCG-AAAGTTTTGG
* * * * * * **
50059442 GG-TCAAAATGTAATTTTGGAAAAG-TTTTGGGGTCAGAAT-ATAATTTTGGAAAAGTTTCAG
1 GGTTAAAAATGGAATTTT-GAAAAGATTTGGGGGT-AAAATGGTAATTTTCG-AAAGTTTTGG
* * * **
50059502 GGTCAAAATAT--AATTTTGGAAAAG-TTTTGGGGTCAAAAT-ATAATTTGGGAAAAGTTTTGG
1 GGTTAAAA-ATGGAATTTT-GAAAAGATTTGGGGGT-AAAATGGTAATTTTCG-AAAGTTTTGG
50059562 GGTTAAAA
1 GGTTAAAA
50059570 TATAATTTTG
Statistics
Matches: 208, Mismatches: 28, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
57 2 0.01
58 18 0.09
59 99 0.48
60 84 0.40
61 3 0.01
62 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (60 bp):
GGTTAAAAATGGAATTTTGAAAAGATTTGGGGGTAAAATGGTAATTTTCGAAAGTTTTGG
Found at i:50059407 original size:30 final size:30
Alignment explanation
Indices: 50059342--50059672 Score: 391
Period size: 30 Copynumber: 11.0 Consensus size: 30
50059332 ATGGAATTTT
* * *
50059342 AAAAGATTTGGGGGT-AAAATGGTAATTTTTG
1 AAAAG-TTTTGGGGTCAAAA-GATAATTTTGG
50059373 -AAAGTTTTGGGGTCAAAAGATAATTTTGG
1 AAAAGTTTTGGGGTCAAAAGATAATTTTGG
*
50059402 AAAAGTTTTGGGGTCAAATG-TAATTTTGG
1 AAAAGTTTTGGGGTCAAAAGATAATTTTGG
* *
50059431 AAAAGTTGTAGGGTCAAAATG-TAATTTTGG
1 AAAAGTTTTGGGGTCAAAA-GATAATTTTGG
* *
50059461 AAAAGTTTTGGGGTCAGAATATAATTTTGG
1 AAAAGTTTTGGGGTCAAAAGATAATTTTGG
** *
50059491 AAAAGTTTCAGGGTCAAAATATAATTTTGG
1 AAAAGTTTTGGGGTCAAAAGATAATTTTGG
* *
50059521 AAAAGTTTTGGGGTCAAAATATAATTTGGG
1 AAAAGTTTTGGGGTCAAAAGATAATTTTGG
* *
50059551 AAAAGTTTTGGGGTTAAAATATAATTTTGG
1 AAAAGTTTTGGGGTCAAAAGATAATTTTGG
* *
50059581 GAAAGTTTTGGGGTCAAAACATAATTTTGG
1 AAAAGTTTTGGGGTCAAAAGATAATTTTGG
* * * *
50059611 AAAAGTTTCGAGGTCAAAATATAATTTTGA
1 AAAAGTTTTGGGGTCAAAAGATAATTTTGG
* *
50059641 AAAAGTTTCGAGGTCAAAAGATAATTTATGG
1 AAAAGTTTTGGGGTCAAAAGATAATTT-TGG
50059672 A
1 A
50059673 CAATTTAGGG
Statistics
Matches: 266, Mismatches: 29, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
29 42 0.16
30 221 0.83
31 3 0.01
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (30 bp):
AAAAGTTTTGGGGTCAAAAGATAATTTTGG
Found at i:50060087 original size:161 final size:163
Alignment explanation
Indices: 50059765--50060089 Score: 476
Period size: 161 Copynumber: 2.0 Consensus size: 163
50059755 ATTTGAAAAT
* *
50059765 CTTGAAAAATTTTTGGACCAATTTTGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACA
1 CTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACA
* *
50059830 AATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAAAATGACACGTGGCAACCTCTTAT
66 AATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAAAATGACACGTGGCAACCTCTGAC
* **
50059895 GCAGTCAAACAGTCAAAGGACTAGTTTATAAAC
131 ACAGTCAAACAGTCAAAGGACTAAATTATAAAC
* * *
50059928 CTTGAAAAATTATTGGGCCAATTTCGTAATTAAA-ATAAAGTTGATTT-GGGATTAAATTAAAAC
1 CTTGAAAAATTATTGGACCAATTTCGTAATTAAATA-AAAGTCGATTTAAGGATTAAATTAAAAC
* * * * * *
50059991 AAATTGAAAATGAAAAGGACTAAATGCATAAATAATCC-AATACATGACACGTGGCAACCTCTGG
65 AAATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAAAATGACACGTGGCAACCTCTGA
50060055 CACAGTCAAACAGTCAAAGGACTAAATTATAAAC
130 CACAGTCAAACAGTCAAAGGACTAAATTATAAAC
50060089 C
1 C
50060090 AATTAAAATT
Statistics
Matches: 145, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
161 53 0.37
162 51 0.35
163 41 0.28
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.26
Consensus pattern (163 bp):
CTTGAAAAATTATTGGACCAATTTCGTAATTAAATAAAAGTCGATTTAAGGATTAAATTAAAACA
AATTAAAAATAAAAAGGACTAAATGCAGAAATAATCCAAAAAAATGACACGTGGCAACCTCTGAC
ACAGTCAAACAGTCAAAGGACTAAATTATAAAC
Found at i:50061653 original size:6 final size:6
Alignment explanation
Indices: 50061644--50061733 Score: 71
Period size: 6 Copynumber: 14.8 Consensus size: 6
50061634 ACTTTTAATG
* *
50061644 TTAAAT TTAATAT TTATTTAT TTAAAT TTAAAT TCAAA- TTAAAT TTAGATAT
1 TTAAAT TTAA-AT TTA--AAT TTAAAT TTAAAT TTAAAT TTAAAT TTA-A-AT
* *
50061696 TTAAAT TTAAA- ATAAAT CTAAAT TTAAA- -TAAAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
50061734 ATCAATTTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.06
5 8 0.12
6 39 0.57
7 7 0.10
8 10 0.15
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (6 bp):
TTAAAT
Found at i:50061697 original size:31 final size:31
Alignment explanation
Indices: 50061662--50061735 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
50061652 AATATTTATT
*
50061662 TATTTAAATTTAAATTCAAAT-TAAATTTAGA
1 TATTTAAATTTAAAAT-AAATCTAAATTTAGA
50061693 TATTTAAATTTAAAATAAATCTAAATTTA-A
1 TATTTAAATTTAAAATAAATCTAAATTTAGA
50061723 -A--TAAATTTAAAAT
1 TATTTAAATTTAAAAT
50061736 CAATTTTAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
27 12 0.29
29 1 0.02
30 5 0.12
31 23 0.56
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (31 bp):
TATTTAAATTTAAAATAAATCTAAATTTAGA
Found at i:50061711 original size:25 final size:23
Alignment explanation
Indices: 50061666--50061724 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 23
50061656 TTTATTTATT
* *
50061666 TAAATTTAAATTCAAATTAAATT
1 TAAATTTAAATTCAAAATAAATC
*
50061689 TAGATATTTAAATTTAAAATAAATC
1 TA-A-ATTTAAATTCAAAATAAATC
50061714 TAAATTTAAAT
1 TAAATTTAAAT
50061725 AAATTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 10 0.32
24 2 0.06
25 19 0.61
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (23 bp):
TAAATTTAAATTCAAAATAAATC
Found at i:50061735 original size:17 final size:17
Alignment explanation
Indices: 50061663--50061733 Score: 71
Period size: 17 Copynumber: 4.4 Consensus size: 17
50061653 ATATTTATTT
*
50061663 ATTTAAATTTAAATTCAA
1 ATTTAAATTTAAAAT-AA
*
50061681 A-TTAAATTT-AGAT--
1 ATTTAAATTTAAAATAA
50061694 ATTTAAATTTAAAATAA
1 ATTTAAATTTAAAATAA
*
50061711 ATCTAAATTT-AAATAA
1 ATTTAAATTTAAAATAA
50061727 ATTTAAA
1 ATTTAAA
50061734 ATCAATTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
13 1 0.02
14 8 0.18
15 3 0.07
16 14 0.32
17 17 0.39
18 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (17 bp):
ATTTAAATTTAAAATAA
Found at i:50081700 original size:20 final size:21
Alignment explanation
Indices: 50081662--50081701 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50081652 ATATATTAAA
* *
50081662 TTAAAAAATAACTCTTAATTT
1 TTAAAAAATAAATCGTAATTT
50081683 TTAAAAAATAAAT-GTAATT
1 TTAAAAAATAAATCGTAATT
50081702 ATCTTTAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (21 bp):
TTAAAAAATAAATCGTAATTT
Found at i:50096350 original size:21 final size:20
Alignment explanation
Indices: 50096322--50096360 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
50096312 CTATTGTTAC
50096322 CAAATCCAAATATTTCATAA
1 CAAATCCAAATATTTCATAA
50096342 CAAAGTCCAAATATTTCAT
1 CAAA-TCCAAATATTTCAT
50096361 CTGACGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.21, G:0.03, T:0.31
Consensus pattern (20 bp):
CAAATCCAAATATTTCATAA
Found at i:50101977 original size:17 final size:17
Alignment explanation
Indices: 50101955--50101993 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
50101945 AGGTGGAGAA
* *
50101955 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
50101972 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
50101989 CTTGT
1 CTTGT
50101994 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:50105222 original size:2 final size:2
Alignment explanation
Indices: 50105217--50105249 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
50105207 ACACACACAC
*
50105217 AT AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
50105250 ATTGCACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:50113125 original size:14 final size:14
Alignment explanation
Indices: 50113108--50113137 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
50113098 CTTAAACTGT
*
50113108 AAAAGATAAATCTA
1 AAAAGATAAATATA
50113122 AAAAGATAAATATA
1 AAAAGATAAATATA
50113136 AA
1 AA
50113138 CTAAATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAAGATAAATATA
Found at i:50120465 original size:29 final size:28
Alignment explanation
Indices: 50120424--50120495 Score: 81
Period size: 30 Copynumber: 2.5 Consensus size: 28
50120414 ATCCGAGGGC
*
50120424 AAAATGGTAATTTTACAAATTTTAGGGTCA
1 AAAATGG-AATTTTACAAATTTGAGGGT-A
* * *
50120454 AAAATGGAATTTTTAGAAGTTTGGGGGTA
1 AAAATGGAA-TTTTACAAATTTGAGGGTA
50120483 AAAATGGAATTTT
1 AAAATGGAATTTT
50120496 TGGAAGTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 4 0.11
29 12 0.32
30 21 0.57
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (28 bp):
AAAATGGAATTTTACAAATTTGAGGGTA
Found at i:50120468 original size:30 final size:30
Alignment explanation
Indices: 50120424--50120585 Score: 113
Period size: 29 Copynumber: 5.5 Consensus size: 30
50120414 ATCCGAGGGC
*
50120424 AAAATGGTAA-TTTTACAAATTTTAGGGTCA
1 AAAATGG-AATTTTTAGAAATTTTAGGGTCA
* **
50120454 AAAATGGAATTTTTAGAAGTTTGGGGGT-A
1 AAAATGGAATTTTTAGAAATTTTAGGGTCA
* * *
50120483 AAAATGGAATTTTT-GGAAGTTTCGAGGTCA
1 AAAATGGAATTTTTAGAAATTTTAG-GGTCA
* *
50120513 AAAAGTGGAATTTTT-GAAAGTTCAGGGGTCA
1 AAAA-TGGAATTTTTAGAAATTTTA-GGGTCA
* * *
50120544 AATA-GTAATTTTTAG-AAGTTTAGGGGT-A
1 AAAATGGAATTTTTAGAAATTTTA-GGGTCA
*
50120572 AAAATGTAATTTTT
1 AAAATGGAATTTTT
50120586 GGAAGTTTCG
Statistics
Matches: 109, Mismatches: 16, Indels: 15
0.78 0.11 0.11
Matches are distributed among these distances:
28 9 0.08
29 48 0.44
30 27 0.25
31 24 0.22
32 1 0.01
ACGTcount: A:0.36, C:0.04, G:0.24, T:0.36
Consensus pattern (30 bp):
AAAATGGAATTTTTAGAAATTTTAGGGTCA
Found at i:50120496 original size:29 final size:29
Alignment explanation
Indices: 50120444--50120593 Score: 153
Period size: 29 Copynumber: 5.1 Consensus size: 29
50120434 TTTTACAAAT
50120444 TTTA-GGGTCAAAAATGGAATTTTTAGAAG
1 TTTAGGGGT-AAAAATGGAATTTTTAGAAG
* *
50120473 TTTGGGGGTAAAAATGGAATTTTTGGAAG
1 TTTAGGGGTAAAAATGGAATTTTTAGAAG
* *
50120502 TTTCGAGGTCAAAAAGTGGAATTTTT-GAAAG
1 TTTAGGGGT-AAAAA-TGGAATTTTTAG-AAG
* * *
50120533 TTCAGGGGT-CAAATAGTAATTTTTAGAAG
1 TTTAGGGGTAAAAAT-GGAATTTTTAGAAG
* *
50120562 TTTAGGGGTAAAAATGTAATTTTTGGAAG
1 TTTAGGGGTAAAAATGGAATTTTTAGAAG
50120591 TTT
1 TTT
50120594 CGAGACTTCC
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
28 1 0.01
29 67 0.66
30 15 0.15
31 19 0.19
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (29 bp):
TTTAGGGGTAAAAATGGAATTTTTAGAAG
Found at i:50120541 original size:60 final size:59
Alignment explanation
Indices: 50120444--50120592 Score: 162
Period size: 60 Copynumber: 2.5 Consensus size: 59
50120434 TTTTACAAAT
** *
50120444 TTTAG-GGTCAAAAATGGAATTTTT-AGAAGTTTGGGGGTAAAA-ATGGAATTTTTGGAAG
1 TTTAGAGGTCAAAAATGGAATTTTTGA-AAGTTCAGGGGTAAAATA-GGAATTTTTAGAAG
* * *
50120502 TTTCGAGGTCAAAAAGTGGAATTTTTGAAAGTTCAGGGGTCAAATAGTAATTTTTAGAAG
1 TTTAGAGGTCAAAAA-TGGAATTTTTGAAAGTTCAGGGGTAAAATAGGAATTTTTAGAAG
* * *
50120562 TTTAGGGGT-AAAAATGTAATTTTTGGAAGTT
1 TTTAGAGGTCAAAAATGGAATTTTTGAAAGTT
50120593 TCGAGACTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
58 19 0.25
59 14 0.18
60 42 0.55
61 2 0.03
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (59 bp):
TTTAGAGGTCAAAAATGGAATTTTTGAAAGTTCAGGGGTAAAATAGGAATTTTTAGAAG
Found at i:50122386 original size:11 final size:11
Alignment explanation
Indices: 50122370--50122413 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
50122360 AAAATTATTT
50122370 CAAATTTAAAA
1 CAAATTTAAAA
*
50122381 CAAATTTAAATT
1 CAAATTTAAA-A
*
50122393 TAAATTTAAAA
1 CAAATTTAAAA
*
50122404 TAAATTTAAA
1 CAAATTTAAA
50122414 TTTAAAATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (11 bp):
CAAATTTAAAA
Found at i:50122391 original size:17 final size:18
Alignment explanation
Indices: 50122388--50122430 Score: 72
Period size: 17 Copynumber: 2.5 Consensus size: 18
50122378 AAACAAATTT
50122388 AAATTTAAATTTAAAAT-
1 AAATTTAAATTTAAAATC
50122405 AAATTTAAATTTAAAATC
1 AAATTTAAATTTAAAATC
50122423 -AATTTAAA
1 AAATTTAAA
50122431 CCAAACATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTTAAATTTAAAATC
Found at i:50122393 original size:6 final size:6
Alignment explanation
Indices: 50122382--50122419 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
50122372 AATTTAAAAC
*
50122382 AAATTT AAATTT AAATTT AAA-AT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAA
50122420 ATCAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
AAATTT
Found at i:50122397 original size:23 final size:23
Alignment explanation
Indices: 50122366--50122419 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
50122356 GTTTAAAATT
50122366 ATTTCAAATTTAAAACAAATTTAA
1 ATTT-AAATTTAAAACAAATTTAA
*
50122390 ATTTAAATTTAAAATAAATTTAA
1 ATTTAAATTTAAAACAAATTTAA
50122413 ATTTAAA
1 ATTTAAA
50122420 ATCAATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
ATTTAAATTTAAAACAAATTTAA
Found at i:50122427 original size:28 final size:28
Alignment explanation
Indices: 50122395--50122448 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
50122385 TTTAAATTTA
* **
50122395 AATTTAAAATAAATTTAAATTTAAAATC
1 AATTTAAAACAAACATAAATTTAAAATC
*
50122423 AATTTAAACCAAACATAAATTTAAAA
1 AATTTAAAACAAACATAAATTTAAAA
50122449 GTTGTCCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (28 bp):
AATTTAAAACAAACATAAATTTAAAATC
Found at i:50123228 original size:205 final size:204
Alignment explanation
Indices: 50122840--50123279 Score: 738
Period size: 206 Copynumber: 2.2 Consensus size: 204
50122830 GATTTCACAA
* * *
50122840 GAAGACGGATTTGGTTCACTTCTCTGTATCTCATCAGGAAGCTAGCCACTTTATTGCTTCGACCT
1 GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCT
* * *
50122905 ACTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGATTTGCTCACATTGAGCCTGGGTTTTAT
66 ACTTCTCAGTATCTCATCAGGAAGCTGGGGCTCAAAGATTTGCTCACATTGAGCCTGGGTTTGAT
*
50122970 TTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCTTCTCTA
131 TTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTATTTCAATTCGC-T-TCTA
50123035 TGTCTCATCAG
194 TGTCTCATCAG
*
50123046 GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCT
1 GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCT
* *
50123111 GCTTCTCAGTGTCTCATCAGGAAGCTGGGGCTCAAAGATTTGCTCACATTGAGCCT-GGTTTGAT
66 ACTTCTCAGTATCTCATCAGGAAGCTGGGGCTCAAAGATTTGCTCACATTGAGCCTGGGTTTGAT
* *
50123175 TTGGTCTTCTTCTTAGTGTCTCATCAGGAAGATGACCGCATCACTTATTTCAATTCGCTTCTGTG
131 TTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTATTTCAATTCGCTTCTATG
50123240 TCTCATCAG
196 TCTCATCAG
*
50123249 GAAGACAAATTTGGTCCACTTCTCTGTATCT
1 GAAGACGAATTTGGTCCACTTCTCTGTATCT
50123280 TATTTCTAAA
Statistics
Matches: 221, Mismatches: 13, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
203 44 0.20
204 1 0.00
205 63 0.29
206 113 0.51
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (204 bp):
GAAGACGAATTTGGTCCACTTCTCTGTATCTCATCAGGAAGCTAACCACTTTATTGCTTCGACCT
ACTTCTCAGTATCTCATCAGGAAGCTGGGGCTCAAAGATTTGCTCACATTGAGCCTGGGTTTGAT
TTGGTCTTCTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTATTTCAATTCGCTTCTATG
TCTCATCAG
Found at i:50131234 original size:22 final size:20
Alignment explanation
Indices: 50131209--50131253 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 20
50131199 AATTCCTTGC
50131209 ATTGCCTGTATTTTCTCCTCTA
1 ATTGCCTGTATTTT-TCCTC-A
50131231 ATTGCCTGTATTTTTCCTCA
1 ATTGCCTGTATTTTTCCTCA
50131251 ATT
1 ATT
50131254 TGTCTAGGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 4 0.17
21 5 0.22
22 14 0.61
ACGTcount: A:0.16, C:0.24, G:0.09, T:0.51
Consensus pattern (20 bp):
ATTGCCTGTATTTTTCCTCA
Found at i:50135711 original size:28 final size:28
Alignment explanation
Indices: 50135680--50135772 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
50135670 TAAAAATGAC
*
50135680 ATTTTTGACATTCGGGGGCAAAACGGTA
1 ATTTTTGACAATCGGGGGCAAAACGGTA
* ** *
50135708 ATTTTTAGAAAAATCGGGATCAAAAACTG-A
1 ATTTTT-G-ACAATCGGGGGC-AAAACGGTA
* * *
50135738 ATTTTAGACAATCGAGGGCAAAATGGTA
1 ATTTTTGACAATCGGGGGCAAAACGGTA
50135766 ATTTTTG
1 ATTTTTG
50135773 CAAGTTTCAA
Statistics
Matches: 48, Mismatches: 13, Indels: 8
0.70 0.19 0.12
Matches are distributed among these distances:
27 5 0.10
28 21 0.44
29 2 0.04
30 14 0.29
31 6 0.12
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.30
Consensus pattern (28 bp):
ATTTTTGACAATCGGGGGCAAAACGGTA
Found at i:50135742 original size:58 final size:59
Alignment explanation
Indices: 50135632--50135771 Score: 169
Period size: 58 Copynumber: 2.4 Consensus size: 59
50135622 TTTTGGACTC
* * * * * *
50135632 TCGAGGGCAAAAATGGTAA-TTTTGGAAAAATTTGGGGTTAAAAATGACATTTTTGACAT
1 TCGAGGGC-AAAATGGTAATTTTTAGAAAAATTCGGGATCAAAAATGACATTTTAGACAA
* *
50135691 TCGGGGGCAAAACGGTAATTTTTAGAAAAA-TCGGGATCAAAAACTGA-ATTTTAGACAA
1 TCGAGGGCAAAATGGTAATTTTTAGAAAAATTCGGGATCAAAAA-TGACATTTTAGACAA
50135749 TCGAGGGCAAAATGGTAATTTTT
1 TCGAGGGCAAAATGGTAATTTTT
50135772 GCAAGTTTCA
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
58 49 0.71
59 20 0.29
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (59 bp):
TCGAGGGCAAAATGGTAATTTTTAGAAAAATTCGGGATCAAAAATGACATTTTAGACAA
Found at i:50135878 original size:58 final size:57
Alignment explanation
Indices: 50135753--50135899 Score: 197
Period size: 58 Copynumber: 2.5 Consensus size: 57
50135743 AGACAATCGA
* ** *
50135753 GGGCAAAATGGTAATTTTTGCAAGTTTCAAGGTCAAAAGTGGAATTTTTGAAAGTTCAG
1 GGGCAAAAT-GTAATTTTTGGAAGTTTCGGGGTAAAAAGT-GAATTTTTGAAAGTTCAG
* *
50135812 GGGTAAAATGTAATTTTTGGAAGTTTCGGGGTTAAAAAGT-AATTTTTGAAAGTTTAG
1 GGGCAAAATGTAATTTTTGGAAGTTTCGGGG-TAAAAAGTGAATTTTTGAAAGTTCAG
50135869 GGGCAAAAATGTAATTTTTGGAAGTTTCGGG
1 GGGC-AAAATGTAATTTTTGGAAGTTTCGGG
50135900 ACTTCCAAGG
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
57 19 0.24
58 45 0.57
59 15 0.19
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (57 bp):
GGGCAAAATGTAATTTTTGGAAGTTTCGGGGTAAAAAGTGAATTTTTGAAAGTTCAG
Found at i:50135895 original size:29 final size:29
Alignment explanation
Indices: 50135753--50135895 Score: 139
Period size: 29 Copynumber: 4.9 Consensus size: 29
50135743 AGACAATCGA
* *
50135753 GGGC-AAAATGGTAATTTTTGCAAGTTTCAA
1 GGGCAAAAAT-GTAATTTTTGAAAGTTT-AG
* * * *
50135783 GGTCAAAAGTGGAATTTTTGAAAGTTCAG
1 GGGCAAAAATGTAATTTTTGAAAGTTTAG
* * *
50135812 GGG-TAAAATGTAATTTTTGGAAGTTTCG
1 GGGCAAAAATGTAATTTTTGAAAGTTTAG
*
50135840 GGGTTAAAAA-GTAATTTTTGAAAGTTTAG
1 GGG-CAAAAATGTAATTTTTGAAAGTTTAG
*
50135869 GGGCAAAAATGTAATTTTTGGAAGTTT
1 GGGCAAAAATGTAATTTTTGAAAGTTT
50135896 CGGGACTTCC
Statistics
Matches: 91, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
28 27 0.30
29 39 0.43
30 21 0.23
31 4 0.04
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.36
Consensus pattern (29 bp):
GGGCAAAAATGTAATTTTTGAAAGTTTAG
Found at i:50137724 original size:12 final size:11
Alignment explanation
Indices: 50137696--50137750 Score: 65
Period size: 11 Copynumber: 4.8 Consensus size: 11
50137686 AAATTATTTC
*
50137696 AAATTTAAAAC
1 AAATTTAAAAT
*
50137707 AAATTTAAATTT
1 AAATTTAAA-AT
50137719 AAATTTATAAAT
1 AAATTTA-AAAT
50137731 AAATTTAAAAT
1 AAATTTAAAAT
*
50137742 CAATTTAAA
1 AAATTTAAA
50137751 CCAAACATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 21 0.55
12 15 0.39
13 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATTTAAAAT
Found at i:50137734 original size:24 final size:24
Alignment explanation
Indices: 50137691--50137764 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
50137681 GTTTAAAATT
50137691 ATTTCAAATTTAAAACAAATTTAA
1 ATTTCAAATTTAAAACAAATTTAA
*
50137715 ATTT-AAATTTATAAATAAATTTAA
1 ATTTCAAATTTA-AAACAAATTTAA
* * **
50137739 A-ATC-AATTTAAACCAAACATAA
1 ATTTCAAATTTAAAACAAATTTAA
50137761 ATTT
1 ATTT
50137765 AAAAGTTGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
22 9 0.22
23 15 0.38
24 16 0.40
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTTCAAATTTAAAACAAATTTAA
Found at i:50141705 original size:25 final size:23
Alignment explanation
Indices: 50141677--50141722 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
50141667 GTTGGATCCA
50141677 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
50141702 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
50141723 CCCTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Done.